2023
Varghese, Jeena; Mohammadi, Reza; Pochylski, Mikołaj; Babacic, Visnja; Gapiński, Jacek; Vogel, Nicolas; Butt, Hans-Juergen; Fytas, George; Graczykowski, Bartłomiej
Size-dependent nanoscale soldering of polystyrene colloidal crystals by supercritical fluids Journal Article
In: Journal of Colloid and Interface Science, vol. 633, pp. 314–322, 2023.
@article{Varghese2023,
title = {Size-dependent nanoscale soldering of polystyrene colloidal crystals by supercritical fluids},
author = {Jeena Varghese and Reza Mohammadi and Mikołaj Pochylski and Visnja Babacic and Jacek Gapiński and Nicolas Vogel and Hans-Juergen Butt and George Fytas and Bartłomiej Graczykowski},
url = {https://authors.elsevier.com/c/1gA9Z4-sDXVRI},
doi = {10.1016/j.jcis.2022.11.090},
year = {2023},
date = {2023-03-01},
urldate = {2023-03-01},
journal = {Journal of Colloid and Interface Science},
volume = {633},
pages = {314--322},
publisher = {Elsevier BV},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Sarbak, Szymon; Sharma, Gargi; Joseph, Cecil S.; Kucia, Weronika E.; Dobek, Krzysztof; Giles, Robert H.; Dobek, Andrzej
Expression of Concern: Direct observation of the THz Kerr effect (TKE) in deionized, distilled and buffered (PBS) water Journal Article
In: Physical Chemistry Chemical Physics, vol. 25, no. 4, pp. 3547–3550, 2023.
@article{Sarbak2023,
title = {Expression of Concern: Direct observation of the THz Kerr effect (TKE) in deionized, distilled and buffered (PBS) water},
author = {Szymon Sarbak and Gargi Sharma and Cecil S. Joseph and Weronika E. Kucia and Krzysztof Dobek and Robert H. Giles and Andrzej Dobek},
url = {https://doi.org/10.1039/d2cp90241a},
doi = {10.1039/d2cp90241a},
year = {2023},
date = {2023-01-01},
journal = {Physical Chemistry Chemical Physics},
volume = {25},
number = {4},
pages = {3547--3550},
publisher = {Royal Society of Chemistry (RSC)},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2022
Vasileiadis, Thomas; Noual, Adnane; Wang, Yuchen; Graczykowski, Bartłomiej; Djafari-Rouhani, Bahram; Yang, Shu; Fytas, George
Optomechanical Hot-Spots in Metallic Nanorod–Polymer Nanocomposites Journal Article
In: ACS Nano, vol. 16, no. 12, pp. 20419–20429, 2022.
@article{Vasileiadis2022,
title = {Optomechanical Hot-Spots in Metallic Nanorod–Polymer Nanocomposites},
author = {Thomas Vasileiadis and Adnane Noual and Yuchen Wang and Bartłomiej Graczykowski and Bahram Djafari-Rouhani and Shu Yang and George Fytas},
url = {https://doi.org/10.1021/acsnano.2c06673},
doi = {10.1021/acsnano.2c06673},
year = {2022},
date = {2022-12-01},
journal = {ACS Nano},
volume = {16},
number = {12},
pages = {20419--20429},
publisher = {American Chemical Society (ACS)},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Piernik, Maciej; Brzezinski, Dariusz; Sztromwasser, Pawel; Pacewicz, Klaudia; Majer-Burman, Weronika; Gniot, Michal; Sielski, Dawid; Bryzghalov, Oleksii; Wozna, Alicja; Zawadzki, Paweł
DBFE: distribution-based feature extraction from structural variants in whole-genome data Journal Article
In: Bioinformatics, vol. 38, no. 19, pp. 4466–4473, 2022.
@article{Piernik2022,
title = {DBFE: distribution-based feature extraction from structural variants in whole-genome data},
author = {Maciej Piernik and Dariusz Brzezinski and Pawel Sztromwasser and Klaudia Pacewicz and Weronika Majer-Burman and Michal Gniot and Dawid Sielski and Oleksii Bryzghalov and Alicja Wozna and Paweł Zawadzki},
editor = {Pier Luigi Martelli},
url = {https://doi.org/10.1093/bioinformatics/btac513},
doi = {10.1093/bioinformatics/btac513},
year = {2022},
date = {2022-08-01},
journal = {Bioinformatics},
volume = {38},
number = {19},
pages = {4466--4473},
publisher = {Oxford University Press (OUP)},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Szewczyk, Jakub; Pochylski, Mikołaj; Szutkowski, Kosma; Kempiński, Mateusz; Mrówczyński, Radosław; Iatsunskyi, Igor; Gapiński, Jacek; Coy, Emerson
In-situ thickness control of centimetre-scale 2D-Like polydopamine films with large scalability Journal Article
In: Materials Today Chemistry, vol. 24, pp. 100935, 2022.
@article{Szewczyk2022,
title = {In-situ thickness control of centimetre-scale 2D-Like polydopamine films with large scalability},
author = {Jakub Szewczyk and Mikołaj Pochylski and Kosma Szutkowski and Mateusz Kempiński and Radosław Mrówczyński and Igor Iatsunskyi and Jacek Gapiński and Emerson Coy},
url = {https://doi.org/10.1016/j.mtchem.2022.100935},
doi = {10.1016/j.mtchem.2022.100935},
year = {2022},
date = {2022-06-01},
urldate = {2022-06-01},
journal = {Materials Today Chemistry},
volume = {24},
pages = {100935},
publisher = {Elsevier BV},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ciężar, Kamila; Pochylski, Mikołaj
2D Short-Time Fourier Transform for local morphological analysis of meibomian gland images Journal Article
In: PLOS ONE, vol. 17, no. 6, pp. e0270473, 2022.
@article{Ciar2022,
title = {2D Short-Time Fourier Transform for local morphological analysis of meibomian gland images},
author = {Kamila Ciężar and Mikołaj Pochylski},
editor = {Michele Madigan},
url = {https://doi.org/10.1371/journal.pone.0270473},
doi = {10.1371/journal.pone.0270473},
year = {2022},
date = {2022-06-01},
urldate = {2022-06-01},
journal = {PLOS ONE},
volume = {17},
number = {6},
pages = {e0270473},
publisher = {Public Library of Science (PLoS)},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Szewczyk, J.; Pochylski, M.; Szutkowski, K.; Kempiński, M.; Mrówczyński, R.; Iatsunskyi, I.; Gapiński, J.; Coy, E.
In-situ thickness control of centimetre-scale 2D-Like polydopamine films with large scalability Journal Article
In: Materials Today Chemistry, vol. 24, pp. 100935, 2022.
@article{Szewczyk2022c,
title = {In-situ thickness control of centimetre-scale 2D-Like polydopamine films with large scalability},
author = {J. Szewczyk and M. Pochylski and K. Szutkowski and M. Kempiński and R. Mrówczyński and I. Iatsunskyi and J. Gapiński and E. Coy},
url = {https://doi.org/10.1016/j.mtchem.2022.100935},
doi = {10.1016/j.mtchem.2022.100935},
year = {2022},
date = {2022-06-01},
journal = {Materials Today Chemistry},
volume = {24},
pages = {100935},
publisher = {Elsevier BV},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Vasileiadis, Thomas; Reparaz, Juan Sebastian; Graczykowski, Bartłomiej
Phonon transport in the gigahertz to terahertz range: Confinement, topology, and second sound Journal Article
In: Journal of Applied Physics, vol. 131, no. 18, pp. 180901, 2022.
@article{Vasileiadis2022b,
title = {Phonon transport in the gigahertz to terahertz range: Confinement, topology, and second sound},
author = {Thomas Vasileiadis and Juan Sebastian Reparaz and Bartłomiej Graczykowski},
url = {https://doi.org/10.1063/5.0073508},
doi = {10.1063/5.0073508},
year = {2022},
date = {2022-05-01},
journal = {Journal of Applied Physics},
volume = {131},
number = {18},
pages = {180901},
publisher = {AIP Publishing},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Majer-Burman, W.; Pacewicz, K.; Meler, M.; Gniot, M.; Sielski, D.; Piernik, M.; Sztromwasser, P.; Wozna, A.; Zawadzki, P.
15P Integration of whole genome data with machine learning technology in breast cancer subtyping Journal Article
In: Annals of Oncology, vol. 33, pp. S130, 2022.
@article{MajerBurman2022,
title = {15P Integration of whole genome data with machine learning technology in breast cancer subtyping},
author = {W. Majer-Burman and K. Pacewicz and M. Meler and M. Gniot and D. Sielski and M. Piernik and P. Sztromwasser and A. Wozna and P. Zawadzki},
url = {https://doi.org/10.1016/j.annonc.2022.03.030},
doi = {10.1016/j.annonc.2022.03.030},
year = {2022},
date = {2022-05-01},
journal = {Annals of Oncology},
volume = {33},
pages = {S130},
publisher = {Elsevier BV},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kaja, Elżbieta; Lejman, Adrian; Sielski, Dawid; Sypniewski, Mateusz; Gambin, Tomasz; Dawidziuk, Mateusz; Suchocki, Tomasz; Golik, Paweł; Wojtaszewska, Marzena; Mroczek, Magdalena; Stępień, Maria; Szyda, Joanna; Lisiak-Teodorczyk, Karolina; Wolbach, Filip; Kołodziejska, Daria; Ferdyn, Katarzyna; Dąbrowski, Maciej; Woźna, Alicja; Żytkiewicz, Marcin; Bodora-Troińska, Anna; Elikowski, Waldemar; Król, Zbigniew J.; Zaczyński, Artur; Pawlak, Agnieszka; Gil, Robert; Wierzba, Waldemar; Dobosz, Paula; Zawadzka, Katarzyna; Zawadzki, Paweł; Sztromwasser, Paweł
The Thousand Polish Genomes—A Database of Polish Variant Allele Frequencies Journal Article
In: International Journal of Molecular Sciences, vol. 23, no. 9, pp. 4532, 2022.
@article{Kaja2022,
title = {The Thousand Polish Genomes—A Database of Polish Variant Allele Frequencies},
author = {Elżbieta Kaja and Adrian Lejman and Dawid Sielski and Mateusz Sypniewski and Tomasz Gambin and Mateusz Dawidziuk and Tomasz Suchocki and Paweł Golik and Marzena Wojtaszewska and Magdalena Mroczek and Maria Stępień and Joanna Szyda and Karolina Lisiak-Teodorczyk and Filip Wolbach and Daria Kołodziejska and Katarzyna Ferdyn and Maciej Dąbrowski and Alicja Woźna and Marcin Żytkiewicz and Anna Bodora-Troińska and Waldemar Elikowski and Zbigniew J. Król and Artur Zaczyński and Agnieszka Pawlak and Robert Gil and Waldemar Wierzba and Paula Dobosz and Katarzyna Zawadzka and Paweł Zawadzki and Paweł Sztromwasser},
url = {https://doi.org/10.3390/ijms23094532},
doi = {10.3390/ijms23094532},
year = {2022},
date = {2022-04-01},
journal = {International Journal of Molecular Sciences},
volume = {23},
number = {9},
pages = {4532},
publisher = {MDPI AG},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Szewczyk, Sebastian; Goyal, Alice; Abram, Mateusz; Burdziński, Gotard; Kargul, Joanna; Gibasiewicz, Krzysztof
Electron Transfer in a Bio-Photoelectrode Based on Photosystem I Multilayer Immobilized on the Conducting Glass Journal Article
In: International Journal of Molecular Sciences, vol. 23, no. 9, pp. 4774, 2022.
@article{Szewczyk2022b,
title = {Electron Transfer in a Bio-Photoelectrode Based on Photosystem I Multilayer Immobilized on the Conducting Glass},
author = {Sebastian Szewczyk and Alice Goyal and Mateusz Abram and Gotard Burdziński and Joanna Kargul and Krzysztof Gibasiewicz},
url = {https://doi.org/10.3390/ijms23094774},
doi = {10.3390/ijms23094774},
year = {2022},
date = {2022-04-01},
journal = {International Journal of Molecular Sciences},
volume = {23},
number = {9},
pages = {4774},
publisher = {MDPI AG},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Goyal, Alice; Szewczyk, Sebastian; Burdziński, Gotard; Abram, Mateusz; Kargul, Joanna; Gibasiewicz, Krzysztof
Competition between intra-protein charge recombination and electron transfer outside photosystem I complexes used for photovoltaic applications Journal Article
In: Photochemical &$mathsemicolon$ Photobiological Sciences, vol. 21, no. 3, pp. 319–336, 2022.
@article{Goyal2022,
title = {Competition between intra-protein charge recombination and electron transfer outside photosystem I complexes used for photovoltaic applications},
author = {Alice Goyal and Sebastian Szewczyk and Gotard Burdziński and Mateusz Abram and Joanna Kargul and Krzysztof Gibasiewicz},
url = {https://doi.org/10.1007/s43630-022-00170-x},
doi = {10.1007/s43630-022-00170-x},
year = {2022},
date = {2022-02-01},
journal = {Photochemical &$mathsemicolon$ Photobiological Sciences},
volume = {21},
number = {3},
pages = {319--336},
publisher = {Springer Science and Business Media LLC},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Vasileiadis, Thomas; DÁlvise, Tommaso Marchesi; Saak, Clara-Magdalena; Pochylski, Mikołaj; Harvey, Sean; Synatschke, Christopher V.; Gapiński, Jacek; Fytas, George; Backus, Ellen H. G.; Weil, Tanja; Graczykowski, Bartłomiej
Fast Light-Driven Motion of Polydopamine Nanomembranes Journal Article
In: Nano Letters, vol. 22, no. 2, pp. 578–585, 2022.
@article{Vasileiadis2021b,
title = {Fast Light-Driven Motion of Polydopamine Nanomembranes},
author = {Thomas Vasileiadis and Tommaso Marchesi DÁlvise and Clara-Magdalena Saak and Mikołaj Pochylski and Sean Harvey and Christopher V. Synatschke and Jacek Gapiński and George Fytas and Ellen H. G. Backus and Tanja Weil and Bartłomiej Graczykowski},
url = {https://doi.org/10.1021/acs.nanolett.1c03165},
doi = {10.1021/acs.nanolett.1c03165},
year = {2022},
date = {2022-01-01},
journal = {Nano Letters},
volume = {22},
number = {2},
pages = {578--585},
publisher = {American Chemical Society (ACS)},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Varghese, Jeena; Gapiński, Jacek; Pochylski, Mikołaj
Brillouin spectroscopy: probing the acoustic vibrations in colloidal nanoparticles Incollection
In: Design, Fabrication, and Characterization of Multifunctional Nanomaterials, pp. 45–72, Elsevier, 2022.
@incollection{Varghese2022,
title = {Brillouin spectroscopy: probing the acoustic vibrations in colloidal nanoparticles},
author = {Jeena Varghese and Jacek Gapiński and Mikołaj Pochylski},
url = {https://doi.org/10.1016/b978-0-12-820558-7.00010-8},
doi = {10.1016/b978-0-12-820558-7.00010-8},
year = {2022},
date = {2022-01-01},
urldate = {2022-01-01},
booktitle = {Design, Fabrication, and Characterization of Multifunctional Nanomaterials},
pages = {45--72},
publisher = {Elsevier},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
Markiewicz, Roksana; Litowczenko, Jagoda; Gapiński, Jacek; Woźniak, Anna; Jurga, Stefan; Patkowski, Adam
Nanomolar Nitric Oxide Concentrations in Living Cells Measured by Means of Fluorescence Correlation Spectroscopy Journal Article
In: Molecules, vol. 27, no. 3, 2022, ISSN: 1420-3049.
@article{molecules27031010,
title = {Nanomolar Nitric Oxide Concentrations in Living Cells Measured by Means of Fluorescence Correlation Spectroscopy},
author = {Roksana Markiewicz and Jagoda Litowczenko and Jacek Gapiński and Anna Woźniak and Stefan Jurga and Adam Patkowski},
url = {https://www.mdpi.com/1420-3049/27/3/1010},
doi = {10.3390/molecules27031010},
issn = {1420-3049},
year = {2022},
date = {2022-01-01},
urldate = {2022-01-01},
journal = {Molecules},
volume = {27},
number = {3},
abstract = {Measurement of the nitric oxide (NO) concentration in living cells in the physiological nanomolar range is crucial in understanding NO biochemical functions, as well as in characterizing the efficiency and kinetics of NO delivery by NO-releasing drugs. Here, we show that fluorescence correlation spectroscopy (FCS) is perfectly suited for these purposes, due to its sensitivity, selectivity, and spatial resolution. Using the fluorescent indicators, diaminofluoresceins (DAFs), and FCS, we measured the NO concentrations in NO-producing living human primary endothelial cells, as well as NO delivery kinetics, by an external NO donor to the immortal human epithelial living cells. Due to the high spatial resolution of FCS, the NO concentration in different parts of the cells were also measured. The detection of nitric oxide by means of diaminofluoresceins is much more efficient and faster in living cells than in PBS solutions, even though the conversion to the fluorescent form is a multi-step reaction.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2021
Richter, Łukasz; Księżarczyk, Karolina; Paszkowska, Karolina; Janczuk-Richter, Marta; Niedziółka-Jönsson, Joanna; Gapiński, Jacek; Łoś, Marcin; Hołyst, Robert; Paczesny, Jan
Adsorption of bacteriophages on polypropylene labware affects the reproducibility of phage research Journal Article
In: Scientific Reports, vol. 11, no. 1, pp. 7387, 2021, ISSN: 20452322.
@article{Richter2021,
title = {Adsorption of bacteriophages on polypropylene labware affects the reproducibility of phage research},
author = {Łukasz Richter and Karolina Księżarczyk and Karolina Paszkowska and Marta Janczuk-Richter and Joanna Niedziółka-Jönsson and Jacek Gapiński and Marcin Łoś and Robert Hołyst and Jan Paczesny},
url = {https://www.nature.com/articles/s41598-021-86571-x},
doi = {10.1038/s41598-021-86571-x},
issn = {20452322},
year = {2021},
date = {2021-12-01},
journal = {Scientific Reports},
volume = {11},
number = {1},
pages = {7387},
publisher = {Nature Research},
abstract = {Hydrophobicity is one of the most critical factors governing the adsorption of molecules and objects, such as virions, on surfaces. Even moderate change of wetting angle of plastic surfaces causes a drastic decrease ranging from 2 to 5 logs of the viruses (e.g., T4 phage) in the suspension due to adsorption on polymer vials' walls. The effect varies immensely in seemingly identical containers but purchased from different vendors. Comparison of glass, polyethylene, polypropylene, and polystyrene containers revealed a threshold in the wetting angle of around 95°: virions adsorb on the surface of more hydrophobic containers, while in more hydrophilic vials, phage suspensions are stable. The polypropylene surface of the Eppendorf-type and Falcon-type can accommodate from around 108 PFU/ml to around 1010 PFU/ml from the suspension. The adsorption onto the container's wall might result in complete scavenging of virions from the bulk. We developed two methods to overcome this issue. The addition of surfactant Tween20 and/or plasma treatment provides a remedy by modulating surface wettability and inhibiting virions' adsorption. Plastic containers are essential consumables in the daily use of many bio-laboratories. Thus, this is important not only for phage-related research (e.g., the use of phage therapies as an alternative for antibiotics) but also for data comparison and reproducibility in the field of biochemistry and virology.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Navarro-Urrios, Daniel; Kang, E; Xiao, P; Colombano, M F; Arregui, G; Graczykowski, Bartłomiej; Capuj, N E; Sledzinska, M; Sotomayor-Torres, C M; Fytas, G
Optomechanical crystals for spatial sensing of submicron sized particles Journal Article
In: Scientific Reports, vol. 11, no. 1, pp. 7829, 2021, ISSN: 2045-2322.
@article{Navarro-Urrios2020,
title = {Optomechanical crystals for spatial sensing of submicron sized particles},
author = {Daniel Navarro-Urrios and E Kang and P Xiao and M F Colombano and G Arregui and Bartłomiej Graczykowski and N E Capuj and M Sledzinska and C M Sotomayor-Torres and G Fytas},
url = {https://doi.org/10.1038/s41598-021-87558-4 http://www.nature.com/articles/s41598-021-87558-4},
doi = {10.1038/s41598-021-87558-4},
issn = {2045-2322},
year = {2021},
date = {2021-12-01},
journal = {Scientific Reports},
volume = {11},
number = {1},
pages = {7829},
publisher = {Nature Publishing Group UK},
abstract = {Optomechanical crystal cavities (OMC) have rich perspectives for detecting and indirectly analysing biological particles, such as proteins, bacteria and viruses. In this work we demonstrate the working principle of OMCs operating under ambient conditions as a sensor of submicrometer particles by optically monitoring the frequency shift of thermally activated mechanical modes. The resonator has been specifically designed so that the cavity region supports a particular family of low modal-volume mechanical modes, commonly known as -pinch modes-. These involve the oscillation of only a couple of adjacent cavity cells that are relatively insensitive to perturbations in other parts of the resonator. The eigenfrequency of these modes decreases as the deformation is localized closer to the centre of the resonator. Thus, by identifying specific modes that undergo a frequency shift that amply exceeds the mechanical linewidth, it is possible to infer if there are particles deposited on the resonator, how many are there and their approximate position within the cavity region. OMCs have rich perspectives for detecting and indirectly analysing biological particles, such as proteins, viruses and bacteria.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Zajaczkowska, Hanna; Veith, Lothar; Waliszewski, Witold; Bartkiewicz, Malgorzata A.; Borkowski, Michal; Sleczkowski, Piotr; Ulanski, Jacek; Graczykowski, Bartlomiej; Blom, Paul W. M.; Pisula, Wojciech; Marszalek, Tomasz
Self-Aligned Bilayers for Flexible Free-Standing Organic Field-Effect Transistors Journal Article
In: ACS Applied Materials &$mathsemicolon$ Interfaces, vol. 13, no. 49, pp. 59012–59022, 2021.
@article{Zajaczkowska2021,
title = {Self-Aligned Bilayers for Flexible Free-Standing Organic Field-Effect Transistors},
author = {Hanna Zajaczkowska and Lothar Veith and Witold Waliszewski and Malgorzata A. Bartkiewicz and Michal Borkowski and Piotr Sleczkowski and Jacek Ulanski and Bartlomiej Graczykowski and Paul W. M. Blom and Wojciech Pisula and Tomasz Marszalek},
url = {https://doi.org/10.1021/acsami.1c15208},
doi = {10.1021/acsami.1c15208},
year = {2021},
date = {2021-12-01},
journal = {ACS Applied Materials &$mathsemicolon$ Interfaces},
volume = {13},
number = {49},
pages = {59012--59022},
publisher = {American Chemical Society (ACS)},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Zajaczkowska, Hanna; Veith, Lothar; Waliszewski, Witold; Bartkiewicz, Malgorzata A.; Borkowski, Michal; Sleczkowski, Piotr; Ulanski, Jacek; Graczykowski, Bartłomiej; Blom, Paul W. M.; Pisula, Wojciech; Marszalek, Tomasz
Self-Aligned Bilayers for Flexible Free-Standing Organic Field-Effect Transistors Journal Article
In: ACS Applied Materials &$mathsemicolon$ Interfaces, vol. 13, no. 49, pp. 59012–59022, 2021.
@article{Zajaczkowska2021b,
title = {Self-Aligned Bilayers for Flexible Free-Standing Organic Field-Effect Transistors},
author = {Hanna Zajaczkowska and Lothar Veith and Witold Waliszewski and Malgorzata A. Bartkiewicz and Michal Borkowski and Piotr Sleczkowski and Jacek Ulanski and Bartłomiej Graczykowski and Paul W. M. Blom and Wojciech Pisula and Tomasz Marszalek},
url = {https://doi.org/10.1021/acsami.1c15208},
doi = {10.1021/acsami.1c15208},
year = {2021},
date = {2021-12-01},
journal = {ACS Applied Materials &$mathsemicolon$ Interfaces},
volume = {13},
number = {49},
pages = {59012--59022},
publisher = {American Chemical Society (ACS)},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Wojtaszewska, Marzena; Stępień, Rafał; Woźna, Alicja; Piernik, Maciej; Sztromwasser, Pawel; Dąbrowski, Maciej; Gniot, Michał; Szymański, Sławomir; Socha, Maciej; Kasprzak, Piotr; Matkowski, Rafał; Zawadzki, Paweł
Validation of HER2 Status in Whole Genome Sequencing Data of Breast Cancers with the Ploidy-Corrected Copy Number Approach Journal Article
In: Molecular Diagnosis &$mathsemicolon$ Therapy, vol. 26, no. 1, pp. 105–116, 2021.
@article{Wojtaszewska2021,
title = {Validation of HER2 Status in Whole Genome Sequencing Data of Breast Cancers with the Ploidy-Corrected Copy Number Approach},
author = {Marzena Wojtaszewska and Rafał Stępień and Alicja Woźna and Maciej Piernik and Pawel Sztromwasser and Maciej Dąbrowski and Michał Gniot and Sławomir Szymański and Maciej Socha and Piotr Kasprzak and Rafał Matkowski and Paweł Zawadzki},
url = {https://doi.org/10.1007/s40291-021-00571-1},
doi = {10.1007/s40291-021-00571-1},
year = {2021},
date = {2021-12-01},
journal = {Molecular Diagnosis &$mathsemicolon$ Therapy},
volume = {26},
number = {1},
pages = {105--116},
publisher = {Springer Science and Business Media LLC},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Bastard, Paul; Zawadzki, Paweł
Autoantibodies neutralizing type I IFNs are present in ~4% of uninfected individuals over 70 years old and account for ~20% of COVID-19 deaths Journal Article
In: Science Immunology, vol. 6, no. 62, pp. 1-26, 2021.
@article{Zawadzi_2021,
title = {Autoantibodies neutralizing type I IFNs are present in ~4% of uninfected individuals over 70 years old and account for ~20% of COVID-19 deaths},
author = {Paul Bastard and Paweł Zawadzki},
url = {https://doi.org/10.1126/sciimmunol.abl4340},
doi = {10.1126/sciimmunol.abl4340},
year = {2021},
date = {2021-08-01},
journal = {Science Immunology},
volume = {6},
number = {62},
pages = {1-26},
publisher = {science group},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Babacic, Visnja; Reig, David Saleta; Varghese, Sebin; Vasileiadis, Thomas; Coy, Emerson; Tielrooij, Klaas-Jan; Graczykowski, Bartłomiej
Thickness-Dependent Elastic Softening of Few-Layer Free-Standing MoSe $łess$sub$greater$2$łess$/sub$greater$ Journal Article
In: Advanced Materials, vol. 33, no. 23, pp. 2008614, 2021.
@article{Babacic2021,
title = {Thickness-Dependent Elastic Softening of Few-Layer Free-Standing MoSe
$łess$sub$greater$2$łess$/sub$greater$},
author = {Visnja Babacic and David Saleta Reig and Sebin Varghese and Thomas Vasileiadis and Emerson Coy and Klaas-Jan Tielrooij and Bartłomiej Graczykowski},
url = {https://doi.org/10.1002/adma.202008614},
doi = {10.1002/adma.202008614},
year = {2021},
date = {2021-05-01},
journal = {Advanced Materials},
volume = {33},
number = {23},
pages = {2008614},
publisher = {Wiley},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Sławski, Jakub; Białek, Rafał; Burdziński, Gotard; Gibasiewicz, Krzysztof; Worch, Remigiusz; Grzyb, Joanna
Competition between Photoinduced Electron Transfer and Resonance Energy Transfer in an Example of Substituted Cytochrome c–Quantum Dot Systems Journal Article
In: The Journal of Physical Chemistry B, vol. 125, no. 13, pp. 3307–3320, 2021, ISSN: 1520-6106.
@article{Sawski2021,
title = {Competition between Photoinduced Electron Transfer and Resonance Energy Transfer in an Example of Substituted Cytochrome c–Quantum Dot Systems},
author = {Jakub Sławski and Rafał Białek and Gotard Burdziński and Krzysztof Gibasiewicz and Remigiusz Worch and Joanna Grzyb},
url = {https://doi.org/10.1021/acs.jpcb.1c00325},
doi = {10.1021/acs.jpcb.1c00325},
issn = {1520-6106},
year = {2021},
date = {2021-04-01},
journal = {The Journal of Physical Chemistry B},
volume = {125},
number = {13},
pages = {3307--3320},
publisher = {American Chemical Society (ACS)},
abstract = {Colloidal quantum dots (QDs) are nanoparticles that are able to photoreduce redox proteins by electron transfer (ET). QDs are also able to transfer energy by resonance energy transfer (RET). Here, we address the question of the competition between these two routes of QDs' excitation quenching, using cadmium telluride QDs and cytochrome c (CytC) or its metal-substituted derivatives. We used both oxidized and reduced versions of native CytC, as well as fluorescent, nonreducible Zn(II)CytC, Sn(II)CytC, and metal-free porphyrin CytC. We found that all of the CytC versions quench QD fluorescence, although the interaction may be described differently in terms of static and dynamic quenching. QDs may be quenchers of fluorescent CytC derivatives, with significant differences in effectiveness depending on QD size. SnCytC and porphyrin CytC increased the rate of Fe(III)CytC photoreduction, and Fe(II)CytC slightly decreased the rate and ZnCytC presence significantly decreased the rate and final level of reduced FeCytC. These might be partially explained by the tendency to form a stable complex between protein and QDs, which promoted RET and collisional quenching. Our findings show that there is a net preference for photoinduced ET over other ways of energy transfer, at least partially, due to a lack of donors, regenerating a hole at QDs and leading to irreversibility of ET events. There may also be a common part of pathways leading to photoinduced ET and RET. The nature of synergistic action observed in some cases allows the hypothesis that RET may be an additional way to power up the ET.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Vasileiadis, Thomas; Varghese, Jeena; Babacic, Visnja; Gomis-Bresco, Jordi; Urrios, Daniel Navarro; Graczykowski, Bartłomiej
Progress and perspectives on phononic crystals Journal Article
In: Journal of Applied Physics, vol. 129, no. 16, pp. 160901, 2021, ISSN: 0021-8979.
@article{Vasileiadis2021,
title = {Progress and perspectives on phononic crystals},
author = {Thomas Vasileiadis and Jeena Varghese and Visnja Babacic and Jordi Gomis-Bresco and Daniel Navarro Urrios and Bartłomiej Graczykowski},
url = {https://aip.scitation.org/doi/10.1063/5.0042337},
doi = {10.1063/5.0042337},
issn = {0021-8979},
year = {2021},
date = {2021-04-01},
journal = {Journal of Applied Physics},
volume = {129},
number = {16},
pages = {160901},
publisher = {AIP Publishing LLC},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Litowczenko, Jagoda; Gapiński, Jacek; Markiewicz, Roksana; Woźniak, Anna; Wychowaniec, Jacek K; Peplińska, Barbara; Jurga, Stefan; Patkowski, Adam
Synthesis, characterization and in vitro cytotoxicity studies of poly-N-isopropyl acrylamide gel nanoparticles and films Journal Article
In: Materials Science and Engineering: C, vol. 118, pp. 111507, 2021, ISSN: 0928-4931.
@article{LITOWCZENKO2021111507,
title = {Synthesis, characterization and in vitro cytotoxicity studies of poly-N-isopropyl acrylamide gel nanoparticles and films},
author = {Jagoda Litowczenko and Jacek Gapiński and Roksana Markiewicz and Anna Woźniak and Jacek K Wychowaniec and Barbara Peplińska and Stefan Jurga and Adam Patkowski},
url = {http://www.sciencedirect.com/science/article/pii/S0928493120334251},
doi = {https://doi.org/10.1016/j.msec.2020.111507},
issn = {0928-4931},
year = {2021},
date = {2021-01-01},
journal = {Materials Science and Engineering: C},
volume = {118},
pages = {111507},
abstract = {In this work, we show synthesis that leads to thermoreponsive poly-N-isopropyl acrylamide (pNIPAM) nanogels with sizes below 100 nm, irrespectively of the surfactant to crosslinker ratio. We also show that in many environments the temperature induced pNIPAM collapse at Lower Critical Solution Temperature (LCST) of 32.5 °C is accompanied by gel nanoparticles' aggregation. Thus, the proper information on the nanoparticle (NP) structure and deswelling can be obtained only if the routinely measured hydrodynamic radius is supplemented by information on the molecular weight, which can be obtained from the intensity of scattered light. We measured the dynamics and reversibility of the deswelling and subsequent aggregation processes. Furthermore, we show that the highly concentrated pNIPAM gel NPs reversibly form bulk hydrogel networks of varied interconnected porous structure. We show, that in case of drying pNIPAM gel NPs above the LCST, it is possible to obtain films with 20-fold increase in storage modulus (G′) compared to hydrogel networks measured at room temperature. They exhibit temperature hysteresis behavior around LCST of 32.5 °C similar to pNIPAM films. Finally, we show that these hydrogel films, lead to extended proliferation of cells across three different types: fibroblast, endothelial and cancer cells. Additionally, none of the films exhibited any cytotoxic effects. Our study brings new insights into physicochemical characterization of pNIPAM gel NPs and networks behavior in realistic conditions of in vitro measurements, especially by means of dynamic light scattering as well as final unique properties of both gel NPs and formed porous films for possible tissue engineering applications.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Calandra, Pietro; Liveri, Vincenzo Turco; Proietti, Noemi; Capitani, Donatella; Lombardo, Domenico; Gainaru, Catalin; Böhmer, Roland; Kozak, Maciej; Dobies, Maria; Fojud, Zbigniew; Pochylski, Mikołaj
Non-ideal mixing behavior in dibutyl phosphate-propylamine binary liquids: Dielectric and nuclear magnetic resonance investigations Journal Article
In: Journal of Molecular Liquids, vol. 323, pp. 114963, 2021, ISSN: 0167-7322.
@article{CALANDRA2021114963,
title = {Non-ideal mixing behavior in dibutyl phosphate-propylamine binary liquids: Dielectric and nuclear magnetic resonance investigations},
author = {Pietro Calandra and Vincenzo Turco Liveri and Noemi Proietti and Donatella Capitani and Domenico Lombardo and Catalin Gainaru and Roland Böhmer and Maciej Kozak and Maria Dobies and Zbigniew Fojud and Mikołaj Pochylski},
url = {https://www.sciencedirect.com/science/article/pii/S0167732220372056},
doi = {https://doi.org/10.1016/j.molliq.2020.114963},
issn = {0167-7322},
year = {2021},
date = {2021-01-01},
journal = {Journal of Molecular Liquids},
volume = {323},
pages = {114963},
abstract = {Owing to the amphiphilic nature of their constituent molecules, binary mixtures of pure liquid surfactants are usually characterized by enhanced nano-segregation and thus can exhibit interesting transport properties and complex macroscopic behavior. In this ambit it was recently shown by Turco Liveri et al. (J. Mol. Liq. 263 (2018) 274–281) at room temperature that mixtures of short aliphatic chains compounds, such as dibutyl phosphate (DBP) and n-propylamine (PA) liquids, due to their ability to allow for phosphate-to-amine proton transfer, display ionic liquid–like behavior with composition-dependent enhanced conductivity, viscosity, and magnetically-induced birefringence. To understand the molecular mechanisms at the basis of this behavior, in the present study a combination of nuclear magnetic resonance (NMR) and dielectric spectroscopy investigations has been carried out for the same materials for different amine molar ratios. It was found that at certain compositions all studied dynamical processes (conformational changes, local hopping of “free” protons among neighboring polar headgroups, long-range charge migration) exhibit significant deviations from ideal mixing behavior. The microscopic origin of these deviations is discussed.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Coy, Emerson; Babacic, Visnja; Yate, Luis; Załęski, Karol; Kim, Yeonho; Reparaz, Juan Sebastián; Dörling, Bernhard; Graczykowski, Bartłomiej; Iatsunskyi, Igor; Siuzdak, Katarzyna
Study of nanostructured ultra-refractory Tantalum-Hafnium-Carbide electrodes with wide electrochemical stability window Journal Article
In: Chemical Engineering Journal, vol. 415, pp. 128987, 2021, ISSN: 1385-8947.
@article{COY2021128987,
title = {Study of nanostructured ultra-refractory Tantalum-Hafnium-Carbide electrodes with wide electrochemical stability window},
author = {Emerson Coy and Visnja Babacic and Luis Yate and Karol Załęski and Yeonho Kim and Juan Sebastián Reparaz and Bernhard Dörling and Bartłomiej Graczykowski and Igor Iatsunskyi and Katarzyna Siuzdak},
url = {https://www.sciencedirect.com/science/article/pii/S1385894721005805},
doi = {https://doi.org/10.1016/j.cej.2021.128987},
issn = {1385-8947},
year = {2021},
date = {2021-01-01},
journal = {Chemical Engineering Journal},
volume = {415},
pages = {128987},
abstract = {Transition metal carbides have gathered increasing attention in energy and electrochemistry applications, mainly due to their high structural and physicochemical properties. Their high refractory properties have made them an ideal candidate coating technology and more recently their electronic similarity to the platinum group has expanded their use to energy and catalysis. Here, we demonstrate that the nanostructuring and stoichiometry control of the highest melting point material to this date (Ta-Hf-C) results in outstanding electrochemical stability. Our results show one of the largest windows of stability of a single component electrode in a broad range pH. These experiments provide a new perspective on the electrochemical, thermoelectric and mechanical behavior of Ta-Hf-C nanocomposites, towards a broad range of applications in energy production, catalysis and analytical chemistry.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dubas, Katarzyna; Szewczyk, Sebastian; Białek, Rafał; Burdziński, G; Jones, M R; Gibasiewicz, Krzysztof
Antagonistic Effects of Point Mutations on Charge Recombination and a New View of Primary Charge Separation in Photosynthetic Proteins Journal Article
In: The Journal of Physical Chemistry B, vol. 125, no. 31, pp. 8742–8756, 2021.
@article{Dubas2021,
title = {Antagonistic Effects of Point Mutations on Charge Recombination and a New View of Primary Charge Separation in Photosynthetic Proteins},
author = {Katarzyna Dubas and Sebastian Szewczyk and Rafał Białek and G Burdziński and M R Jones and Krzysztof Gibasiewicz},
url = {https://doi.org/10.1021/acs.jpcb.1c03978},
doi = {10.1021/acs.jpcb.1c03978},
year = {2021},
date = {2021-01-01},
journal = {The Journal of Physical Chemistry B},
volume = {125},
number = {31},
pages = {8742--8756},
publisher = {American Chemical Society (ACS)},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Pajzderska, Maria; Białek, Rafał; Jones, Michael R
Temperature dependence of nanosecond charge recombination in mutant Rhodobacter sphaeroides reaction centers: modelling of the protein dynamics Journal Article
In: Photochemical & Photobiological Sciences, vol. 20, no. 7, pp. 913–922, 2021.
@article{Gibasiewicz2021,
title = {Temperature dependence of nanosecond charge recombination in mutant Rhodobacter sphaeroides reaction centers: modelling of the protein dynamics},
author = {Krzysztof Gibasiewicz and Maria Pajzderska and Rafał Białek and Michael R Jones},
url = {https://doi.org/10.1007/s43630-021-00069-z},
doi = {10.1007/s43630-021-00069-z},
year = {2021},
date = {2021-01-01},
journal = {Photochemical & Photobiological Sciences},
volume = {20},
number = {7},
pages = {913--922},
publisher = {Springer Science and Business Media LLC},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2020
Ciężar, Kamila; Pochylski, Mikołaj
2D fourier transform for global analysis and classification of meibomian gland images Journal Article
In: The Ocular Surface, vol. 18, no. 4, pp. 865–870, 2020.
@article{Ciar2020,
title = {2D fourier transform for global analysis and classification of meibomian gland images},
author = {Kamila Ciężar and Mikołaj Pochylski},
url = {https://doi.org/10.1016/j.jtos.2020.09.005},
doi = {10.1016/j.jtos.2020.09.005},
year = {2020},
date = {2020-10-01},
journal = {The Ocular Surface},
volume = {18},
number = {4},
pages = {865--870},
publisher = {Elsevier BV},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Wojnarowska, Żaneta; Musiał, Małgorzata; Cheng, Shinian; Gapiński, Jacek; Patkowski, Adam; Pionteck, Jürgen; Paluch, Marian
Revealing Fast Proton Transport in Condensed Matter by Means of Density Scaling Concept Journal Article
In: The Journal of Physical Chemistry C, vol. 124, no. 29, pp. 15749–15756, 2020.
@article{Wojnarowska_2020,
title = {Revealing Fast Proton Transport in Condensed Matter by Means of Density Scaling Concept},
author = {Żaneta Wojnarowska and Małgorzata Musiał and Shinian Cheng and Jacek Gapiński and Adam Patkowski and Jürgen Pionteck and Marian Paluch},
url = {https://doi.org/10.1021%2Facs.jpcc.0c03548},
doi = {10.1021/acs.jpcc.0c03548},
year = {2020},
date = {2020-06-01},
journal = {The Journal of Physical Chemistry C},
volume = {124},
number = {29},
pages = {15749--15756},
publisher = {American Chemical Society (ACS)},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dalvise, Tommaso Marchesi; Harvey, Sean; Hueske, Lisa; Szelwicka, Jolanta; Veith, Lothar; Knowles, Tuomas P J; Kubiczek, Dennis; Flaig, Carolin; Port, Fabian; Gottschalk, Kay-E.; Rosenau, Frank; Graczykowski, Bartłomiej; Fytas, George; Ruggeri, Francesco S; Wunderlich, Katrin; Weil, Tanja
Ultrathin Polydopamine Films with Phospholipid Nanodiscs Containing a Glycophorin A Domain Journal Article
In: Advanced Functional Materials, vol. 30, no. 8, pp. 2000378, 2020, ISSN: 1616301X.
@article{Sledzinska2020b,
title = {Ultrathin Polydopamine Films with Phospholipid Nanodiscs Containing a Glycophorin A Domain},
author = {Tommaso Marchesi Dalvise and Sean Harvey and Lisa Hueske and Jolanta Szelwicka and Lothar Veith and Tuomas P J Knowles and Dennis Kubiczek and Carolin Flaig and Fabian Port and Kay-E. Gottschalk and Frank Rosenau and Bartłomiej Graczykowski and George Fytas and Francesco S Ruggeri and Katrin Wunderlich and Tanja Weil},
url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/adfm.201904434 http://doi.wiley.com/10.1002/adfm.202000378},
doi = {10.1002/adfm.202000378},
issn = {1616301X},
year = {2020},
date = {2020-03-01},
journal = {Advanced Functional Materials},
volume = {30},
number = {8},
pages = {2000378},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Graczykowski, Bartłomiej; Vogel, Nicolas; Bley, Karina; Butt, Hans-Jürgen; Fytas, George
Multiband Hypersound Filtering in Two-Dimensional Colloidal Crystals: Adhesion, Resonances, and Periodicity Journal Article
In: Nano Letters, vol. 20, no. 3, pp. 1883–1889, 2020, ISSN: 1530-6984.
@article{Sledzinska2020c,
title = {Multiband Hypersound Filtering in Two-Dimensional Colloidal Crystals: Adhesion, Resonances, and Periodicity},
author = {Bartłomiej Graczykowski and Nicolas Vogel and Karina Bley and Hans-Jürgen Butt and George Fytas},
url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/adfm.201904434 http://doi.wiley.com/10.1002/adfm.202000378 https://pubs.acs.org/doi/10.1021/acs.nanolett.9b05101},
doi = {10.1021/acs.nanolett.9b05101},
issn = {1530-6984},
year = {2020},
date = {2020-03-01},
journal = {Nano Letters},
volume = {20},
number = {3},
pages = {1883--1889},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Szewczyk, Sebastian; Abram, Mateusz; Białek, Rafał; Haniewicz, Patrycja; Karolczak, Jerzy; Gapiński, Jacek; Kargul, Joanna; Gibasiewicz, Krzysztof
On the nature of uncoupled chlorophylls in the extremophilic photosystem I-light harvesting I supercomplex Journal Article
In: Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol. 1861, no. 2, pp. 148136, 2020, ISSN: 00052728.
@article{Szewczyk2020,
title = {On the nature of uncoupled chlorophylls in the extremophilic photosystem I-light harvesting I supercomplex},
author = {Sebastian Szewczyk and Mateusz Abram and Rafał Białek and Patrycja Haniewicz and Jerzy Karolczak and Jacek Gapiński and Joanna Kargul and Krzysztof Gibasiewicz},
url = {https://linkinghub.elsevier.com/retrieve/pii/S0005272819301902},
doi = {10.1016/j.bbabio.2019.148136},
issn = {00052728},
year = {2020},
date = {2020-02-01},
journal = {Biochimica et Biophysica Acta (BBA) - Bioenergetics},
volume = {1861},
number = {2},
pages = {148136},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Szewczyk, Sebastian; Białek, Rafał; Giera, Wojciech; Burdziński, G; van Grondelle, Rienk; Gibasiewicz, Krzysztof
Excitation dynamics in Photosystem I trapped in TiO2 mesopores Journal Article
In: Photosynthesis Research, no. 0123456789, 2020, ISSN: 0166-8595.
@article{Szewczyk2020b,
title = {Excitation dynamics in Photosystem I trapped in TiO2 mesopores},
author = {Sebastian Szewczyk and Rafał Białek and Wojciech Giera and G Burdziński and Rienk van Grondelle and Krzysztof Gibasiewicz},
url = {https://doi.org/10.1007/s11120-020-00730-1 http://link.springer.com/10.1007/s11120-020-00730-1},
doi = {10.1007/s11120-020-00730-1},
issn = {0166-8595},
year = {2020},
date = {2020-02-01},
journal = {Photosynthesis Research},
number = {0123456789},
publisher = {Springer Netherlands},
abstract = {Excitation decay in closed Photosystem I (PSI) isolated from cyanobacterium Synechocystis sp. PCC 6803 and dissolved in a buffer solution occurs predominantly with a ~ 24-ps lifetime, as measured both by time-resolved fluorescence and transient absorption. The same PSI particles deposited in mesoporous matrix made of TiO2 nanoparticles exhibit significantly accelerated excitation decay dominated by a ~ 6-ps component. Target analysis indicates that this acceleration is caused by ~ 50% increase of the rate constant of bulk Chls excitation quenching. As an effect of this increase, as much as ~ 70% of bulk Chls excitation is quenched before the establishment of equilibrium with the red Chls. Accelerated quenching may be caused by increased excitation trapping by the reaction center and/or quenching properties of the TiO2 surface directly interacting with PSI Chls. Also properties of the PSI red Chls are affected by the deposition in the TiO2 matrix: they become deeper traps due to an increase of their number and their oscillator strength is significantly reduced. These effects should be taken into account when constructing solar cells' photoelectrodes composed of PSI and artificial matrices.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Szewczyk, Sebastian; Białek, Rafał; Burdziński, Gotard; Gibasiewicz, Krzysztof
Photovoltaic activity of electrodes based on intact photosystem I electrodeposited on bare conducting glass Journal Article
In: Photosynthesis Research, no. 0123456789, 2020, ISSN: 0166-8595.
@article{Szewczyk2020c,
title = {Photovoltaic activity of electrodes based on intact photosystem I electrodeposited on bare conducting glass},
author = {Sebastian Szewczyk and Rafał Białek and Gotard Burdziński and Krzysztof Gibasiewicz},
url = {https://doi.org/10.1007/s11120-020-00722-1 http://link.springer.com/10.1007/s11120-020-00722-1},
doi = {10.1007/s11120-020-00722-1},
issn = {0166-8595},
year = {2020},
date = {2020-02-01},
journal = {Photosynthesis Research},
number = {0123456789},
publisher = {Springer Netherlands},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Śledzińska, Marianna; Graczykowski, Bartłomiej; Maire, Jeremie; Chavez‐Angel, Emigdio; Sotomayor‐Torres, Clivia M; Alzina, Francesc
2D Phononic Crystals: Progress and Prospects in Hypersound and Thermal Transport Engineering Journal Article
In: Advanced Functional Materials, vol. 30, no. 8, pp. 1904434, 2020, ISSN: 1616-301X.
@article{Sledzinska2020,
title = {2D Phononic Crystals: Progress and Prospects in Hypersound and Thermal Transport Engineering},
author = {Marianna Śledzińska and Bartłomiej Graczykowski and Jeremie Maire and Emigdio Chavez‐Angel and Clivia M Sotomayor‐Torres and Francesc Alzina},
url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/adfm.201904434},
doi = {10.1002/adfm.201904434},
issn = {1616-301X},
year = {2020},
date = {2020-02-01},
journal = {Advanced Functional Materials},
volume = {30},
number = {8},
pages = {1904434},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Abram, Mateusz; Białek, Rafał; Szewczyk, Sebastian; Karolczak, Jerzy; Gibasiewicz, Krzysztof; Kargul, Joanna
Remodeling of excitation energy transfer in extremophilic red algal PSI-LHCI complex during light adaptation Journal Article
In: Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol. 1861, no. 1, pp. 148093, 2020, ISSN: 00052728.
@article{Abram2020,
title = {Remodeling of excitation energy transfer in extremophilic red algal PSI-LHCI complex during light adaptation},
author = {Mateusz Abram and Rafał Białek and Sebastian Szewczyk and Jerzy Karolczak and Krzysztof Gibasiewicz and Joanna Kargul},
url = {https://linkinghub.elsevier.com/retrieve/pii/S0005272819301409},
doi = {10.1016/j.bbabio.2019.148093},
issn = {00052728},
year = {2020},
date = {2020-01-01},
journal = {Biochimica et Biophysica Acta (BBA) - Bioenergetics},
volume = {1861},
number = {1},
pages = {148093},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Białek, Rafał; Friebe, Vincent; Ruff, Adrian; Jones, Michael R; Frese, Raoul; Gibasiewicz, Krzysztof
In situ spectroelectrochemical investigation of a biophotoelectrode based on photoreaction centers embedded in a redox hydrogel Journal Article
In: Electrochimica Acta, vol. 330, pp. 135190, 2020, ISSN: 00134686.
@article{Biaek2020,
title = {In situ spectroelectrochemical investigation of a biophotoelectrode based on photoreaction centers embedded in a redox hydrogel},
author = {Rafał Białek and Vincent Friebe and Adrian Ruff and Michael R Jones and Raoul Frese and Krzysztof Gibasiewicz},
url = {https://linkinghub.elsevier.com/retrieve/pii/S0013468619320614},
doi = {10.1016/j.electacta.2019.135190},
issn = {00134686},
year = {2020},
date = {2020-01-01},
journal = {Electrochimica Acta},
volume = {330},
pages = {135190},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Jarzębski, Maciej; Siejak, Przemysław; Przeor, Monika; Gapiński, Jacek; Woźniak, Anna; Baranowska, Hanna Maria; Pawlicz, Jarosław; Baryła-Pankiewicz, Elżbieta; Szwajca, Anna
Fluorescent Submicron-Sized Poly(heptafluoro-n-butyl methacrylate) Particles with Long-Term Stability Journal Article
In: Molecules, vol. 25, no. 9, 2020, ISSN: 1420-3049.
@article{molecules25092013,
title = {Fluorescent Submicron-Sized Poly(heptafluoro-n-butyl methacrylate) Particles with Long-Term Stability},
author = {Maciej Jarzębski and Przemysław Siejak and Monika Przeor and Jacek Gapiński and Anna Woźniak and Hanna Maria Baranowska and Jarosław Pawlicz and Elżbieta Baryła-Pankiewicz and Anna Szwajca},
url = {https://www.mdpi.com/1420-3049/25/9/2013},
doi = {10.3390/molecules25092013},
issn = {1420-3049},
year = {2020},
date = {2020-01-01},
journal = {Molecules},
volume = {25},
number = {9},
abstract = {Fluorescent submicron particles of fluorinated methacrylate (HFMBA) with long-term stability have been synthesized and characterized with regard to their potential applications. Rhodamine B (RBITC) isothiocyanate was used as the fluorescent component. The core-shell structure of the particles effectively protected the dye against bleaching. HFBMA nanoparticle (NP) stability was confirmed after seven years of storage. Only slight differences were found in the polydispersity index (pdi) from 0.002 to 0.010. Particle size measurements were carried out using dynamic light scattering (DLS), nanoparticle tracking (NTA), and fluorescence correlation spectroscopy (FCS). The hydrodynamic diameter evaluated by different methods were in good agreement, respectively: 184-550 nm, 218-579 nm, and 236-508 nm. Particle and core morphology was estimated by using scanning and transmission electron microscopy (SEM and TEM). The ability to recognize particles in 3D as a reference sample in biological media has been confirmed by epifluorescence optical microscopy, confocal laser scanning microscopy, and super-resolution confocal microscopy (STED).},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pochylski, Mikołaj; Lombardo, Domenico; Calandra, Pietro
Optical Birefringence Growth Driven by Magnetic Field in Liquids: The Case of Dibutyl Phosphate/Propylamine System Journal Article
In: Applied Sciences, vol. 10, no. 1, pp. 164, 2020, ISSN: 2076-3417.
@article{Pochylski2019b,
title = {Optical Birefringence Growth Driven by Magnetic Field in Liquids: The Case of Dibutyl Phosphate/Propylamine System},
author = {Mikołaj Pochylski and Domenico Lombardo and Pietro Calandra},
url = {https://www.mdpi.com/2076-3417/10/1/164},
doi = {10.3390/app10010164},
issn = {2076-3417},
year = {2020},
date = {2020-01-01},
urldate = {2019-12-01},
journal = {Applied Sciences},
volume = {10},
number = {1},
pages = {164},
abstract = {Magnetically-induced birefringence is usually low in molecular liquids owing to the low magnetic energy of molecules with respect to the thermal one. Despite this, it has been found that a mixture of dibutyl phosphate and propylamine at propylamine molar ratio (X) around 0.33 surprisingly gives an intense effect (∆n/$łambda$ ≈ −0.1 at 1 Tesla). In this paper the time- and intensity- response to the magnetic field of such mixture have been studied. It was found that the reaction to the magnetic field is unusually slow (from several minutes to hours) depending of the magnetic field intensity. On the basis of the data, the model of orientable dipoles dispersed in a matrix enables to interpret the magnetic field-induced self-assembly in terms of soft molecules-based nanostructures. The analogy with systems made of magnetically polarizable (solid or soft) particles dispersed in liquid carrier allows understanding, at the microscopic scale, the molecular origin and the supra-molecular dynamics involved in the observed behavior. The data present a novel phenomenon in liquid phase where the progressive building up/change of ordered and strongly interacting amphiphiles is driven by the magnetic field.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Babačić, Višnja; Varghese, Jeena; Coy, Emerson; Kang, Eunsoo; Pochylski, Mikołaj; Gapiński, Jacek; Fytas, George; Graczykowski, Bartłomiej
Mechanical reinforcement of polymer colloidal crystals by supercritical fluids Journal Article
In: Journal of Colloid and Interface Science, vol. 579, pp. 786 - 793, 2020, ISSN: 0021-9797.
@article{BABACIC2020786,
title = {Mechanical reinforcement of polymer colloidal crystals by supercritical fluids},
author = {Višnja Babačić and Jeena Varghese and Emerson Coy and Eunsoo Kang and Mikołaj Pochylski and Jacek Gapiński and George Fytas and Bartłomiej Graczykowski},
url = {http://www.sciencedirect.com/science/article/pii/S0021979720308493},
doi = {https://doi.org/10.1016/j.jcis.2020.06.104},
issn = {0021-9797},
year = {2020},
date = {2020-01-01},
journal = {Journal of Colloid and Interface Science},
volume = {579},
pages = {786 - 793},
abstract = {Colloidal crystals realized by self-assembled polymer nanoparticles have prominent attraction as a platform for various applications from assembling photonic and phononic crystals, acoustic metamaterials to coating applications. However, the fragility of these systems limits their application horizon. In this work the uniform mechanical reinforcement and tunability of 3D polystyrene colloidal crystals by means of cold soldering are reported. This structural strengthening is achieved by high pressure gas (N2 or Ar) plasticization at temperatures well below the glass transition. Brillouin light scattering is employed to monitor in-situ the mechanical vibrations of the crystal and thereby determine preferential pressure, temperature and time ranges for soldering, i.e. formation of physical bonding among the nanoparticles while maintaining the shape and translational order. This low-cost method is potentially useful for fabrication and tuning of durable devices including applications in photonics, phononics, acoustic metamaterials, optomechanics, surface coatings and nanolithography.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Białek, Rafał; Thakur, Kalyani; Ruff, Adrian; Jones, Michael R; Schuhmann, Wolfgang; Ramanan, Charusheela; Gibasiewicz, Krzysztof
Insight into Electron Transfer from a Redox Polymer to a Photoactive Protein Journal Article
In: The Journal of Physical Chemistry B, vol. 124, no. 49, pp. 11123-11132, 2020, (PMID: 33236901).
@article{doi:10.1021/acs.jpcb.0c08714,
title = {Insight into Electron Transfer from a Redox Polymer to a Photoactive Protein},
author = {Rafał Białek and Kalyani Thakur and Adrian Ruff and Michael R Jones and Wolfgang Schuhmann and Charusheela Ramanan and Krzysztof Gibasiewicz},
url = {https://doi.org/10.1021/acs.jpcb.0c08714},
doi = {10.1021/acs.jpcb.0c08714},
year = {2020},
date = {2020-01-01},
journal = {The Journal of Physical Chemistry B},
volume = {124},
number = {49},
pages = {11123-11132},
abstract = {Biohybrid photoelectrochemical systems in photovoltaic or biosensor applications have gained considerable attention in recent years. While the photoactive proteins engaged in such systems usually maintain an internal charge separation quantum yield of nearly 100%, the subsequent steps of electron and hole transfer beyond the protein often limit the overall system efficiency and their kinetics remain largely uncharacterized. To reveal the dynamics of one of such charge-transfer reactions, we report on the reduction of Rhodobacter sphaeroides reaction centers (RCs) by Os-complex-modified redox polymers (P-Os) characterized using transient absorption spectroscopy. RCs and P-Os were mixed in buffered solution in different molar ratios in the presence of a water-soluble quinone as an electron acceptor. Electron transfer from P-Os to the photoexcited RCs could be described by a three-exponential function, the fastest lifetime of which was on the order of a few microseconds, which is a few orders of magnitude faster than the internal charge recombination of RCs with fully separated charge. This was similar to the lifetime for the reduction of RCs by their natural electron donor, cytochrome c2. The rate of electron donation increased with increasing ratio of polymer to protein concentrations. It is proposed that P-Os and RCs engage in electrostatic interactions to form complexes, the sizes of which depend on the polymer-to-protein ratio. Our findings throw light on the processes within hydrogel-based biophotovoltaic devices and will inform the future design of materials optimally suited for this application.},
note = {PMID: 33236901},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Vasileiadis, Thomas; Zhang, Heng; Wang, Hai; Bonn, Mischa; Fytas, George; Graczykowski, Bartłomiej
Frequency-domain study of nonthermal gigahertz phonons reveals Fano coupling to charge carriers Journal Article
In: Science Advances, vol. 6, no. 51, 2020, ISSN: 23752548.
@article{Vasileiadis2020,
title = {Frequency-domain study of nonthermal gigahertz phonons reveals Fano coupling to charge carriers},
author = {Thomas Vasileiadis and Heng Zhang and Hai Wang and Mischa Bonn and George Fytas and Bartłomiej Graczykowski},
doi = {10.1126/SCIADV.ABD4540},
issn = {23752548},
year = {2020},
date = {2020-01-01},
journal = {Science Advances},
volume = {6},
number = {51},
abstract = {Telecommunication devices exploit hypersonic gigahertz acoustic phonons to mediate signal processing with microwave radiation, and charge carriers to operate various microelectronic components. Potential interactions of hypersound with charge carriers can be revealed through frequency- and momentum-resolved studies of acoustic phonons in photoexcited semiconductors. Here, we present an all-optical method for excitation and frequency-, momentum-, and space-resolved detection of gigahertz acoustic waves in a spatially confined model semiconductor. Lamb waves are excited in a bare silicon membrane using femtosecond optical pulses and detected with frequency-domain micro-Brillouin light spectroscopy. The population of photoexcited gigahertz phonons displays a hundredfold enhancement as compared with thermal equilibrium. The phonon spectra reveal Stokes–anti-Stokes asymmetry due to propagation, and strongly asymmetric Fano resonances due to coupling between the electron-hole plasma and the photoexcited phonons. This work lays the foundation for studying hypersonic signals in nonequilibrium conditions and, more generally, phonon-dependent phenomena in photoexcited nanostructures.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kasprzak, Maciej; Sledzinska, Marianna; Zaleski, Karol; Iatsunskyi, Igor; Alzina, Francesc; Volz, Sebastian; Torres, Clivia M Sotomayor; Graczykowski, Bartłomiej
High-temperature silicon thermal diode and switch Journal Article
In: Nano Energy, vol. 78, no. July, 2020, ISSN: 22112855.
@article{Kasprzak2020,
title = {High-temperature silicon thermal diode and switch},
author = {Maciej Kasprzak and Marianna Sledzinska and Karol Zaleski and Igor Iatsunskyi and Francesc Alzina and Sebastian Volz and Clivia M Sotomayor Torres and Bartłomiej Graczykowski},
doi = {10.1016/j.nanoen.2020.105261},
issn = {22112855},
year = {2020},
date = {2020-01-01},
journal = {Nano Energy},
volume = {78},
number = {July},
publisher = {Elsevier Ltd},
abstract = {A thermal rectifier/diode is a nonreciprocal element or system that enables preferential heat transport in one direction. In this work we demonstrate a single-material thermal diode operating at high temperatures. The diode is made of nanostructured silicon membranes exhibiting spatially and temperature-dependent thermal conductivity and, therefore, falling into the category of spatially asymmetric, nonlinear nonreciprocal systems. We used an all-optical state-of-the-art experimental technique to prove rectification along rigorous criteria of the phenomenon. Using sub-milliwatt power we achieve rectification of about 14%. In addition, we demonstrate air-triggered thermal switching and passive cooling. Our findings provide a CMOS-compatible platform for heat rectification and applications in energy harvesting, thermal insulation and cooling, as well as sensing and potentially thermal logic.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Bastard, Paul; Rosen, Lindsey B; Zhang, Qian; Michailidis, Eleftherios; Hoffmann, Hans-Heinrich; Zhang, Yu; Dorgham, Karim; Philippot, Quentin; Rosain, Jérémie; Béziat, Vivien; Manry, Jérémie; Shaw, Elana; Haljasmägi, Liis; Peterson, Pärt; Lorenzo, Lazaro; Bizien, Lucy; Trouillet-Assant, Sophie; Dobbs, Kerry; de Jesus, Adriana Almeida; Belot, Alexandre; Kallaste, Anne; Catherinot, Emilie; Tandjaoui-Lambiotte, Yacine; Pen, Jeremie Le; Kerner, Gaspard; Bigio, Benedetta; Seeleuthner, Yoann; Yang, Rui; Bolze, Alexandre; á, Andr; Delmonte, Ottavia M; Abers, Michael S; Aiuti, Alessandro; Casari, Giorgio; Lampasona, Vito; Piemonti, Lorenzo; Ciceri, Fabio; Bilguvar, Kaya; Lifton, Richard P; Vasse, Marc; Smadja, David M; é, M; é, J; Terrier, Benjamin; Duffy, Darragh; Quintana-Murci, Lluis; van de Beek, Diederik; Roussel, Lucie; Vinh, Donald C; Tangye, Stuart G; Haerynck, Filomeen; Dalmau, David; Martinez-Picado, Javier; Brodin, Petter; Nussenzweig, Michel C; é, St; í, Carlos Rodr; Vogt, Guillaume; Mogensen, Trine H; Oler, Andrew J; Gu, Jingwen; Burbelo, Peter D; Cohen, Jeffrey I; Biondi, Andrea; Bettini, Laura Rachele; textquotesingle, Mariella D; Bonfanti, Paolo; Rossignol, Patrick; Mayaux, Julien; é, Fréd; Husebye, Eystein S; Fusco, Francesca; Ursini, Matilde Valeria; Imberti, Luisa; Sottini, Alessandra; Paghera, Simone; Quiros-Roldan, Eugenia; Rossi, Camillo; Castagnoli, Riccardo; Montagna, Daniela; Licari, Amelia; Marseglia, Gian Luigi; Duval, Xavier; Ghosn, Jade; Tsang, John S; Goldbach-Mansky, Raphaela; Kisand, Kai; Lionakis, Michail S; Puel, Anne; Zhang, Shen-Ying; Holland, Steven M; Gorochov, Guy; Jouanguy, Emmanuelle; Rice, Charles M; é, Aur; Notarangelo, Luigi D; Abel, Laurent; Su, Helen C; Casanova, Jean-Laurent; Zawadzki, Paweł; ...,
Autoantibodies against type I IFNs in patients with life-threatening COVID-19 Journal Article
In: Science, vol. 370, no. 6515, pp. eabd4585, 2020.
@article{Bastard2020,
title = {Autoantibodies against type I IFNs in patients with life-threatening COVID-19},
author = {Paul Bastard and Lindsey B Rosen and Qian Zhang and Eleftherios Michailidis and Hans-Heinrich Hoffmann and Yu Zhang and Karim Dorgham and Quentin Philippot and Jérémie Rosain and Vivien Béziat and Jérémie Manry and Elana Shaw and Liis Haljasmägi and Pärt Peterson and Lazaro Lorenzo and Lucy Bizien and Sophie Trouillet-Assant and Kerry Dobbs and Adriana Almeida de Jesus and Alexandre Belot and Anne Kallaste and Emilie Catherinot and Yacine Tandjaoui-Lambiotte and Jeremie Le Pen and Gaspard Kerner and Benedetta Bigio and Yoann Seeleuthner and Rui Yang and Alexandre Bolze and Andr á and Ottavia M Delmonte and Michael S Abers and Alessandro Aiuti and Giorgio Casari and Vito Lampasona and Lorenzo Piemonti and Fabio Ciceri and Kaya Bilguvar and Richard P Lifton and Marc Vasse and David M Smadja and M é and J é and Benjamin Terrier and Darragh Duffy and Lluis Quintana-Murci and Diederik van de Beek and Lucie Roussel and Donald C Vinh and Stuart G Tangye and Filomeen Haerynck and David Dalmau and Javier Martinez-Picado and Petter Brodin and Michel C Nussenzweig and St é and Carlos Rodr í and Guillaume Vogt and Trine H Mogensen and Andrew J Oler and Jingwen Gu and Peter D Burbelo and Jeffrey I Cohen and Andrea Biondi and Laura Rachele Bettini and Mariella D textquotesingle and Paolo Bonfanti and Patrick Rossignol and Julien Mayaux and Fréd é and Eystein S Husebye and Francesca Fusco and Matilde Valeria Ursini and Luisa Imberti and Alessandra Sottini and Simone Paghera and Eugenia Quiros-Roldan and Camillo Rossi and Riccardo Castagnoli and Daniela Montagna and Amelia Licari and Gian Luigi Marseglia and Xavier Duval and Jade Ghosn and John S Tsang and Raphaela Goldbach-Mansky and Kai Kisand and Michail S Lionakis and Anne Puel and Shen-Ying Zhang and Steven M Holland and Guy Gorochov and Emmanuelle Jouanguy and Charles M Rice and Aur é and Luigi D Notarangelo and Laurent Abel and Helen C Su and Jean-Laurent Casanova and Paweł Zawadzki and ...},
url = {https://doi.org/10.1126/science.abd4585},
doi = {10.1126/science.abd4585},
year = {2020},
date = {2020-01-01},
journal = {Science},
volume = {370},
number = {6515},
pages = {eabd4585},
publisher = {American Association for the Advancement of Science (AAAS)},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Zhang, Qian; Bastard, Paul; Liu, Zhiyong; é, Jér; Moncada-Velez, Marcela; Chen, Jie; Ogishi, Masato; Sabli, Ira K D; Hodeib, Stephanie; Korol, Cecilia; Rosain, Jeremie; Bilguvar, Kaya; Ye, Junqiang; Bolze, Alexandre; Bigio, Benedetta; Yang, Rui; Arias, Andres Augusto; Zhou, Qinhua; Zhang, Yu; Onodi, Fanny; Korniotis, Sarantis; Karpf, Lea; Philippot, Quentin; Chbihi, Marwa; Bonnet-Madin, Lucie; Dorgham, Karim; Smith, Nikaïa; Schneider, William M; Razooky, Brandon S; Hoffmann, Hans-Heinrich; Michailidis, Eleftherios; Moens, Leen; Han, Ji Eun; Lorenzo, Lazaro; Bizien, Lucy; Meade, Philip; Neehus, Anna-Lena; Ugurbil, Aileen Camille; é, Aur; Kerner, Gaspard; Zhang, Peng; Rapaport, Franck; Seeleuthner, Yoann; Manry, Jeremy; Masson, Cecile; Schmitt, Yohann; Schlüter, Agatha; Voyer, Tom Le; Khan, Taushif; Li, Juan; Fellay, Jacques; Roussel, Lucie; Shahrooei, Mohammad; Alosaimi, Mohammed F; Mansouri, Davood; Al-Saud, Haya; Al-Mulla, Fahd; Almourfi, Feras; Al-Muhsen, Saleh Zaid; Alsohime, Fahad; Turki, Saeed Al; Hasanato, Rana; van de Beek, Diederik; Biondi, Andrea; Bettini, Laura Rachele; DÁngio', Mariella; Bonfanti, Paolo; Imberti, Luisa; Sottini, Alessandra; Paghera, Simone; Quiros-Roldan, Eugenia; Rossi, Camillo; Oler, Andrew J; Tompkins, Miranda F; Alba, Camille; Vandernoot, Isabelle; Goffard, Jean-Christophe; Smits, Guillaume; Migeotte, Isabelle; Haerynck, Filomeen; Soler-Palacin, Pere; Martin-Nalda, Andrea; Colobran, Roger; Morange, Pierre-Emmanuel; Keles, Sevgi; Colkesen, Fatma; Ozcelik, Tayfun; Yasar, Kadriye Kart; Senoglu, Sevtap; Karabela, Semsi Nur; í, Carlos Rodr; Novelli, Giuseppe; Hraiech, Sami; Tandjaoui-Lambiotte, Yacine; Duval, Xavier; Laouenan, Cedric; Snow, Andrew L; Dalgard, Clifton L; Milner, Joshua D; Vinh, Donald C; Mogensen, Trine H; Marr, Nico; á, Andr; Boisson, Bertrand; Boisson-Dupuis, Stephanie; Bustamante, Jacinta; Puel, Anne; Ciancanelli, Michael J; Meyts, Isabelle; Maniatis, Tom; Soumelis, Vassili; Amara, Ali; Nussenzweig, Michel; Garcia-Sastre, Adolfo; Krammer, Florian; Pujol, Aurora; Duffy, Darragh; Lifton, Richard P; Zhang, Shen-Ying; Gorochov, Guy; Beziat, Vivien; Jouanguy, Emmanuelle; Sancho-Shimizu, Vanessa; Rice, Charles M; Abel, Laurent; Notarangelo, Luigi D; é, Aur; Su, Helen C; Casanova, Jean-Laurent; Zawadzki, Paweł; ...,
Inborn errors of type I IFN immunity in patients with life-threatening COVID-19 Journal Article
In: Science, vol. 370, no. 6515, pp. eabd4570, 2020.
@article{Zhang2020,
title = {Inborn errors of type I IFN immunity in patients with life-threatening COVID-19},
author = {Qian Zhang and Paul Bastard and Zhiyong Liu and Jér é and Marcela Moncada-Velez and Jie Chen and Masato Ogishi and Ira K D Sabli and Stephanie Hodeib and Cecilia Korol and Jeremie Rosain and Kaya Bilguvar and Junqiang Ye and Alexandre Bolze and Benedetta Bigio and Rui Yang and Andres Augusto Arias and Qinhua Zhou and Yu Zhang and Fanny Onodi and Sarantis Korniotis and Lea Karpf and Quentin Philippot and Marwa Chbihi and Lucie Bonnet-Madin and Karim Dorgham and Nikaïa Smith and William M Schneider and Brandon S Razooky and Hans-Heinrich Hoffmann and Eleftherios Michailidis and Leen Moens and Ji Eun Han and Lazaro Lorenzo and Lucy Bizien and Philip Meade and Anna-Lena Neehus and Aileen Camille Ugurbil and Aur é and Gaspard Kerner and Peng Zhang and Franck Rapaport and Yoann Seeleuthner and Jeremy Manry and Cecile Masson and Yohann Schmitt and Agatha Schlüter and Tom Le Voyer and Taushif Khan and Juan Li and Jacques Fellay and Lucie Roussel and Mohammad Shahrooei and Mohammed F Alosaimi and Davood Mansouri and Haya Al-Saud and Fahd Al-Mulla and Feras Almourfi and Saleh Zaid Al-Muhsen and Fahad Alsohime and Saeed Al Turki and Rana Hasanato and Diederik van de Beek and Andrea Biondi and Laura Rachele Bettini and Mariella DÁngio' and Paolo Bonfanti and Luisa Imberti and Alessandra Sottini and Simone Paghera and Eugenia Quiros-Roldan and Camillo Rossi and Andrew J Oler and Miranda F Tompkins and Camille Alba and Isabelle Vandernoot and Jean-Christophe Goffard and Guillaume Smits and Isabelle Migeotte and Filomeen Haerynck and Pere Soler-Palacin and Andrea Martin-Nalda and Roger Colobran and Pierre-Emmanuel Morange and Sevgi Keles and Fatma Colkesen and Tayfun Ozcelik and Kadriye Kart Yasar and Sevtap Senoglu and Semsi Nur Karabela and Carlos Rodr í and Giuseppe Novelli and Sami Hraiech and Yacine Tandjaoui-Lambiotte and Xavier Duval and Cedric Laouenan and Andrew L Snow and Clifton L Dalgard and Joshua D Milner and Donald C Vinh and Trine H Mogensen and Nico Marr and Andr á and Bertrand Boisson and Stephanie Boisson-Dupuis and Jacinta Bustamante and Anne Puel and Michael J Ciancanelli and Isabelle Meyts and Tom Maniatis and Vassili Soumelis and Ali Amara and Michel Nussenzweig and Adolfo Garcia-Sastre and Florian Krammer and Aurora Pujol and Darragh Duffy and Richard P Lifton and Shen-Ying Zhang and Guy Gorochov and Vivien Beziat and Emmanuelle Jouanguy and Vanessa Sancho-Shimizu and Charles M Rice and Laurent Abel and Luigi D Notarangelo and Aur é and Helen C Su and Jean-Laurent Casanova and Paweł Zawadzki and ...},
url = {https://doi.org/10.1126/science.abd4570},
doi = {10.1126/science.abd4570},
year = {2020},
date = {2020-01-01},
journal = {Science},
volume = {370},
number = {6515},
pages = {eabd4570},
publisher = {American Association for the Advancement of Science (AAAS)},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Sowińska-Seidler, Anna; Sztromwasser, Paweł; Zawadzka, Katarzyna; Sielski, Dawid; Bukowska-Olech, Ewelina; Zawadzki, Paweł; Kozłowski, Kazimierz; Jamsheer, Aleksander
The First Report of Biallelic Missense Mutations in the SFRP4 Gene Causing Pyle Disease in Two Siblings Journal Article
In: Frontiers in Genetics, vol. 11, 2020.
@article{SowiskaSeidler2020,
title = {The First Report of Biallelic Missense Mutations in the SFRP4 Gene Causing Pyle Disease in Two Siblings},
author = {Anna Sowińska-Seidler and Paweł Sztromwasser and Katarzyna Zawadzka and Dawid Sielski and Ewelina Bukowska-Olech and Paweł Zawadzki and Kazimierz Kozłowski and Aleksander Jamsheer},
url = {https://doi.org/10.3389/fgene.2020.593407},
doi = {10.3389/fgene.2020.593407},
year = {2020},
date = {2020-01-01},
journal = {Frontiers in Genetics},
volume = {11},
publisher = {Frontiers Media SA},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Casanova, Jean-Laurent; Su, Helen C; Abel, Laurent; Aiuti, Alessandro; Almuhsen, Saleh; Arias, Andres Augusto; Bastard, Paul; Biggs, Catherine; Bogunovic, Dusan; Boisson, Bertrand; Boisson-Dupuis, Stephanie; Bolze, Alexandre; Bondarenko, Anastasia; Bousfiha, Aziz; Brodin, Petter; Bustamante, Jacinta; Butte, Manish; Casari, Giorgio; Ciancanelli, Michael; Cobat, Aurelie; Condino-Neto, Antonio; Cooper, Megan; Dalgard, Clifton; Espinosa, Sara; Feldman, Hagit; Fellay, Jacques; Franco, Jose Luis; Hagin, David; Itan, Yuval; Jouanguy, Emmanuelle; Lucas, Carrie; Mansouri, Davood; Meyts, Isabelle; Milner, Joshua; Mogensen, Trine; Morio, Tomohiro; Ng, Lisa; Notarangelo, Luigi D; Okada, Satoshi; Ozcelik, Tayfun; Palacin, Pere Soler; Planas, Anna; Prando, Carolina; Puel, Anne; Pujol, Aurora; Redin, Claire; Renia, Laurent; Gallego, Jose Carlos Rodriguez; Quintana-Murci, Lluis; Sancho-Shimizu, Vanessa; Sankaran, Vijay; Seppanen, Mikko R J; Shahrooei, Mohammad; Snow, Andrew; Spaan, Andras; Tangye, Stuart; Tur, Jordi Perez; Turvey, Stuart; Vinh, Donald C; von Bernuth, Horst; Wang, Xiaochuan; Zawadzki, Paweł; Zhang, Qian; Zhang, Shenying
A Global Effort to Define the Human Genetics of Protective Immunity to SARS-CoV-2 Infection Journal Article
In: Cell, vol. 181, no. 6, pp. 1194–1199, 2020.
@article{Casanova2020,
title = {A Global Effort to Define the Human Genetics of Protective Immunity to SARS-CoV-2 Infection},
author = {Jean-Laurent Casanova and Helen C Su and Laurent Abel and Alessandro Aiuti and Saleh Almuhsen and Andres Augusto Arias and Paul Bastard and Catherine Biggs and Dusan Bogunovic and Bertrand Boisson and Stephanie Boisson-Dupuis and Alexandre Bolze and Anastasia Bondarenko and Aziz Bousfiha and Petter Brodin and Jacinta Bustamante and Manish Butte and Giorgio Casari and Michael Ciancanelli and Aurelie Cobat and Antonio Condino-Neto and Megan Cooper and Clifton Dalgard and Sara Espinosa and Hagit Feldman and Jacques Fellay and Jose Luis Franco and David Hagin and Yuval Itan and Emmanuelle Jouanguy and Carrie Lucas and Davood Mansouri and Isabelle Meyts and Joshua Milner and Trine Mogensen and Tomohiro Morio and Lisa Ng and Luigi D Notarangelo and Satoshi Okada and Tayfun Ozcelik and Pere Soler Palacin and Anna Planas and Carolina Prando and Anne Puel and Aurora Pujol and Claire Redin and Laurent Renia and Jose Carlos Rodriguez Gallego and Lluis Quintana-Murci and Vanessa Sancho-Shimizu and Vijay Sankaran and Mikko R J Seppanen and Mohammad Shahrooei and Andrew Snow and Andras Spaan and Stuart Tangye and Jordi Perez Tur and Stuart Turvey and Donald C Vinh and Horst von Bernuth and Xiaochuan Wang and Paweł Zawadzki and Qian Zhang and Shenying Zhang},
url = {https://doi.org/10.1016/j.cell.2020.05.016},
doi = {10.1016/j.cell.2020.05.016},
year = {2020},
date = {2020-01-01},
journal = {Cell},
volume = {181},
number = {6},
pages = {1194--1199},
publisher = {Elsevier BV},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2019
Comez, L.; Fioretto, D.; Gapiński, Jacek; Monaco, G.; Patkowski, Adam; Steffen, W.
Inelastic x-ray scattering reveals the ergodic to nonergodic transition of salol, a liquid with local order Journal Article
In: Condensed Matter Physics, vol. 22, no. 4, pp. 43603, 2019.
@article{Comez2019,
title = {Inelastic x-ray scattering reveals the ergodic to nonergodic transition of salol, a liquid with local order},
author = {L. Comez and D. Fioretto and Jacek Gapiński and G. Monaco and Adam Patkowski and W. Steffen},
doi = {10.5488/CMP.22.43603},
year = {2019},
date = {2019-11-01},
journal = {Condensed Matter Physics},
volume = {22},
number = {4},
pages = {43603},
abstract = {We have studied the high-frequency dynamics of salol by inelastic x-ray scattering over a wide temperature range between 50 and 450 K, across the glass transition. We find that salol efficiently realizes the mechanism of dynamical arrest described by the mode-coupling theory, as manifested by a cusp singularity in the behaviour of the non-ergodicity parameter and a Q dependence of the critical non-ergodicity parameter that is in phase with the static structure factor. These results confront positively the mode-coupling theory with liquids with local order.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Śledzińska, Marianna; Graczykowski, Bartłomiej; Marie, Jeremie; Chavez-Angel, Emigdio; Sotomayor-Torres, Clivia M.; Alzina, Francesc
2D Phononic Crystals: Progress and Prospects in Hypersound and Thermal Transport Engineering Journal Article
In: Advanced Functional Materials, pp. 1904434, 2019.
@article{Śledzińska2019,
title = {2D Phononic Crystals: Progress and Prospects in Hypersound and Thermal Transport Engineering},
author = {Marianna Śledzińska and Bartłomiej Graczykowski and Jeremie Marie and Emigdio Chavez-Angel and Clivia M. Sotomayor-Torres and Francesc Alzina},
doi = {10.1002/adfm.201904434},
year = {2019},
date = {2019-09-11},
journal = {Advanced Functional Materials},
pages = {1904434},
abstract = {The central concept in phononics is the tuning of the phonon dispersion relation, or phonon engineering, which provides a means of controlling related properties such as group velocity or phonon interactions and, therefore, phonon propagation, in a wide range of frequencies depending on the geometries and sizes of the materials. Phononics exploits the present state of the art in nanofabrication to tailor dispersion relations in the range of GHz for the control of elastic waves/phonons propagation with applications toward new information technology concepts with phonons as state variable. Moreover, phonons provide an adaptable approach for supporting a coherent coupling between different state variables, and the development of nanoscale optomechanical systems during the last decade attests this prospect. The most extended approach to manipulate the phonon dispersion relation is introducing an artificial periodic modulation of the elastic properties, which is referred to as phononic crystal (PnC). Herein, the focus is on the recent experimental achievements in the fabrication and application of 2D PnCs enabling the modification of the dispersion relation of surface and membrane modes, and presenting phononic bandgaps, waveguiding, and confinement in the hypersonic regime. Furthermore, these artificial materials offer the potential of modifying and controlling the heat flow to enable new schemes in thermal management.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pochylski, Mikołaj
Structural relaxation in the wave-vector dependence of the longitudinal rigidity modulus Journal Article
In: Biomed. Opt. Express, vol. 10, no. 4, pp. 1957–1964, 2019.
@article{Pochylski:19,
title = {Structural relaxation in the wave-vector dependence of the longitudinal rigidity modulus},
author = {Mikołaj Pochylski},
url = {http://www.osapublishing.org/boe/abstract.cfm?URI=boe-10-4-1957},
doi = {10.1364/BOE.10.001957},
year = {2019},
date = {2019-04-01},
journal = {Biomed. Opt. Express},
volume = {10},
number = {4},
pages = {1957--1964},
publisher = {OSA},
abstract = {Brillouin microscopy recently attracted much attention for being a promising tool for all-optical label-free determination of mechanical properties of biological samples. Before its widespread utilization for biomedical applications, numbers of nuances related with this technique need to be recognized. In this article, we discuss the process of structural relaxation, the phenomena not commonly addressed by the emerging bio-Brillouin community, and its effect on longitudinal rigidity modulus. Using a model aqueous polymer mixture, we show how scattering measurements performed on the same specimen using different experimental geometries can lead to different results.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Stracy, Mathew; Wollman, Adam JM; Kaja, Elżbieta; Gapiński, Jacek; Lee, Ji-Eun; Leek, Victoria A; McKie, Shannon J; Mitchenall, Lesley A; Maxwell, Anthony; Sherratt, David J; Leake, Mark C; Zawadzki, Paweł
Single-molecule imaging of DNA gyrase activity in living Escherichia coli Journal Article
In: Nucleic Acids Research, vol. 47, no. 1, pp. 210-220, 2019.
@article{doi:10.1093/nar/gky1143,
title = {Single-molecule imaging of DNA gyrase activity in living Escherichia coli},
author = {Mathew Stracy and Adam JM Wollman and Elżbieta Kaja and Jacek Gapiński and Ji-Eun Lee and Victoria A Leek and Shannon J McKie and Lesley A Mitchenall and Anthony Maxwell and David J Sherratt and Mark C Leake and Paweł Zawadzki},
url = {http://dx.doi.org/10.1093/nar/gky1143},
doi = {10.1093/nar/gky1143},
year = {2019},
date = {2019-01-10},
journal = {Nucleic Acids Research},
volume = {47},
number = {1},
pages = {210-220},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pochylski, Mikołaj; Gapiński, Jacek; Wojnarowska, Z; Paluch, M; Patkowski, Adam
Nature of intramolecular dynamics in protic ionic glass-former: insight from ambient and high pressure Brillouin spectroscopy Journal Article
In: Journal of Molecular Liquids, vol. 282, pp. 51 - 56, 2019, ISSN: 0167-7322.
@article{POCHYLSKI201951,
title = {Nature of intramolecular dynamics in protic ionic glass-former: insight from ambient and high pressure Brillouin spectroscopy},
author = {Mikołaj Pochylski and Jacek Gapiński and Z Wojnarowska and M Paluch and Adam Patkowski},
url = {http://www.sciencedirect.com/science/article/pii/S0167732219302417},
doi = {https://doi.org/10.1016/j.molliq.2019.02.131},
issn = {0167-7322},
year = {2019},
date = {2019-01-01},
journal = {Journal of Molecular Liquids},
volume = {282},
pages = {51 - 56},
abstract = {Proton conducting materials play an important role in a variety of electrochemical devices. Especially, the class of protic ionic glass-formers with fast water-independent proton transport within the Grotthuss mechanism has been envisioned as promising fuel cell electrolytes. Nevertheless, despite a number of reports on protic ionic glasses the description of proton transport phenomenon in these systems is still incomplete. Herein, we employed the Brillouin scattering technique to investigate the intramolecular dynamics of acebutolol hydrochloride, protic ionic glass-former with isomerization ability. The studies performed at ambient and elevated pressure revealed the fast relaxation dynamics that may control the proton conductivity, especially at temperatures T < Tg where the vehicle mechanism contribution is negligible.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kasprowicz, D; Chiasera, A; Chappini, A; Zur, L; Gapiński, Jacek; Chrunik, M; Majchrowski, A; Jastrzab, R; Ferrari, M
Up-conversion luminescence of RE3+ -doped polymer composites KGd(WO4)2&PMMA Journal Article
In: vol. 88, pp. 366 - 371, 2019, ISSN: 0925-3467.
@article{KASPROWICZ2019366,
title = {Up-conversion luminescence of RE3+ -doped polymer composites KGd(WO4)2&PMMA},
author = {D Kasprowicz and A Chiasera and A Chappini and L Zur and Jacek Gapiński and M Chrunik and A Majchrowski and R Jastrzab and M Ferrari},
url = {http://www.sciencedirect.com/science/article/pii/S0925346718307924},
doi = {https://doi.org/10.1016/j.optmat.2018.12.001},
issn = {0925-3467},
year = {2019},
date = {2019-01-01},
volume = {88},
pages = {366 - 371},
abstract = {Poly(methyl methacrylate) (PMMA)-based luminescent materials are of prime interest for many new optoelectronic devices. This work presents the spectroscopic properties of PMMA-based composites containing KGd(WO4)2:Yb3+/Er3+/Tm3+, KGd(WO4)2:Yb3+/Tm3+ and KGd(WO4)2:Yb3+/Er3+ powders. These systems exhibit effective multicolor up-conversion luminescence in VIS and NIR spectral range under 980 nm excitation. The vibrational properties of the composites were investigated for the first time using the μ-Raman spectroscopy. The obtained results suggest that the KGd(WO4)2:Yb3+/Er3+/Tm3+&PMMA integrated system can be successfully used as a new phosphor for the up-conversion based optoelectronic devices.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kang, E; Graczykowski, Bartłomiej; Jonas, U; Christie, D; Gray, L A G; Cangialosi, D; Priestley, R D; Fytas, Georg
Shell Architecture Strongly Influences the Glass Transition, Surface Mobility, and Elasticity of Polymer Core-Shell Nanoparticles Journal Article
In: Macromolecules, vol. 52, no. 14, pp. 5399-5406, 2019.
@article{Kang20195399,
title = {Shell Architecture Strongly Influences the Glass Transition, Surface Mobility, and Elasticity of Polymer Core-Shell Nanoparticles},
author = {E Kang and Bartłomiej Graczykowski and U Jonas and D Christie and L A G Gray and D Cangialosi and R D Priestley and Georg Fytas},
url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85070272667&doi=10.1021%2facs.macromol.9b00766&partnerID=40&md5=2dcd70191d0df0d80f2a608e2ce143cc},
doi = {10.1021/acs.macromol.9b00766},
year = {2019},
date = {2019-01-01},
journal = {Macromolecules},
volume = {52},
number = {14},
pages = {5399-5406},
abstract = {Despite the growing application of nanostructured polymeric materials, there still remains a large gap in our understanding of polymer mechanics and thermal stability under confinement and near polymer-polymer interfaces. In particular, the knowledge of polymer nanoparticle thermal stability and mechanics is of great importance for their application in drug delivery, phononics, and photonics. Here, we quantified the effects of a polymer shell layer on the modulus and glass-transition temperature (Tg) of polymer core-shell nanoparticles via Brillouin light spectroscopy and modulated differential scanning calorimetry, respectively. Nanoparticles consisting of a polystyrene (PS) core and shell layers of poly(n-butyl methacrylate) (PBMA) were characterized as model systems. We found that the high Tg of the PS core was largely unaffected by the presence of an outer polymer shell, whereas the lower Tg of the PBMA shell layer decreased with increasing PBMA thickness. The surface mobility was revealed at a temperature about 15 K lower than the Tg of the PBMA shell layer. Overall, the modulus of the core-shell nanoparticles decreased with increasing PBMA shell layer thickness. These results suggest that the nanoparticle modulus and Tg can be tuned independently through the control of nanoparticle composition and architecture. © 2019 American Chemical Society.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Graczykowski, Bartłomiej; Gueddida, A; Djafari-Rouhani, B; Butt, H -J; Fytas, Georg
Brillouin light scattering under one-dimensional confinement: Symmetry and interference self-canceling Journal Article
In: Physical Review B, vol. 99, no. 16, 2019.
@article{Graczykowski2019,
title = {Brillouin light scattering under one-dimensional confinement: Symmetry and interference self-canceling},
author = {Bartłomiej Graczykowski and A Gueddida and B Djafari-Rouhani and H -J Butt and Georg Fytas},
url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85065496617&doi=10.1103%2fPhysRevB.99.165431&partnerID=40&md5=fc7596c288a1a9ecba8176296c150eac},
doi = {10.1103/PhysRevB.99.165431},
year = {2019},
date = {2019-01-01},
journal = {Physical Review B},
volume = {99},
number = {16},
abstract = {We present the spontaneous Brillouin light scattering (BLS) under simultaneous one-dimensional confinement of sound and light and show that the photon-phonon coupling results from nontrivial interplay of the photoelastic and moving-interface effects. We reveal two types of BLS self-canceling: governed by mode symmetry and driven by destructive interference of the two effects. We show that the latter can be adjusted by the light polarization and phonon wave number. Furthermore, we present a measurement of the shear-horizontal waves in thin membranes. © 2019 American Physical Society.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Jarzębski, Maciej; Peplińska, Barbara; Florczak, Patryk; Gapiński, Jacek; Flak, Dorota; Mała, Patrycja; Ramanavicius, Arunas; Baryła-Pankiewicz, Elżbieta; Cisowska, Joanna Kobus-; Szwajca, Anna
Fluorescein ether-ester dyes for labeling of fluorinated methacrylate nanoparticles Journal Article
In: Journal of Photochemistry and Photobiology A: Chemistry, vol. 382, pp. 111956, 2019, ISSN: 1010-6030.
@article{JARZEBSKI2019111956,
title = {Fluorescein ether-ester dyes for labeling of fluorinated methacrylate nanoparticles},
author = {Maciej Jarzębski and Barbara Peplińska and Patryk Florczak and Jacek Gapiński and Dorota Flak and Patrycja Mała and Arunas Ramanavicius and Elżbieta Baryła-Pankiewicz and Joanna Kobus- Cisowska and Anna Szwajca},
url = {http://www.sciencedirect.com/science/article/pii/S1010603019304058},
doi = {https://doi.org/10.1016/j.jphotochem.2019.111956},
issn = {1010-6030},
year = {2019},
date = {2019-01-01},
journal = {Journal of Photochemistry and Photobiology A: Chemistry},
volume = {382},
pages = {111956},
abstract = {Fluorescent core-shell particles are used as versatile fluorophores in confocal microscopy based image analysis and as a colloidal model system to study short and long-range interactions. Bright and stable microspherical probes are proposed as promising materials, especially in bioimaging applications. The release of dyes from fluorescent polymer microspheres is undesirable. Covalent linking of dyes within polymeric spheres during the polymerization process can solve the problem of dye leaching. This requires, e.g. the introduction of reactive groups into the dyes. Its more lipophilic ester-ether derivatives considerably reduced fluorescence. The fluorescent quantum yield of prepared nanoparticles was determined to be below 10%. As-prepared nanoparticles exhibited a low refractive index (1.293–1.349), hence their use is recommended. Scanning electron microscope (SEM) images and the fluorescence correlation spectroscopy (FCS) measurements confirmed high polydispersity of synthesized particles (40–230 nm), and are in agreement with the dynamic light scattering (DLS) and nanoparticle tracking analysis (NTA) results (hydrodynamic diameters 203 ± 9, 548 ± 50, 146 ± 2 nm). The zeta potential of fluorescent 1H,1H-heptafluoro-n-butyl methacrylate (HFBMA) shell nanoparticles (NPs) with propargyl ether-esters, 2-methyl allyl ether-esters and allyl ether-esters of fluorescein was -44.5,-14, -44.7 mV, respectively. The values are different despite the slight difference in the structure of ester-ether derivatives.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2018
Liveri, Vincenzo Turco; Lombardo, Domenico; Pochylski, Mikolaj; Calandra, Pietro
Molecular association of small amphiphiles: Origin of ionic liquid properties in dibutyl phosphate/propylamine binary mixtures Journal Article
In: Journal of Molecular Liquids, vol. 263, pp. 274–281, 2018.
@article{TurcoLiveri2018,
title = {Molecular association of small amphiphiles: Origin of ionic liquid properties in dibutyl phosphate/propylamine binary mixtures},
author = {Vincenzo Turco Liveri and Domenico Lombardo and Mikolaj Pochylski and Pietro Calandra},
url = {https://doi.org/10.1016/j.molliq.2018.05.003},
doi = {10.1016/j.molliq.2018.05.003},
year = {2018},
date = {2018-08-01},
journal = {Journal of Molecular Liquids},
volume = {263},
pages = {274--281},
publisher = {Elsevier BV},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Boś-Liedke, Agnieszka; Walawender, Magdalena; Woźniak, Anna; Flak, Dorota; Gapiński, Jacek; Jurga, Stefan; Kucińska, Małgorzata; Plewiński, Adam; Murias, Marek; Elewa, Marwa; Lampp, Lisa; Imming, Peter; Tadyszak, Krzysztof
EPR Oximetry Sensor-Developing a TAM Derivative for In Vivo Studies Journal Article
In: Cell Biochemistry and Biophysics, vol. 76, no. 1, pp. 19–28, 2018, ISSN: 1559-0283.
@article{Boś-Liedke2018,
title = {EPR Oximetry Sensor-Developing a TAM Derivative for In Vivo Studies},
author = {Agnieszka Boś-Liedke and Magdalena Walawender and Anna Woźniak and Dorota Flak and Jacek Gapiński and Stefan Jurga and Małgorzata Kucińska and Adam Plewiński and Marek Murias and Marwa Elewa and Lisa Lampp and Peter Imming and Krzysztof Tadyszak},
url = {https://doi.org/10.1007/s12013-017-0824-3},
doi = {10.1007/s12013-017-0824-3},
issn = {1559-0283},
year = {2018},
date = {2018-06-01},
journal = {Cell Biochemistry and Biophysics},
volume = {76},
number = {1},
pages = {19--28},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Szewczyk, Sebastian; Giera, Wojciech; Białek, Rafał; Burdziński, Gotard; Gibasiewicz, Krzysztof
Acceleration of the excitation decay in Photosystem I immobilized on glass surface Journal Article
In: Photosynthesis Research, vol. 136, no. 2, pp. 171-181, 2018, ISSN: 0166-8595.
@article{Szewczyk2018b,
title = {Acceleration of the excitation decay in Photosystem I immobilized on glass surface},
author = {Sebastian Szewczyk and Wojciech Giera and Rafał Białek and Gotard Burdziński and Krzysztof Gibasiewicz},
url = {http://link.springer.com/10.1007/s11120-017-0454-z},
doi = {10.1007/s11120-017-0454-z},
issn = {0166-8595},
year = {2018},
date = {2018-05-01},
journal = {Photosynthesis Research},
volume = {136},
number = {2},
pages = {171-181},
abstract = {textcopyright 2017 The Author(s) Femtosecond transient absorption was used to study excitation decay in monomeric and trimeric cyanobacterial Photosystem I (PSI) being prepared in three states: (1) in aqueous solution, (2) deposited and dried on glass surface (either conducting or non-conducting), and (3) deposited on glass (conducting) surface but being in contact with aqueous solvent. The main goal of this contribution was to determine the reason of the acceleration of the excitation decay in dried PSI deposited on the conducting surface relative to PSI in solution observed previously using time-resolved fluorescence (Szewczyk et al., Photysnth Res 132(2):111–126, 2017). We formulated two alternative working hypotheses: (1) the acceleration results from electron injection from PSI to the conducting surface; (2) the acceleration is caused by dehydration and/or crowding of PSI proteins deposited on the glass substrate. Excitation dynamics of PSI in all three types of samples can be described by three main components of subpicosecond, 3–5, and 20–26 ps lifetimes of different relative contributions in solution than in PSI-substrate systems. The presence of similar kinetic components for all the samples indicates intactness of PSI proteins after their deposition onto the substrates. The kinetic traces for all systems with PSI deposited on substrates are almost identical and they decay significantly faster than the kinetic traces of PSI in solution. We conclude that the accelerated excitation decay in PSI-substrate systems is caused mostly by dense packing of proteins.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Łukarska, M; Jankowska, A; Gapiński, Jacek; Valable, S; Anfray, C; Menard, B; Mintova, S; Kowalak, S
Encapsulation of fluorescein into nanozeolites L and Y Journal Article
In: Microporous and Mesoporous Materials, vol. 260, pp. 70–75, 2018, ISSN: 13871811.
@article{ukarska2018,
title = {Encapsulation of fluorescein into nanozeolites L and Y},
author = {M Łukarska and A Jankowska and Jacek Gapiński and S Valable and C Anfray and B Menard and S Mintova and S Kowalak},
url = {https://www.sciencedirect.com/science/article/pii/S1387181117306959 http://linkinghub.elsevier.com/retrieve/pii/S1387181117306959},
doi = {10.1016/j.micromeso.2017.10.040},
issn = {13871811},
year = {2018},
date = {2018-04-01},
journal = {Microporous and Mesoporous Materials},
volume = {260},
pages = {70--75},
publisher = {Elsevier},
abstract = {Fluorescein (F) species were encapsulated inside nanosized zeolites L and Y by their synthesis from adsorbed precursors (phthalic anhydride (Ph) and resorcinol (R)). The applied nanozeolites were modified either with H+ or Zn2+ cations and they played roles of the catalysts for synthesis of F and of the matrices for resulting dye molecules. The F loading, its tautomeric forms and optical properties of obtained composites depended on zeolite structure, morphology and on introduced cations. The composites usually showed higher fluorescence intensity than the pristine dye. The highest fluorescence intensity was noticed for the sample with nano-ZnL matrix. This intensity was much higher than that observed for composite with conventional micro-sized Zn L zeolite. Regarding an efficient fluorescence and nanosize of the obtained composites they seem promising fluorescent tracer for medical (theranostic) applications.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Skupin-Mrugalska, Paulina; Sobotta, Lukasz; Warowicka, Alicja; Wereszczynska, Beata; Zalewski, Tomasz; Gierlich, Piotr; Jarek, Marcin; Nowaczyk, Grzegorz; Kempka, Marek; Gapiński, Jacek; Jurga, Stefan; Mielcarek, Jadwiga
Theranostic liposomes as a bimodal carrier for magnetic resonance imaging contrast agent and photosensitizer Journal Article
In: Journal of Inorganic Biochemistry, vol. 180, pp. 1–14, 2018, ISSN: 01620134.
@article{Skupin-Mrugalska2018,
title = {Theranostic liposomes as a bimodal carrier for magnetic resonance imaging contrast agent and photosensitizer},
author = {Paulina Skupin-Mrugalska and Lukasz Sobotta and Alicja Warowicka and Beata Wereszczynska and Tomasz Zalewski and Piotr Gierlich and Marcin Jarek and Grzegorz Nowaczyk and Marek Kempka and Jacek Gapiński and Stefan Jurga and Jadwiga Mielcarek},
url = {http://linkinghub.elsevier.com/retrieve/pii/S0162013417305366},
doi = {10.1016/j.jinorgbio.2017.11.025},
issn = {01620134},
year = {2018},
date = {2018-03-01},
journal = {Journal of Inorganic Biochemistry},
volume = {180},
pages = {1--14},
abstract = {The present study is focused on the development of liposomes bearing gadolinium chelate (GdLip) providing two functionalities for magnetic resonance imaging (MRI) and photodynamic therapy of cancer. A lipid derivative of gadolinium(III) diethylenetriamine pentaacetic acid salt (GdDTPA1) was inserted in the liposomal membrane and served as MRI contrast agent whereas a zinc phthalocyanine (ZnPc) was used as a model photosensitizer. In addition to conventional liposomes, pegylated lipids were used for the preparation of “stealth” liposomes. The characterization of different GdLip formulations involved evaluation of the liposomes size by nanoparticle tracking analysis, thermal phase behavior by differential scanning calorimetry and ZnPc-mediated singlet oxygen production. Furthermore, relaxivity measurements were performed as well as cytotoxicity and photodynamic activity against cancerous and normal cell lines was studied. Size and thermal behavior were only slightly influenced by GdLip composition, however it distinctly affected singlet oxygen production of ZnPc-loaded GdLip. The quantum yields of singlet oxygen generation by zinc phthalocyanine incorporated in GdLip containing cationic or/and pegylated lipids were smaller than those obtained for non-pegylated carriers with l-$alpha$-phosphatidylglycerol. In general, all formulations of GdLip, irrespectively of composition, were characterized by relaxivities higher than those of commercially used contrast agents (e.g. Magnevisttextregistered). NMR study has shown that the incorporation of ZnPc into the formulations of GdLip increases the relaxation parameters r1 and r2, compared to the values for the non-loaded vesicles. GdDTPA1 did not influence the photodynamic activity of ZnPc against HeLa cells.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Meier, G; Gapiński, Jacek; Ratajczyk, M; Lettinga, M P; Hirtz, K; Banachowicz, Ewa; Patkowski, Adam
In: The Journal of Chemical Physics, vol. 148, no. 9, pp. 094201, 2018.
@article{Meier2018,
title = {Nano-viscosity of supercooled liquid measured by fluorescence correlation spectroscopy: Pressure and temperature dependence and the density scaling},
author = {G Meier and Jacek Gapiński and M Ratajczyk and M P Lettinga and K Hirtz and Ewa Banachowicz and Adam Patkowski},
url = {https://doi.org/10.1063/1.5011196},
doi = {10.1063/1.5011196},
year = {2018},
date = {2018-01-01},
journal = {The Journal of Chemical Physics},
volume = {148},
number = {9},
pages = {094201},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ivashchenko, Olena; Peplinska, Barbara; Gapiński, Jacek; Flak, Dorota; Jarek, Marcin; Zaleski, Karol; Nowaczyk, Grzegorz; Pietralik, Zuzanna; Jurga, Stefan
Silver and ultrasmall iron oxides nanoparticles in hydrocolloids: effect of magnetic field and temperature on self-organization Journal Article
In: Scientific Reports, vol. 8, no. 1, pp. 4041, 2018, ISSN: 2045-2322.
@article{Ivashchenko2018,
title = {Silver and ultrasmall iron oxides nanoparticles in hydrocolloids: effect of magnetic field and temperature on self-organization},
author = {Olena Ivashchenko and Barbara Peplinska and Jacek Gapiński and Dorota Flak and Marcin Jarek and Karol Zaleski and Grzegorz Nowaczyk and Zuzanna Pietralik and Stefan Jurga},
url = {https://doi.org/10.1038/s41598-018-22426-2},
doi = {10.1038/s41598-018-22426-2},
issn = {2045-2322},
year = {2018},
date = {2018-01-01},
journal = {Scientific Reports},
volume = {8},
number = {1},
pages = {4041},
abstract = {Micro/nanostructures, which are assembled from various nanosized building blocks are of great scientific interests due to their combined features in the micro- and nanometer scale. This study for the first time demonstrates that ultrasmall superparamagnetic iron oxide nanoparticles can change the microstructure of their hydrocolloids under the action of external magnetic field. We aimed also at the establishment of the physiological temperature (39 textdegreeC) influence on the self-organization of silver and ultrasmall iron oxides nanoparticles (NPs) in hydrocolloids. Consequences of such induced changes were further investigated in terms of their potential effect on the biological activity in vitro. Physicochemical characterization included X-ray diffraction (XRD), optical microscopies (SEM, cryo-SEM, TEM, fluorescence), dynamic light scattering (DLS) techniques, energy dispersive (EDS), Fourier transform infrared (FTIR) and ultraviolet-visible (UV-Vis) spectroscopies, zeta-potential and magnetic measurements. The results showed that magnetic field affected the hydrocolloids microstructure uniformity, fluorescence properties and photodynamic activity. Likewise, increased temperature caused changes in NPs hydrodynamic size distribution and in hydrocolloids microstructure. Magnetic field significantly improved photodynamic activity that was attributed to enhanced generation of reactive oxygen species due to reorganization of the microstructure.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Zawadzka, Katarzyna; Zawadzki, Paweł; Baker, Rachel; Rajasekar, Karthik V; Wagner, Florence; Sherratt, David J; Arciszewska, Lidia K
MukB ATPases are regulated independently by the N- and C-terminal domains of MukF kleisin Journal Article
In: eLife, vol. 7, 2018.
@article{Zawadzka2018,
title = {MukB ATPases are regulated independently by the N- and C-terminal domains of MukF kleisin},
author = {Katarzyna Zawadzka and Paweł Zawadzki and Rachel Baker and Karthik V Rajasekar and Florence Wagner and David J Sherratt and Lidia K Arciszewska},
url = {https://doi.org/10.7554/elife.31522},
doi = {10.7554/elife.31522},
year = {2018},
date = {2018-01-01},
journal = {eLife},
volume = {7},
publisher = {eLife Sciences Organisation, Ltd.},
abstract = {The Escherichia coli SMC complex, MukBEF, acts in chromosome segregation. MukBEF shares the distinctive architecture of other SMC complexes, with one prominent difference; unlike other kleisins, MukF forms dimers through its N-terminal domain. We show that a 4-helix bundle adjacent to the MukF dimerisation domain interacts functionally with the MukB coiled-coiled ‘neck’ adjacent to the ATPase head. We propose that this interaction leads to an asymmetric tripartite complex, as in other SMC complexes. Since MukF dimerisation is preserved during this interaction, MukF directs the formation of dimer of dimer MukBEF complexes, observed previously in vivo. The MukF N- and C-terminal domains stimulate MukB ATPase independently and additively. We demonstrate that impairment of the MukF interaction with MukB in vivo leads to ATP hydrolysis-dependent release of MukBEF complexes from chromosomes.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Koralewski, Marceli; Balejčíková, Lucia; Mitróová, Zuzana; Pochylski, Mikołaj; Baranowski, Mikołaj; Kopčanský, Peter
Morphology and Magnetic Structure of the Ferritin Core during Iron Loading and Release by Magnetooptical and NMR Methods Journal Article
In: ACS Applied Materials & Interfaces, vol. 10, no. 9, pp. 7777-7787, 2018, (PMID: 29417811).
@article{Koralewski2018,
title = {Morphology and Magnetic Structure of the Ferritin Core during Iron Loading and Release by Magnetooptical and NMR Methods},
author = {Marceli Koralewski and Lucia Balejčíková and Zuzana Mitróová and Mikołaj Pochylski and Mikołaj Baranowski and Peter Kopčanský},
url = {https://doi.org/10.1021/acsami.7b18304},
doi = {10.1021/acsami.7b18304},
year = {2018},
date = {2018-01-01},
journal = {ACS Applied Materials & Interfaces},
volume = {10},
number = {9},
pages = {7777-7787},
abstract = {Ferritins are proteins, which serve as a storage and transportation capsule for iron inside living organisms. Continuously charging the proteins with iron and releasing it from the ferritin is necessary to assure proper management of these important ions within the organism. On the other hand, synthetic ferritins have great potential for biomedical and technological applications. In this work, the behavior of ferritin during the processes of iron loading and release was examined using multiplicity of the experimental technique. The quality of the protein’s shell was monitored using circular dichroism, whereas the average size and its distribution were estimated from dynamic light scattering and transmission electron microscopy images, respectively. Because of the magnetic behavior of the iron mineral, a number of magnetooptical methods were used to gain information on the iron core of the ferritin. Faraday rotation and magnetic linear birefringence studies provide evidence that the iron loading and the iron-release processes are not symmetrical. The spatial organization of the mineral within the protein’s core changes depending on whether the iron was incorporated into or removed from the ferritin’s shell. Magnetic optical rotatory dispersion spectra exclude the contribution of the Fe(II)-composed mineral, whereas joined magnetooptical and nuclear magnetic resonance results indicate that no mineral with high magnetization appear at any stage of the loading/release process. These findings suggest that the iron core of loaded/released ferritin consists of single-phase, that is, ferrihydrite. The presented results demonstrate the usefulness of emerging magnetooptical methods in biomedical research and applications.},
note = {PMID: 29417811},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Białek, Rafał; Swainsbury, David J K; Wiesner, Maciej; Jones, Michael R; Gibasiewicz, Krzysztof
Modelling of the cathodic and anodic photocurrents from Rhodobacter sphaeroides reaction centres immobilized on titanium dioxide Journal Article
In: Photosynthesis Research, vol. 0, no. 0, pp. 0, 2018, ISSN: 0166-8595.
@article{Biaek2018,
title = {Modelling of the cathodic and anodic photocurrents from Rhodobacter sphaeroides reaction centres immobilized on titanium dioxide},
author = {Rafał Białek and David J K Swainsbury and Maciej Wiesner and Michael R Jones and Krzysztof Gibasiewicz},
url = {http://link.springer.com/10.1007/s11120-018-0550-8},
doi = {10.1007/s11120-018-0550-8},
issn = {0166-8595},
year = {2018},
date = {2018-01-01},
journal = {Photosynthesis Research},
volume = {0},
number = {0},
pages = {0},
publisher = {Springer Netherlands},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Giera, Wojciech; Szewczyk, Sebastian; McConnell, Michael D; Redding, Kevin E; van Grondelle, Rienk; Gibasiewicz, Krzysztof
Uphill energy transfer in photosystem I from Chlamydomonas reinhardtii. Time-resolved fluorescence measurements at 77 K Journal Article
In: Photosynthesis Research, vol. 137, no. 2, pp. 321-335, 2018, ISSN: 1573-5079.
@article{Giera2018,
title = {Uphill energy transfer in photosystem I from Chlamydomonas reinhardtii. Time-resolved fluorescence measurements at 77 K},
author = {Wojciech Giera and Sebastian Szewczyk and Michael D McConnell and Kevin E Redding and Rienk van Grondelle and Krzysztof Gibasiewicz},
url = {https://doi.org/10.1007/s11120-018-0506-z},
doi = {10.1007/s11120-018-0506-z},
issn = {1573-5079},
year = {2018},
date = {2018-01-01},
journal = {Photosynthesis Research},
volume = {137},
number = {2},
pages = {321-335},
abstract = {Energetic properties of chlorophylls in photosynthetic complexes are strongly modulated by their interaction with the protein matrix and by inter-pigment coupling. This spectral tuning is especially striking in photosystem I (PSI) complexes that contain low-energy chlorophylls emitting above 700 nm. Such low-energy chlorophylls have been observed in cyanobacterial PSI, algal and plant PSI--LHCI complexes, and individual light-harvesting complex I (LHCI) proteins. However, there has been no direct evidence of their presence in algal PSI core complexes lacking LHCI. In order to determine the lowest-energy states of chlorophylls and their dynamics in algal PSI antenna systems, we performed time-resolved fluorescence measurements at 77 K for PSI core and PSI--LHCI complexes isolated from the green alga Chlamydomonas reinhardtii. The pool of low-energy chlorophylls observed in PSI cores is generally smaller and less red-shifted than that observed in PSI--LHCI complexes. Excitation energy equilibration between bulk and low-energy chlorophylls in the PSI--LHCI complexes at 77 K leads to population of excited states that are less red-shifted (by textasciitildethinspace12 nm) than at room temperature. On the other hand, analysis of the detection wavelength dependence of the effective trapping time of bulk excitations in the PSI core at 77 K provided evidence for an energy threshold at textasciitildethinspace675 nm, above which trapping slows down. Based on these observations, we postulate that excitation energy transfer from bulk to low-energy chlorophylls and from bulk to reaction center chlorophylls are thermally activated uphill processes that likely occur via higher excitonic states of energy accepting chlorophylls.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2017
Wojnarowska, Z; Rams-Baron, M; Knapik-Kowalczuk, J; Połatyńska, Agnieszka; Pochylski, Mikołaj; Gapiński, Jacek; Patkowski, Adam; Wlodarczyk, P; Paluch, M
Experimental evidence of high pressure decoupling between charge transport and structural dynamics in a protic ionic glass-former Journal Article
In: Scientific Reports, vol. 7, no. 1, pp. 7084, 2017, ISSN: 2045-2322.
@article{Wojnarowska2017,
title = {Experimental evidence of high pressure decoupling between charge transport and structural dynamics in a protic ionic glass-former},
author = {Z Wojnarowska and M Rams-Baron and J Knapik-Kowalczuk and Agnieszka Połatyńska and Mikołaj Pochylski and Jacek Gapiński and Adam Patkowski and P Wlodarczyk and M Paluch},
url = {http://www.nature.com/articles/s41598-017-07136-5},
doi = {10.1038/s41598-017-07136-5},
issn = {2045-2322},
year = {2017},
date = {2017-12-01},
journal = {Scientific Reports},
volume = {7},
number = {1},
pages = {7084},
publisher = {Nature Publishing Group},
abstract = {textcopyright 2017 The Author(s). In this paper the relaxation dynamics of ionic glass-former acebutolol hydrochloride (ACB-HCl) is studied as a function of temperature and pressure by using dynamic light scattering and broadband dielectric spectroscopy. These unique experimental data provide the first direct evidence that the decoupling between the charge transport and structural relaxation exists in proton conductors over a wide T-P thermodynamic space, with the time scale of structural relaxation being constant at the liquid-glass transition ($tau$ $alpha$ = 1000 s). We demonstrate that the enhanced proton transport, being a combination of intermolecular H + hopping between cation and anion as well as tautomerization process within amide moiety of ACB molecule, results in a breakdown of the Stokes-Einstein relation at ambient and elevated pressure with the fractional exponent k being pressure dependent. The dT g /dP coefficient, stretching exponent $beta$ KWW and dynamic modulus E a /$Delta$V # were found to be the same regardless of the relaxation processes studied. This is in contrast to the apparent activation volume parameter that is different when charge transport and structural dynamics are considered. These experimental results together with theoretical considerations create new ideas to design efficient proton conductors for potential electrochemical applications.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Coy, Emerson; Graczyk, Piotr; Yate, Luis; Załęski, Karol; Gapiński, Jacek; Kuświk, Piotr; Mielcarek, Sławomir; Stobiecki, Feliks; Mróz, Bogusław; Ferrater, Cesar; Jurga, Stefan
Second Harmonic Generation Response in Thermally reconstructed Multiferroic $beta$′- Gd2(MoO4)3 Thin Films Journal Article
In: Scientific Reports, vol. 7, no. 1, pp. 11800, 2017, ISSN: 2045-2322.
@article{Coy2017,
title = {Second Harmonic Generation Response in Thermally reconstructed Multiferroic $beta$′- Gd2(MoO4)3 Thin Films},
author = {Emerson Coy and Piotr Graczyk and Luis Yate and Karol Załęski and Jacek Gapiński and Piotr Kuświk and Sławomir Mielcarek and Feliks Stobiecki and Bogusław Mróz and Cesar Ferrater and Stefan Jurga},
url = {http://www.nature.com/articles/s41598-017-12370-y},
doi = {10.1038/s41598-017-12370-y},
issn = {2045-2322},
year = {2017},
date = {2017-12-01},
journal = {Scientific Reports},
volume = {7},
number = {1},
pages = {11800},
publisher = {Nature Publishing Group},
abstract = {Gd2(MoO4)3 (GMO) is a well-studied multiferroic material that exhibits full ferroelectric and ferroelastic behavior at room temperature. However, its difficult stabilization in thin films has prevented the study and exploitation of its multiferroic properties in different architectures. Here, we report on the study of GMO thin films deposited on Si(001) substrates by Pulsed Laser Deposition (PLD). The physicochemical properties of the films are discussed and studied. Results obtained by X-ray diffraction, X-ray photoelectron spectroscopy, high resolution transmission microscopy and second harmonic generation show that the orthorhombic ($beta$′-GMO) multiferroic phase can be stabilized and homogenized by post deposition thermal reconstruction. Finally, the reconstruction process takes place via a complex surface mechanism with a clear leaf-like behavior.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Jarzębski, Maciej; Śliwa, Tomasz; Peplińska, Barbara; Jakubowicz, Jarosław; Kuzioła, Rafał; Kościński, Jeremi; Białopiotrowicz, Tomasz; Gapiński, Jacek
Submicron sized fluorescent silica particles characterization Journal Article
In: Nuclear Instruments and Methods in Physics Research, Section B: Beam Interactions with Materials and Atoms, vol. 411, pp. 78–84, 2017, ISSN: 0168583X.
@article{Jarzebski2017,
title = {Submicron sized fluorescent silica particles characterization},
author = {Maciej Jarzębski and Tomasz Śliwa and Barbara Peplińska and Jarosław Jakubowicz and Rafał Kuzioła and Jeremi Kościński and Tomasz Białopiotrowicz and Jacek Gapiński},
url = {https://www.sciencedirect.com/science/article/pii/S0168583X17301118},
doi = {10.1016/j.nimb.2017.01.088},
issn = {0168583X},
year = {2017},
date = {2017-11-01},
journal = {Nuclear Instruments and Methods in Physics Research, Section B: Beam Interactions with Materials and Atoms},
volume = {411},
pages = {78--84},
publisher = {North-Holland},
abstract = {Silica nano- and submicron particles are examples of commonly used nanomaterials with frequently modified surface properties. Various enhanced methods of the fluorescent particles preparations give the opportunities for applications of fluorescent SiO2as a model system for biomedical interactions between the particles and biostructures such as cells, including beam interactions with materials. Fluorescent core-shell structures were prepared by modified Stoeber method, where the fluorescent agent was included in the core and then surrounded by a protective shell. As a fluorescent agent Rhodamine-B isothiocyanate was used. The core-shell tunneling size structure was formed by addition of TEOS (tetraethyl orthosilicate) to the base mixture. The size of the particles were investigated by dynamic light scattering (DLS), nanoparticle tracking analysis (NTA), fluorescence correlation spectroscopy (FCS). Shape and morphology were studied by the transmission and scanning electron microscopy. The fluorescence behavior of the particles was confirmed using NTA in the fluorescent mode and LSM (laser scanning microscope). We confirmed the hydrodynamic diameter in the range between 300 and 1000 nm using the FCS technique. XRD spectra of fluorescent SiO2were also obtained. This study shows practical aspects of use of selected characterization methods for submicron particle characterization, especially with regard to their fluorescent behavior.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ivashchenko, Olena; Gapiński, Jacek; Peplińska, Barbara; Przysiecka, Łucja; Zalewski, Tomasz; Nowaczyk, Grzegorz; Jarek, Marcin; Marcinkowska-Gapińska, Anna; Jurga, Stefan
In: Materials & Design, vol. 133, pp. 307–324, 2017, ISSN: 02641275.
@article{Ivashchenko2017a,
title = {Self-organizing silver and ultrasmall iron oxide nanoparticles prepared with ginger rhizome extract: Characterization, biomedical potential and microstructure analysis of hydrocolloids},
author = {Olena Ivashchenko and Jacek Gapiński and Barbara Peplińska and Łucja Przysiecka and Tomasz Zalewski and Grzegorz Nowaczyk and Marcin Jarek and Anna Marcinkowska-Gapińska and Stefan Jurga},
url = {https://www.sciencedirect.com/science/article/pii/S0264127517307475 http://linkinghub.elsevier.com/retrieve/pii/S0264127517307475},
doi = {10.1016/j.matdes.2017.08.001},
issn = {02641275},
year = {2017},
date = {2017-11-01},
journal = {Materials & Design},
volume = {133},
pages = {307--324},
publisher = {Elsevier},
abstract = {Multimodal nanoparticles (NPs) that may be used for therapies and diagnostics is the most promising trend for efficient therapy. We demonstrate that nanocomposite based on self-organizing silver and ultrasmall magnetic iron oxide NPs (MAg) produced in one-step synthesis revealed unique combination of fluorescence, bactericidal, fungicidal properties and have a potential as magnetic resonance imaging (MRI) contrast agent. Using the green chemistry approach, ginger (Zingiber officinale) rhizome extract was applied as capping agent for MAg synthesis, providing also additional fluorescent properties of NPs and inducing hydrocolloids structuring. The MAg were investigated by X-ray diffraction (XRD), scanning electron microscopy (SEM), transmission electron microscopy (TEM), energy dispersive microanalysis (EDS), fluorescence microscopy, cryo-SEM, dynamic light scattering (DLS) techniques, Fourier transform infrared (FTIR) and ultraviolet–visible (UV–Vis) spectroscopies. MAg dispersions in water and some biological media are very stable which is important for biomedical application. The existence of microstructure in MAg hydrocolloids was proved. The hierarchical character and high ordering of this microstructure were discovered and its level-by-level building blocks were investigated. The microstructure was found to be responsible for fluorescence emittance of MAg hydrocolloids. The properties as well as potential application of the MAg hydrocolloids is yet to be discovered.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Poznar, Monika; Hołubowicz, Rafał; Wojtas, Magdalena; Gapiński, Jacek; Banachowicz, Ewa; Patkowski, Adam; Ożyhar, Andrzej; Dobryszycki, Piotr
Structural properties of the intrinsically disordered, multiple calcium ion-binding otolith matrix macromolecule-64 (OMM-64) Journal Article
In: Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, vol. 1865, no. 11, pp. 1358–1371, 2017, ISSN: 15709639.
@article{Poznar2017,
title = {Structural properties of the intrinsically disordered, multiple calcium ion-binding otolith matrix macromolecule-64 (OMM-64)},
author = {Monika Poznar and Rafał Hołubowicz and Magdalena Wojtas and Jacek Gapiński and Ewa Banachowicz and Adam Patkowski and Andrzej Ożyhar and Piotr Dobryszycki},
url = {https://www.sciencedirect.com/science/article/pii/S1570963917302054?via%3Dihub http://linkinghub.elsevier.com/retrieve/pii/S1570963917302054},
doi = {10.1016/j.bbapap.2017.08.019},
issn = {15709639},
year = {2017},
date = {2017-11-01},
journal = {Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics},
volume = {1865},
number = {11},
pages = {1358--1371},
publisher = {Elsevier},
abstract = {Fish otoliths are calcium carbonate biominerals that are involved in hearing and balance sensing. An organic matrix plays a crucial role in their formation. Otolith matrix macromolecule-64 (OMM-64) is a highly acidic, calcium-binding protein (CBP) found in rainbow trout otoliths. It is a component of high-molecular-weight aggregates, which influence the size, shape and polymorph of calcium carbonate in vitro. In this study, a protocol for the efficient expression and purification of OMM-64 was developed. For the first time, the complete structural characteristics of OMM-64 were described. Various biophysical methods were combined to show that OMM-64 occurs as an intrinsically disordered monomer. Under denaturing conditions (pH, temperature) OMM-64 exhibits folding propensity. It was determined that OMM-64 binds approximately 61 calcium ions with millimolar affinity. The folding-unfolding experiments showed that calcium ions induced the collapse of OMM-64. The effect of other counter ions present in trout endolymph on OMM-64 conformational changes was studied. The significance of disordered properties of OMM-64 and the possible function of this protein is discussed.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Sarbak, Szymon; Sharma, Gargi; Joseph, Cecil S; Kucia, Weronika; Dobek, Krzysztof; Giles, Robert H; Dobek, Andrzej
Direct observation of the THz Kerr effect (TKE) in deionized, distilled and buffered (PBS) water Journal Article
In: Physical Chemistry Chemical Physics, vol. 19, no. 39, pp. 26749-26757, 2017.
@article{Sarbak2017,
title = {Direct observation of the THz Kerr effect (TKE) in deionized, distilled and buffered (PBS) water},
author = {Szymon Sarbak and Gargi Sharma and Cecil S Joseph and Weronika Kucia and Krzysztof Dobek and Robert H Giles and Andrzej Dobek},
doi = {10.1039/C7CP04061J},
year = {2017},
date = {2017-09-08},
journal = {Physical Chemistry Chemical Physics},
volume = {19},
number = {39},
pages = {26749-26757},
abstract = {Nonlinear THz pump–optical probe (THz–OKE) measurements in deionized, distilled and buffered (PBS) water are reported. A laser system that produces pulses at 800 nm, 30 fs FWHM, at a repetition rate of 1 kHz and an energy of 6 μJ per pulse, was a source of the probe optical beam and of the pump beam of THz 2 ps pulses. The electric field strength inducing birefringence in water samples was ETHz = 1.35 × 106 V m−1. These samples were chosen in order to study the effect of ionic concentration on water behavior in the ultrafast time scale. Differentiation between ultrafast effects resulting from internal H2O properties and those resulting from H2O–ion interactions was analyzed. These two effects may be connected to a difference in the fluctuations of the network of intermolecular hydrogen bonds of water molecules in the presence and absence of ions in solution. The results indicate that such fluctuations significantly alter water birefringence amplitude and its dynamics.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Łukarska, M; Jankowska, A; Gapiński, Jacek; Valable, S; Anfray, C; Menard, B; Mintova, S; Kowalak, S
Synthesis of fluorescein by a ship-in-a-bottle method in different zeolites Journal Article
In: New Journal of Chemistry, vol. 41, no. 18, pp. 9969–9976, 2017, ISSN: 1144-0546.
@article{ukarska2017,
title = {Synthesis of fluorescein by a ship-in-a-bottle method in different zeolites},
author = {M Łukarska and A Jankowska and Jacek Gapiński and S Valable and C Anfray and B Menard and S Mintova and S Kowalak},
url = {http://xlink.rsc.org/?DOI=C7NJ01427A},
doi = {10.1039/C7NJ01427A},
issn = {1144-0546},
year = {2017},
date = {2017-09-01},
journal = {New Journal of Chemistry},
volume = {41},
number = {18},
pages = {9969--9976},
publisher = {The Royal Society of Chemistry},
abstract = {Composites consisting of fluorescein (F) entrapped inside various zeolite structures ( i.e. FAU, LTL, MFI, and LTA) were prepared by catalytic synthesis of the dye from its precursors (phthalic anhydride and resorcinol) adsorbed in the zeolites.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Śliwa, Tomasz; Jarzębski, Maciej; Andrzejewska, Ewa; Szafran, Mikołaj; Gapiński, Jacek
Uptake and controlled release of a dye from thermo-sensitive polymer P(NIPAM- co -Vim) Journal Article
In: Reactive and Functional Polymers, vol. 115, pp. 102–108, 2017, ISSN: 13815148.
@article{Sliwa2017,
title = {Uptake and controlled release of a dye from thermo-sensitive polymer P(NIPAM- co -Vim)},
author = {Tomasz Śliwa and Maciej Jarzębski and Ewa Andrzejewska and Mikołaj Szafran and Jacek Gapiński},
url = {https://www.sciencedirect.com/science/article/pii/S1381514817300718?via%3Dihub http://linkinghub.elsevier.com/retrieve/pii/S1381514817300718},
doi = {10.1016/j.reactfunctpolym.2017.04.003},
issn = {13815148},
year = {2017},
date = {2017-06-01},
journal = {Reactive and Functional Polymers},
volume = {115},
pages = {102--108},
publisher = {Elsevier},
abstract = {Copolymers of N-isopropylacrylamide (PNIPAM) are one of the most promising microgel materials for medical applications, especially as a drug carrier. PNIPAMs present unique properties, such as size variation with changing pH and/or temperature. The results of a study on the uptake and release of a dye (Orange II) by microgels of N-isopropylacrylamide copolymer with 1-vinylimidazole (P(NIPAM-co-Vim) are presented. The dye was used as a model low-molecular substance. Hydrodynamic radius (Rh) of P(NIPAM-co-Vim) particles was measured by dynamic light scattering as a function of temperature in two pH environments: acidic and basic. The dye particles contraction was monitored as a function of temperature at pH 4. The measurements of the zeta potential indicated a positive charge of P(NIPAM-co-Vim) particles at pH 4 and a negative one at pH 9. The key experiments were the internalization and the release of the dye. The effectiveness of this process was measured by UV-Vis spectroscopy on the supernatant derived from centrifuged P(NIPAM-co-Vim) suspension. At room temperature the efficiency of trapping of the dye by the microgel at pH 4 was 87%. Changing pH of a sample initially saturated with the dye from 4 to 9 led to a complete release of the trapped dye.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Szewczyk, Sebastian; Giera, Wojciech; D'Haene, Sandrine; van Grondelle, Rienk; Gibasiewicz, Krzysztof
Comparison of excitation energy transfer in cyanobacterial photosystem I in solution and immobilized on conducting glass Journal Article
In: Photosynthesis Research, vol. 132, no. 2, pp. 111–126, 2017, ISSN: 0166-8595.
@article{Szewczyk2017b,
title = {Comparison of excitation energy transfer in cyanobacterial photosystem I in solution and immobilized on conducting glass},
author = {Sebastian Szewczyk and Wojciech Giera and Sandrine D'Haene and Rienk van Grondelle and Krzysztof Gibasiewicz},
url = {http://link.springer.com/10.1007/s11120-016-0312-4},
doi = {10.1007/s11120-016-0312-4},
issn = {0166-8595},
year = {2017},
date = {2017-05-01},
journal = {Photosynthesis Research},
volume = {132},
number = {2},
pages = {111--126},
publisher = {Springer Netherlands},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Krysztofiak, Katarzyna; Ciężar, Kamila; Kościński, Mikołaj
Raman imaging of layered soft contact lenses Journal Article
In: Journal of Applied Biomaterials & Functional Materials, vol. 15, no. 2, pp. 0–0, 2017, ISSN: 2280-8000.
@article{Krysztofiak2017,
title = {Raman imaging of layered soft contact lenses},
author = {Katarzyna Krysztofiak and Kamila Ciężar and Mikołaj Kościński},
url = {http://www.ncbi.nlm.nih.gov/pubmed/27791229 http://www.jab-fm.com/article/c1122e89-9243-410f-9c37-1e338fa1ce62},
doi = {10.5301/jabfm.5000329},
issn = {2280-8000},
year = {2017},
date = {2017-04-01},
journal = {Journal of Applied Biomaterials & Functional Materials},
volume = {15},
number = {2},
pages = {0--0},
publisher = {Wichtig Publishing s.r.l.},
abstract = {BACKGROUND Daily disposable contact lenses are gaining in popularity among practitioners and wearers for the improved ocular health and subjective outcomes they offer. Recently a novel daily disposable contact lens material with water gradient technology was introduced. Delefilcon A lenses consist of a 33% water content silicone hydrogel core and an outer hydrogel layer which is totally free of silicone and contains 80% water. METHODS The aim of the present study was to confirm the layered structure of delefilcon A contact lenses. Thickness of hydrogel coating on the silicone hydrogel core was assessed using Raman spectroscopy. To investigate the layered structure of the material, depth spectra of the lenses were recorded. RESULTS The results obtained suggest that at about 6 $mu$m a boundary between the hydrogel layer and silicone hydrogel core exists, which is in good agreement with the manufacturer's data. CONCLUSIONS Data collected in this experiment confirm a water gradient at the delefilcon A lens surface.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ivashchenko, Olena; Woźniak, Anna; Coy, Emerson; Peplinska, Barbara; Gapiński, Jacek; Jurga, Stefan
Release and cytotoxicity studies of magnetite/Ag/antibiotic nanoparticles: An interdependent relationship Journal Article
In: Colloids and Surfaces B: Biointerfaces, vol. 152, pp. 85–94, 2017, ISSN: 18734367.
@article{Ivashchenko2017b,
title = {Release and cytotoxicity studies of magnetite/Ag/antibiotic nanoparticles: An interdependent relationship},
author = {Olena Ivashchenko and Anna Woźniak and Emerson Coy and Barbara Peplinska and Jacek Gapiński and Stefan Jurga},
url = {https://www.sciencedirect.com/science/article/pii/S0927776517300176},
doi = {10.1016/j.colsurfb.2017.01.009},
issn = {18734367},
year = {2017},
date = {2017-04-01},
journal = {Colloids and Surfaces B: Biointerfaces},
volume = {152},
pages = {85--94},
publisher = {Elsevier},
abstract = {Though the cytotoxic properties of magnetite nanoparticles (NPs) are rather well investigated and known to be dose dependent and rather low, surface functionalization can drastically change their properties. To determine whether the cytotoxicity of magnetite/Ag/antibiotic NPs may be associated, among other things, with iron, silver and antibiotic release, this study investigates the release profiles and cytotoxicity of magnetite/Ag/rifampicin and magnetite/Ag/doxycycline NPs compares it similar profiles from magnetite, magnetite/Ag NPs and antibiotics. It was established that the studied NPs released not only water-soluble substances, such as antibiotics, but also poorly-soluble ones, such as iron and silver. The deposition of silver on the magnetite surface promotes the release of iron by the formation of a galvanic couple. Antibiotic adsorbed on the magnetite/Ag surface plays a dual role in the galvanic corrosion processes: as a corrosion inhibitor for iron oxides and as a corrosion promoter for silver. Magnetite/Ag/rifampicin and magnetite/Ag/doxycycline. NPs were found to have greater cytotoxicity towards the HEK293T cell line than magnetite NPs. These results were attributed to the combined toxic action of the released iron, silver ions and antibiotics. Intensive and simultaneous release of the NP components caused cell stress and suppressed their growth.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Połatyńska, Agnieszka; Tomczyk, Karolina; Pochylski, Mikołaj; Meier, Gerd; Gapiński, Jacek; Banachowicz, Ewa; Śliwa, Tomasz; Patkowski, Adam
Temperature dependent FCS studies using a long working distance objective: Viscosities of supercooled liquids and particle size Journal Article
In: Journal of Chemical Physics, vol. 146, no. 8, pp. 084506, 2017, ISSN: 00219606.
@article{Poatynska2017,
title = {Temperature dependent FCS studies using a long working distance objective: Viscosities of supercooled liquids and particle size},
author = {Agnieszka Połatyńska and Karolina Tomczyk and Mikołaj Pochylski and Gerd Meier and Jacek Gapiński and Ewa Banachowicz and Tomasz Śliwa and Adam Patkowski},
url = {http://aip.scitation.org/doi/10.1063/1.4977047},
doi = {10.1063/1.4977047},
issn = {00219606},
year = {2017},
date = {2017-02-01},
journal = {Journal of Chemical Physics},
volume = {146},
number = {8},
pages = {084506},
publisher = {AIP Publishing LLC},
abstract = {In this work, we describe new experimental setups for Fluorescence Correlation Spectroscopy (FCS) where a long working distance objective is used. Using these setups, FCS measurements in a broad temperature range for a small sample volume of about 50 $mu$l can be performed. The use of specially designed cells and a dry long working distance objective was essential for avoiding temperature gradients in the sample. The performance of the new setups and a traditional FCS setup with immersion objectives is compared. The FCS data in combination with the Stokes-Einstein (SE) relation were used to obtain the values of the nanoviscosity of a fluid. We show for selected molecular van der Waals supercooled liquids that despite the fact that in these systems, a characteristic length scale can be defined, the nanoviscosity obtained from FCS is in a very good agreement with the macroscopic (rheometric) viscosity of the sample in a broad temperature range. This result corroborates the applicability of the SE relation to s...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kiełbowicz-Matuk, Agnieszka; Czarnecka, Jagoda; Banachowicz, Ewa; Rey, Pascal; Rorat, Tadeusz
Solanum tuberosum ZPR1 encodes a light-regulated nuclear DNA-binding protein adjusting the circadian expression of StBBX24 to light cycle Journal Article
In: Plant, Cell & Environment, vol. 40, no. 3, pp. 424–440, 2017, ISSN: 1365-3040, (PCE-16-0763.R1).
@article{PCE:PCE12875,
title = {Solanum tuberosum ZPR1 encodes a light-regulated nuclear DNA-binding protein adjusting the circadian expression of StBBX24 to light cycle},
author = {Agnieszka Kiełbowicz-Matuk and Jagoda Czarnecka and Ewa Banachowicz and Pascal Rey and Tadeusz Rorat},
url = {http://dx.doi.org/10.1111/pce.12875},
doi = {10.1111/pce.12875},
issn = {1365-3040},
year = {2017},
date = {2017-01-01},
journal = {Plant, Cell & Environment},
volume = {40},
number = {3},
pages = {424--440},
note = {PCE-16-0763.R1},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pokrzywa, Małgorzata; Pawełek, Katarzyna; Kucia, Weronika; Sarbak, Szymon; Chorell, Erik; Almqvist, Fredrik; Wittung-Stafshede, Pernilla
Effects of small-molecule amyloid modulators on a Drosophila model of Parkinson’s disease Journal Article
In: PLOS ONE, vol. 12, no. 9, pp. 1-21, 2017.
@article{Pokrzywa2017,
title = {Effects of small-molecule amyloid modulators on a Drosophila model of Parkinson’s disease},
author = {Małgorzata Pokrzywa and Katarzyna Pawełek and Weronika Kucia and Szymon Sarbak and Erik Chorell and Fredrik Almqvist and Pernilla Wittung-Stafshede},
url = {https://doi.org/10.1371/journal.pone.0184117},
doi = {10.1371/journal.pone.0184117},
year = {2017},
date = {2017-01-01},
journal = {PLOS ONE},
volume = {12},
number = {9},
pages = {1-21},
publisher = {Public Library of Science},
abstract = {Alpha-synuclein (aS) amyloid formation is involved in Parkinson’s disease (PD); therefore, small molecules that target aS and affect its aggregation are of interest as future drug candidates. We recently reported modified ring-fused 2-pyridones that modulate aS amyloid formation in vitro. Here, we describe the effects of such molecules on behavioral parameters of a Drosophila model of PD (i.e., flies expressing human aS), using a new approach (implemented in a commercially available FlyTracker system) to quantify fly mobility. FlyTracker allows for automated analysis of walking and climbing locomotor behavior, as it collects large sequences of data over time in an unbiased manner. We found that the molecules per se have no toxic or kinetic effects on normal flies. Feeding aS-expressing flies with the amyloid-promoting molecule FN075, remarkably, resulted in increased fly mobility at early time points; however, this effect switched to reduced mobility at later time points, and flies had shorter life spans than controls. In contrast, an amyloid inhibitor increased both fly kinetics and life span. In agreement with increased aS amyloid formation, the FN075-fed flies had less soluble aS, and in vitro aS-FN075 interactions stimulated aS amyloid formation. In addition to a new quantitative approach to probe mobility (available in FlyTracker), our results imply that aS regulates brain activity such that initial removal (here, by FN075-triggered assembly of aS) allows for increased fly mobility.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2016
Łukarska, Małgorzata; Jankowska, Aldona; Gapiński, Jacek; Valable, Samuel; Anfray, Clement; Menard, Benjamin; Mintova, Svetlana; Kowalak, Stanisław
Synthesis and encapsulation of fluorescein in zeolite Y Journal Article
In: Microporous and Mesoporous Materials, vol. 236, pp. 79–84, 2016, ISSN: 13871811.
@article{ukarska2016,
title = {Synthesis and encapsulation of fluorescein in zeolite Y},
author = {Małgorzata Łukarska and Aldona Jankowska and Jacek Gapiński and Samuel Valable and Clement Anfray and Benjamin Menard and Svetlana Mintova and Stanisław Kowalak},
url = {https://www.sciencedirect.com/science/article/pii/S138718111630018X http://linkinghub.elsevier.com/retrieve/pii/S138718111630018X},
doi = {10.1016/j.micromeso.2016.02.043},
issn = {13871811},
year = {2016},
date = {2016-12-01},
journal = {Microporous and Mesoporous Materials},
volume = {236},
pages = {79--84},
publisher = {Elsevier},
abstract = {Fluorescein was entrapped inside FAU type zeolite (Y) by generating it from resorcinol and phthalic anhydride. Prior to the formation of fluorescein, zeolite Y was modified with various cations (H, Zn, Ce, Na, K). The modified zeolite acted as catalysts for the fluorescein Friedel–Crafts reaction synthesis, while at the same time it played a role of matrix for the stabilization and homogeneous dispersion of the guest molecules. The nature of the different cations influenced the content of fluorescein generated in the zeolite, and favoured the formation of some dye isomers (i.e. anion, dianion, cation or transition metal complex). The contribution of different fluorescein derivatives in the products was reflected in their absorption and fluorescence properties. The H-, Ce-, and Zn- containing Y zeolites revealed the highest content of fluorescein due to their distinct acid active sites. The composites with H- and ZnY zeolites indicated much higher fluorescence than that of the pristine fluorescein. Moreover, fluorescein in zeolite Y matrices did not show any photobleaching under continuous illumination ($łambda$ = 730 nm, in a two-photon experiment for 180 s), which suggests that these materials could be used for biomedical applications.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pochylski, Mikołaj; Iwaszkiewicz-Kostka, I; Kaczmarek, M S; Woźniak, Z; Drozdowski, H
Molecular orientation in binary liquid mixtures from excess Cotton-Mouton constant Journal Article
In: Journal of Molecular Liquids, vol. 224, pp. 146–150, 2016, ISSN: 01677322.
@article{Pochylski2016,
title = {Molecular orientation in binary liquid mixtures from excess Cotton-Mouton constant},
author = {Mikołaj Pochylski and I Iwaszkiewicz-Kostka and M S Kaczmarek and Z Woźniak and H Drozdowski},
url = {https://www.sciencedirect.com/science/article/pii/S0167732216323121 http://linkinghub.elsevier.com/retrieve/pii/S0167732216323121},
doi = {10.1016/j.molliq.2016.09.124},
issn = {01677322},
year = {2016},
date = {2016-12-01},
journal = {Journal of Molecular Liquids},
volume = {224},
pages = {146--150},
publisher = {Elsevier},
abstract = {We show the results of magnetically induced birefringence measurements performed in binary mixtures of simple molecular liquids. New excess function was introduced based on experimentally determined values of Cotton-Mouton constant - a quantity directly related to the induced orientation of anisotropic molecules. Concentration dependencies of excess molar Cotton-Mouton constant were compared with analogous characteristics of excess molar volume. Both excess functions are well reproduced using Redlich-Kister polynomial expansion. The results suggest that in the examined mixtures binary pairs of unlike molecules are formed in which molecular planes are oriented parallel to each other with simultaneous rotation along the axis perpendicular to benzene plane. Such preferred angular arrangement is independent on the average intermolecular distance within a pair-aggregate.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kucia, Weronika; Sharma, Gargi; Joseph, Cecil S; Sarbak, Szymon; Oliver, Cameron; Dobek, Andrzej; Giles, Robert H
Optical Kerr effect of tRNA solution induced by femtosecond laser pulses Journal Article
In: Chemical Physics Letters, vol. 662, pp. 132–136, 2016, ISSN: 00092614.
@article{Kucia2016,
title = {Optical Kerr effect of tRNA solution induced by femtosecond laser pulses},
author = {Weronika Kucia and Gargi Sharma and Cecil S Joseph and Szymon Sarbak and Cameron Oliver and Andrzej Dobek and Robert H Giles},
url = {https://www.sciencedirect.com/science/article/pii/S0009261416306996 http://linkinghub.elsevier.com/retrieve/pii/S0009261416306996},
doi = {10.1016/j.cplett.2016.09.027},
issn = {00092614},
year = {2016},
date = {2016-10-01},
journal = {Chemical Physics Letters},
volume = {662},
pages = {132--136},
publisher = {North-Holland},
abstract = {The optical Kerr effect (OKE) in a transfer ribonucleic acid (tRNA) solution induced by femtosecond pulses of linearly polarized pump light ($łambda$i=800nm) and sounded by probe light ($łambda$p=800nm) was studied. The measurements were performed to find nonlinear optical parameters describing a single molecule (molecular Kerr constant K, mean nonlinear third order optical polarizability cpi) and to compare them with our previous OKE results obtained in ns and ps time range. The OKE experiment has proven to be an efficient method to obtain the nonlinear parameters of single molecules in solution, which reflects dynamic structure changes.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Babayevska, N; Peplińska, B; Jarek, M; Yate, L; Tadyszak, K; Gapiński, Jacek; Iatsunskyi, I; Jurga, S
Synthesis, structure, EPR studies and up-conversion luminescence of ZnO:Er 3+ –Yb 3+ @Gd 2 O 3 nanostructures Journal Article
In: RSC Advances, vol. 6, no. 92, pp. 89305–89312, 2016, ISSN: 2046-2069.
@article{Babayevska2016,
title = {Synthesis, structure, EPR studies and up-conversion luminescence of ZnO:Er 3+ –Yb 3+ @Gd 2 O 3 nanostructures},
author = {N Babayevska and B Peplińska and M Jarek and L Yate and K Tadyszak and Jacek Gapiński and I Iatsunskyi and S Jurga},
url = {http://xlink.rsc.org/?DOI=C6RA18393J},
doi = {10.1039/C6RA18393J},
issn = {2046-2069},
year = {2016},
date = {2016-09-01},
journal = {RSC Advances},
volume = {6},
number = {92},
pages = {89305--89312},
publisher = {The Royal Society of Chemistry},
abstract = {ZnO:Er 3+ –Yb 3+ @Gd 2 O 3 nanostructures were obtained by “ wet ” chemistry methods – the sol–gel technique for the preparation of ZnO and ZnO:Er 3+ –Yb 3+ nanoparticles (NPs), and the seed deposition method for obtaining Gd 2 O 3 .},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Mazuryk, Jarosław; Deptuła, Tobiasz; Polchi, Alice; Gapiński, Jacek; Giovagnoli, Stefano; Magini, Alessandro; Emiliani, Carla; Kohlbrecher, Joachim; Patkowski, Adam
Rapamycin-loaded solid lipid nanoparticles: Morphology and impact of the drug loading on the phase transition between lipid polymorphs Journal Article
In: Colloids and Surfaces A: Physicochemical and Engineering Aspects, vol. 502, pp. 54–65, 2016, ISSN: 09277757.
@article{Mazuryk2016,
title = {Rapamycin-loaded solid lipid nanoparticles: Morphology and impact of the drug loading on the phase transition between lipid polymorphs},
author = {Jarosław Mazuryk and Tobiasz Deptuła and Alice Polchi and Jacek Gapiński and Stefano Giovagnoli and Alessandro Magini and Carla Emiliani and Joachim Kohlbrecher and Adam Patkowski},
url = {https://www.sciencedirect.com/science/article/pii/S0927775716303259 http://linkinghub.elsevier.com/retrieve/pii/S0927775716303259},
doi = {10.1016/j.colsurfa.2016.05.017},
issn = {09277757},
year = {2016},
date = {2016-08-01},
journal = {Colloids and Surfaces A: Physicochemical and Engineering Aspects},
volume = {502},
pages = {54--65},
publisher = {Elsevier},
abstract = {In recent decades solid lipid nanoparticles (SLN) have become a well-performing tool for the site-targeted delivery of water-insoluble drugs. In this study, Compritoltextregistered 888 ATO-based SLN, coated with polysorbate 80, were loaded with rapamycin (Rap), a lipophilic immunomodulator, broadly-used in therapies of cancer and neurodegenerative diseases. Rap-SLN were formulated using cold high-pressure homogenization and ultrasound-assisted emulsion. The exploitation of these methods yielded the nanoparticles of various values of zeta-potential (from −1mV to −20mV) and efficacies of the Rap entrapment (from 37.5±2.3% to 77.0±5.4%). The SEM and AFM imaging and shape-modeling by the combined DLS-SANS analysis revealed that the Rap-SLN of the hydrodynamic radius of ∼46nm preserve the platelet-like or flat ellipsoidal structure with a thickness as large as 8–9nm. These dimensions correspond to a single lipid bilayer, organized in a triclinic L$beta$ polymorph, and covered with a 1–2-nm shell of the surfactant. Consistently, FT-IR spectra acquired in the range 52–75°C, showed that the Rap incorporation within the lipid matrix decreases the point of the gel-liquid crystalline (L$beta$-L$alpha$) phase transition. These outcomes imply a thermodynamically-driven mechanism of the Rap release from SLN.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Stracy, Mathew; Jaciuk, Marcin; Uphoff, Stephan; Kapanidis, Achillefs N; Nowotny, Marcin; Sherratt, David J; Zawadzki, Paweł
Single-molecule imaging of UvrA and UvrB recruitment to DNA lesions in living Escherichia coli Journal Article
In: Nature Communications, vol. 7, pp. 12568, 2016, ISSN: 2041-1723.
@article{Stracy2016,
title = {Single-molecule imaging of UvrA and UvrB recruitment to DNA lesions in living Escherichia coli},
author = {Mathew Stracy and Marcin Jaciuk and Stephan Uphoff and Achillefs N Kapanidis and Marcin Nowotny and David J Sherratt and Paweł Zawadzki},
url = {http://www.nature.com/doifinder/10.1038/ncomms12568},
doi = {10.1038/ncomms12568},
issn = {2041-1723},
year = {2016},
date = {2016-08-01},
journal = {Nature Communications},
volume = {7},
pages = {12568},
publisher = {Nature Publishing Group},
abstract = {Nucleotide excision repair is able to identify and remove a wide range of DNA helix distorting lesions from the genome. Here the authors use single molecule imaging of UvrA and UvrB molecules and suggest a two-step ‘scan and recruit' model for UvrA function.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Białek, Rafał; Burdziński, Gotard; Jones, Michael R; Gibasiewicz, Krzysztof
Bacteriopheophytin triplet state in Rhodobacter sphaeroides reaction centers Journal Article
In: Photosynthesis Research, vol. 129, no. 2, pp. 205–216, 2016, ISSN: 0166-8595.
@article{Biaek2016,
title = {Bacteriopheophytin triplet state in Rhodobacter sphaeroides reaction centers},
author = {Rafał Białek and Gotard Burdziński and Michael R Jones and Krzysztof Gibasiewicz},
url = {http://link.springer.com/10.1007/s11120-016-0290-6},
doi = {10.1007/s11120-016-0290-6},
issn = {0166-8595},
year = {2016},
date = {2016-08-01},
journal = {Photosynthesis Research},
volume = {129},
number = {2},
pages = {205--216},
publisher = {Springer Netherlands},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Białek, Rafał; Pajzderska, Maria; Karolczak, Jerzy; Burdziński, Gotard; Jones, Michael R; Brettel, Klaus
Weak temperature dependence of P + H A − recombination in mutant Rhodobacter sphaeroides reaction centers Journal Article
In: Photosynthesis Research, vol. 128, no. 3, pp. 243–258, 2016, ISSN: 0166-8595.
@article{Gibasiewicz2016,
title = {Weak temperature dependence of P + H A − recombination in mutant Rhodobacter sphaeroides reaction centers},
author = {Krzysztof Gibasiewicz and Rafał Białek and Maria Pajzderska and Jerzy Karolczak and Gotard Burdziński and Michael R Jones and Klaus Brettel},
url = {http://www.ncbi.nlm.nih.gov/pubmed/26942583 http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=PMC4877430 http://link.springer.com/10.1007/s11120-016-0239-9},
doi = {10.1007/s11120-016-0239-9},
issn = {0166-8595},
year = {2016},
date = {2016-06-01},
journal = {Photosynthesis Research},
volume = {128},
number = {3},
pages = {243--258},
abstract = {In contrast with findings on the wild-type Rhodobacter sphaeroides reaction center, biexponential P (+) H A (-) → PH A charge recombination is shown to be weakly dependent on temperature between 78 and 298 K in three variants with single amino acids exchanged in the vicinity of primary electron acceptors. These mutated reaction centers have diverse overall kinetics of charge recombination, spanning an average lifetime from ~2 to ~20 ns. Despite these differences a protein relaxation model applied previously to wild-type reaction centers was successfully used to relate the observed kinetics to the temporal evolution of the free energy level of the state P (+) H A (-) relative to P (+) B A (-) . We conclude that the observed variety in the kinetics of charge recombination, together with their weak temperature dependence, is caused by a combination of factors that are each affected to a different extent by the point mutations in a particular mutant complex. These are as follows: (1) the initial free energy gap between the states P (+) B A (-) and P (+) H A (-) , (2) the intrinsic rate of P (+) B A (-) → PB A charge recombination, and (3) the rate of protein relaxation in response to the appearance of the charge separated states. In the case of a mutant which displays rapid P (+) H A (-) recombination (ELL), most of this recombination occurs in an unrelaxed protein in which P (+) B A (-) and P (+) H A (-) are almost isoenergetic. In contrast, in a mutant in which P (+) H A (-) recombination is relatively slow (GML), most of the recombination occurs in a relaxed protein in which P (+) H A (-) is much lower in energy than P (+) H A (-) . The weak temperature dependence in the ELL reaction center and a YLH mutant was modeled in two ways: (1) by assuming that the initial P (+) B A (-) and P (+) H A (-) states in an unrelaxed protein are isoenergetic, whereas the final free energy gap between these states following the protein relaxation is large (~250 meV or more), independent of temperature and (2) by assuming that the initial and final free energy gaps between P (+) B A (-) and P (+) H A (-) are moderate and temperature dependent. In the case of the GML mutant, it was concluded that the free energy gap between P (+) B A (-) and P (+) H A (-) is large at all times.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dubas, Katarzyna; Baranowski, M; Podhorodecki, A; Jones, M R; Gibasiewicz, Krzysztof
Unified Model of Nanosecond Charge Recombination in Closed Reaction Centers from Rhodobacter sphaeroides : Role of Protein Polarization Dynamics Journal Article
In: The Journal of Physical Chemistry B, vol. 120, no. 22, pp. 4890–4896, 2016, ISSN: 1520-6106.
@article{Dubas2016,
title = {Unified Model of Nanosecond Charge Recombination in Closed Reaction Centers from Rhodobacter sphaeroides : Role of Protein Polarization Dynamics},
author = {Katarzyna Dubas and M Baranowski and A Podhorodecki and M R Jones and Krzysztof Gibasiewicz},
url = {http://pubs.acs.org/doi/10.1021/acs.jpcb.6b01459},
doi = {10.1021/acs.jpcb.6b01459},
issn = {1520-6106},
year = {2016},
date = {2016-06-01},
journal = {The Journal of Physical Chemistry B},
volume = {120},
number = {22},
pages = {4890--4896},
publisher = {American Chemical Society},
abstract = {Ongoing questions surround the influence of protein dynamics on rapid processes such as biological electron transfer. Such questions are particularly addressable in light-activated systems. In Rhodobacter sphaeroides reaction centers, charge recombination or back electron transfer from the reduced bacteriopheophytin, HA–, to the oxidized dimeric bacteriochlorophyll, P+, may be monitored by both transient absorption spectroscopy and transient fluorescence spectroscopy. Signals measured with both these techniques decay in a similar three-exponential fashion with lifetimes of ∼0.6–0.7, ∼2–4, and ∼10–20 ns, revealing the complex character of this electron transfer reaction. In this study a single kinetic model was developed to connect lifetime and amplitude data from both techniques. The model took into account the possibility that electron transfer from HA– to P+ may occur with transient formation of the state P+BA–. As a result it was possible to model the impact of nanosecond protein relaxation on the free...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kiełbowicz-Matuk, Agnieszka; Banachowicz, Ewa; Turska-Tarska, Anna; Rey, Pascal; Rorat, Tadeusz
Expression and characterization of a barley phosphatidylinositol transfer protein structurally homologous to the yeast Sec14p protein Journal Article
In: Plant Science, vol. 246, pp. 98–111, 2016, ISSN: 01689452.
@article{Kiebowicz-Matuk2016,
title = {Expression and characterization of a barley phosphatidylinositol transfer protein structurally homologous to the yeast Sec14p protein},
author = {Agnieszka Kiełbowicz-Matuk and Ewa Banachowicz and Anna Turska-Tarska and Pascal Rey and Tadeusz Rorat},
url = {http://linkinghub.elsevier.com/retrieve/pii/S0168945216300267},
doi = {10.1016/j.plantsci.2016.02.014},
issn = {01689452},
year = {2016},
date = {2016-05-01},
journal = {Plant Science},
volume = {246},
pages = {98--111},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Polchi, Alice; Magini, Alessandro; Mazuryk, Jarosław; Tancini, Brunella; Gapiński, Jacek; Patkowski, Adam; Giovagnoli, Stefano; Emiliani, Carla
Rapamycin Loaded Solid Lipid Nanoparticles as a New Tool to Deliver mTOR Inhibitors: Formulation and in Vitro Characterization Journal Article
In: Nanomaterials, vol. 6, no. 5, pp. 87, 2016, ISSN: 2079-4991.
@article{Polchi2016,
title = {Rapamycin Loaded Solid Lipid Nanoparticles as a New Tool to Deliver mTOR Inhibitors: Formulation and in Vitro Characterization},
author = {Alice Polchi and Alessandro Magini and Jarosław Mazuryk and Brunella Tancini and Jacek Gapiński and Adam Patkowski and Stefano Giovagnoli and Carla Emiliani},
url = {http://www.mdpi.com/2079-4991/6/5/87},
doi = {10.3390/nano6050087},
issn = {2079-4991},
year = {2016},
date = {2016-05-01},
journal = {Nanomaterials},
volume = {6},
number = {5},
pages = {87},
publisher = {Multidisciplinary Digital Publishing Institute},
abstract = {Recently, the use of mammalian target of rapamycin (mTOR) inhibitors, in particular rapamycin (Rp), has been suggested to improve the treatment of neurodegenerative diseases. However, as Rp is a strong immunosuppressant, specific delivery to the brain has been postulated to avoid systemic exposure. In this work, we fabricated new Rp loaded solid lipid nanoparticles (Rp-SLN) stabilized with polysorbate 80 (PS80), comparing two different methods and lipids. The formulations were characterized by differential scanning calorimetry (DSC), nuclear magnetic resonance (NMR), wide angle X-ray scattering (WAXS), cryo-transmission electron microscopy (cryo-TEM), dynamic light scattering (DLS) and particle tracking. In vitro release and short-term stability were assessed. Biological behavior of Rp-SLN was tested in SH-SY5Y neuroblastoma cells. The inhibition of mTOR complex 1 (mTORC1) was evaluated over time by a pulse-chase study compared to free Rp and Rp nanocrystals. Compritol Rp-SLN resulted more stable and possessing proper size and surface properties with respect to cetyl palmitate Rp-SLN. Rapamycin was entrapped in an amorphous form in the solid lipid matrix that showed partial crystallinity with stable L$beta$, sub-L$alpha$ and L$beta$′ arrangements. PS80 was stably anchored on particle surface. No drug release was observed over 24 h and Rp-SLN had a higher cell uptake and a more sustained effect over a week. The mTORC1 inhibition was higher with Rp-SLN. Overall, compritol Rp-SLN show suitable characteristics and stability to be considered for further investigation as Rp brain delivery system.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Michalska, Martyna; Florczak, Anna; Dams-Kozlowska, Hanna; Gapiński, Jacek; Jurga, Stefan; ë, Rapha
Peptide-functionalized ZCIS QDs as fluorescent nanoprobe for targeted HER2-positive breast cancer cells imaging Journal Article
In: Acta Biomaterialia, vol. 35, pp. 293–304, 2016, ISSN: 17427061.
@article{Michalska2016,
title = {Peptide-functionalized ZCIS QDs as fluorescent nanoprobe for targeted HER2-positive breast cancer cells imaging},
author = {Martyna Michalska and Anna Florczak and Hanna Dams-Kozlowska and Jacek Gapiński and Stefan Jurga and Rapha ë},
url = {https://www.sciencedirect.com/science/article/pii/S1742706116300459 http://linkinghub.elsevier.com/retrieve/pii/S1742706116300459},
doi = {10.1016/j.actbio.2016.02.002},
issn = {17427061},
year = {2016},
date = {2016-04-01},
journal = {Acta Biomaterialia},
volume = {35},
pages = {293--304},
publisher = {Elsevier},
abstract = {In this paper, the synthesis of alloyed CuInZnxS2+x quantum dots (ZCIS QDs), their transfer into aqueous solution via a polymer coating technique, and the use of these nanocrystals to selectively target HER2-positive cells, are reported. By optimizing first the ZnS shell deposition process onto the CuInS2 core, and next the encapsulation of the dots with the amphiphilic poly(maleic anhydride-alt-1-octadecene) (PMAO) polymer, water-dispersible ZCIS QDs were successfully prepared. The nanocrystals with a photoluminescence quantum yield of 35% were purified via centrifugation and ultracentrifugation and high quality nanoparticles with narrow size distributions and surface charges were obtained. After verifying the biocompatibility of PMO-coated ZCIS QDs, we coupled these nanocrystals with the LTVSPWY peptide and demonstrated via MTT assay that both bare and the peptide-linked QDs exhibit low cytotoxicity. The HER2-mediated delivery of the peptide-linked QDs was confirmed by confocal microscopy. This study indicates that as engineered QDs can efficiently be used as fluorescent nanoprobes for selective labelling of HER2-positive SKBR3 cancer cells.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Jarzębski, Maciej; Zhang, Yingze; Śliwa, Tomasz; Mazuryk, Jarosław; Deptuła, Tobiasz; Kucinska, Malgorzata; Murias, Marek; Buitenhuis, Johan; Gapiński, Jacek; Patkowski, Adam
In: Journal of Fluorine Chemistry, vol. 183, pp. 92–99, 2016, ISSN: 00221139.
@article{Jarzebski2016,
title = {Core–shell fluorinated methacrylate nanoparticles with Rhodamine-B for confocal microscopy and fluorescence correlation spectroscopy applications},
author = {Maciej Jarzębski and Yingze Zhang and Tomasz Śliwa and Jarosław Mazuryk and Tobiasz Deptuła and Malgorzata Kucinska and Marek Murias and Johan Buitenhuis and Jacek Gapiński and Adam Patkowski},
url = {https://www.sciencedirect.com/science/article/pii/S0022113916300148 http://linkinghub.elsevier.com/retrieve/pii/S0022113916300148},
doi = {10.1016/j.jfluchem.2016.01.014},
issn = {00221139},
year = {2016},
date = {2016-03-01},
journal = {Journal of Fluorine Chemistry},
volume = {183},
pages = {92--99},
publisher = {Elsevier},
abstract = {There is a need to develop nanosized and submicron sized stable and efficient fluorescent particles for confocal microscopy and fluorescence correlation spectroscopy, which are useful methods to study dynamics and interactions in complex colloidal systems and living cells. Fluorescent core–transparent shell fluorinated polymer nanoparticles exhibit low refractive index, close to that of water, high fluorescence efficiency, high stability and no cytotoxicity which makes them excellent probes for water based and living systems. Fluorescent core–transparent shell submicron particles were synthesized using 1H,1H-heptafluoro-n-butyl methacrylate (HFBMA) as a monomer and Rhodamine-B-isothiocyanate as a dye. The fluorescent polymeric core was surrounded by a non-fluorescent shell obtained by the seeded growth synthesis. The spherical shape of the particles was confirmed by scanning electron microscopy and the particle size in suspension was characterized by dynamic light scattering (DLS) and fluorescence correlation spectroscopy (FCS). The effect of different reaction parameters, such as initiator concentration and polymerization time on the particle size and charge density as well as their toxicity were studied. The smallest nanoparticles, of diameter d=240nm for the core measured by DLS, were obtained with higher initiator concentration. Repeated confocal imaging, DLS and FCS measurements after a few months up to two years confirmed high fluorescence efficiency, stability and usefulness of prepared particles as versatile systems for confocal microscopy and fluorescence correlation spectroscopy studies in water-based colloidal suspensions. The cytotoxicity tests confirmed a possible use of these nanoparticles also in living cells.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gapiński, Jacek; Jarzębski, Maciej; Buitenhuis, Johan; Deptuła, Tobiasz; Mazuryk, Jarosław; Patkowski, Adam
Structure and Dimensions of Core–Shell Nanoparticles Comparable to the Confocal Volume Studied by Means of Fluorescence Correlation Spectroscopy Journal Article
In: Langmuir, vol. 32, no. 10, pp. 2482–2491, 2016, ISSN: 0743-7463.
@article{Gapinski2016,
title = {Structure and Dimensions of Core–Shell Nanoparticles Comparable to the Confocal Volume Studied by Means of Fluorescence Correlation Spectroscopy},
author = {Jacek Gapiński and Maciej Jarzębski and Johan Buitenhuis and Tobiasz Deptuła and Jarosław Mazuryk and Adam Patkowski},
url = {http://pubs.acs.org/doi/10.1021/acs.langmuir.5b04605},
doi = {10.1021/acs.langmuir.5b04605},
issn = {0743-7463},
year = {2016},
date = {2016-03-01},
journal = {Langmuir},
volume = {32},
number = {10},
pages = {2482--2491},
publisher = {American Chemical Society},
abstract = {In some applications the dye distribution within fluorescently labeled nanoparticles and its stability over long periods of time are important issues. In this article we study numerically and experimentally the applicability of fluorescence correlation spectroscopy (FCS) to resolve such questions. When the size of fluorescently labeled particles is comparable to or larger than the confocal volume, the effective confocal volume seen in FCS experiments is increasing. Such an effect has already been studied for uniformly labeled spherical particles. In this work we analyze the form of the FCS correlation functions (CFs) for core-labeled and shell-labeled core–shell particles. For shell-labeled particles an additional fast decay was found both in simulations and in experiments on custom-made surface-labeled particles. Universal scaling of FCS correlation times based on the squared ratio of the labeled part radius of gyration to the Gaussian radius of the beam profile was found. Recipes based on the analysis o...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pochylski, Mikołaj; Rossi, Cesare Oliviero; Nicotera, Isabella; Liveri, Vincenzo Turco; Calandra, Pietro
Nano-demixing as a novel strategy for magnetic field responsive systems: the case of dibutyl phosphate/bis(2-ethylhexyl)amine systems Journal Article
In: RSC Advances, vol. 6, no. 32, pp. 26696–26708, 2016, ISSN: 2046-2069.
@article{Pochylski2016a,
title = {Nano-demixing as a novel strategy for magnetic field responsive systems: the case of dibutyl phosphate/bis(2-ethylhexyl)amine systems},
author = {Mikołaj Pochylski and Cesare Oliviero Rossi and Isabella Nicotera and Vincenzo Turco Liveri and Pietro Calandra},
url = {http://xlink.rsc.org/?DOI=C6RA02386J},
doi = {10.1039/C6RA02386J},
issn = {2046-2069},
year = {2016},
date = {2016-03-01},
journal = {RSC Advances},
volume = {6},
number = {32},
pages = {26696--26708},
publisher = {The Royal Society of Chemistry},
abstract = {Pure surfactant liquids and their binary mixtures, owing to the amphiphilic nature of the molecules involved, can exhibit nano-segregation and peculiar transport properties with the formation of magnetic field-responsive supramolecular structures.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Woźniak, Anna; Noculak, Agnieszka; Gapiński, Jacek; Kociolek, Daria; Boś-Liedke, Agnieszka; Zalewski, Tomasz; Grześkowiak, Bartosz F; Kołodziejczak, Anna; Jurga, Stefan; Banski, Mateusz; Misiewicz, Jan; Podhorodecki, Artur
Cytotoxicity and imaging studies of $beta$-NaGdF 4 :Yb 3+ Er 3+ @PEG-Mo nanorods Journal Article
In: RSC Advances, vol. 6, no. 98, pp. 95633–95643, 2016, ISSN: 2046-2069.
@article{Wozniak,
title = {Cytotoxicity and imaging studies of $beta$-NaGdF 4 :Yb 3+ Er 3+ @PEG-Mo nanorods},
author = {Anna Woźniak and Agnieszka Noculak and Jacek Gapiński and Daria Kociolek and Agnieszka Boś-Liedke and Tomasz Zalewski and Bartosz F Grześkowiak and Anna Kołodziejczak and Stefan Jurga and Mateusz Banski and Jan Misiewicz and Artur Podhorodecki},
url = {http://pubs.rsc.org/-/content/articlepdf/2016/ra/c6ra20415e http://xlink.rsc.org/?DOI=C6RA20415E},
doi = {10.1039/C6RA20415E},
issn = {2046-2069},
year = {2016},
date = {2016-01-01},
journal = {RSC Advances},
volume = {6},
number = {98},
pages = {95633--95643},
abstract = {Multimodal imaging based on nanostructures has become a subject of interest for numerous biomedical laboratories.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Volz, Sebastian; Ordonez-Miranda, Jose; Shchepetov, Andrey; Prunnila, Mika; Ahopelto, Jouni; Pezeril, Thomas; Vaudel, Gwenaelle; Gusev, Vitaly; Ruello, Pascal; Weig, Eva M; others,
Nanophononics: state of the art and perspectives Journal Article
In: The European Physical Journal B, vol. 89, no. 1, pp. 15, 2016.
@article{volz2016nanophononics,
title = {Nanophononics: state of the art and perspectives},
author = {Sebastian Volz and Jose Ordonez-Miranda and Andrey Shchepetov and Mika Prunnila and Jouni Ahopelto and Thomas Pezeril and Gwenaelle Vaudel and Vitaly Gusev and Pascal Ruello and Eva M Weig and others},
year = {2016},
date = {2016-01-01},
journal = {The European Physical Journal B},
volume = {89},
number = {1},
pages = {15},
publisher = {EDP Sciences},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2015
Adamiec, Małgorzata; Gibasiewicz, Krzysztof; Luciński, Robert; Giera, Wojciech; Chełminiak, Przemysław; Szewczyk, Sebastian; Sipińska, Weronika; van Grondelle, Rienk; Jackowski, Grzegorz
In: Journal of Photochemistry and Photobiology B: Biology, vol. 153, pp. 423–428, 2015, ISSN: 10111344.
@article{Adamiec2015,
title = {Excitation energy transfer and charge separation are affected in Arabidopsis thaliana mutants lacking light-harvesting chlorophyll a/b binding protein Lhcb3},
author = {Małgorzata Adamiec and Krzysztof Gibasiewicz and Robert Luciński and Wojciech Giera and Przemysław Chełminiak and Sebastian Szewczyk and Weronika Sipińska and Rienk van Grondelle and Grzegorz Jackowski},
url = {http://www.ncbi.nlm.nih.gov/pubmed/26562806 http://linkinghub.elsevier.com/retrieve/pii/S1011134415003619},
doi = {10.1016/j.jphotobiol.2015.11.002},
issn = {10111344},
year = {2015},
date = {2015-12-01},
journal = {Journal of Photochemistry and Photobiology B: Biology},
volume = {153},
pages = {423--428},
abstract = {The composition of LHCII trimers as well as excitation energy transfer and charge separation in grana cores of Arabidopsis thaliana mutant lacking chlorophyll a/b binding protein Lhcb3 have been investigated and compared to those in wild-type plants. In grana cores of lhcb3 plants we observed increased amounts of Lhcb1 and Lhcb2 apoproteins per PSII core. The additional copies of Lhcb1 and Lhcb2 are expected to substitute for Lhcb3 in LHCII trimers M as well as in the LHCII "extra" pool, which was found to be modestly enlarged as a result of the absence of Lhcb3. Time-resolved fluorescence measurements reveal a deceleration of the fast phase of excitation dynamics in grana cores of the mutant by ~15 ps, whereas the average fluorescence lifetime is not significantly altered. Monte Carlo modeling predicts a slowing down of the mean hopping time and an increased stabilization of the primary charge separation in the mutant. Thus our data imply that absence of apoprotein Lhcb3 results in detectable differences in excitation energy transfer and charge separation.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Wendel, Monika; Szot, Dominika; Starzak, Karolina; Tuwalska, Dorota; Gapiński, Jacek; Naskrecki, Ryszard; Prukala, Dorota; Sikorski, Marek; Wybraniec, Slawomir; Burdzinski, Gotard
Photophysical properties of betaxanthins: Vulgaxanthin I in aqueous and alcoholic solutions Journal Article
In: Journal of Luminescence, vol. 167, pp. 289–295, 2015, ISSN: 00222313.
@article{Wendel2015,
title = {Photophysical properties of betaxanthins: Vulgaxanthin I in aqueous and alcoholic solutions},
author = {Monika Wendel and Dominika Szot and Karolina Starzak and Dorota Tuwalska and Jacek Gapiński and Ryszard Naskrecki and Dorota Prukala and Marek Sikorski and Slawomir Wybraniec and Gotard Burdzinski},
url = {https://www.sciencedirect.com/science/article/pii/S0022231315003488 http://linkinghub.elsevier.com/retrieve/pii/S0022231315003488},
doi = {10.1016/j.jlumin.2015.06.030},
issn = {00222313},
year = {2015},
date = {2015-11-01},
journal = {Journal of Luminescence},
volume = {167},
pages = {289--295},
publisher = {North-Holland},
abstract = {Betaxanthins are yellow pigments present in Caryophyllales plants and some higher fungi. We characterize photophysical properties of vulgaxanthin I and extracts of Amanita muscaria L. Vulgaxanthin I photoexcitation at $łambda$exc=476nm leads to the S1 excited state with the S1→Sn absorption bands at ca. 390 and 920nm in both aqueous and alcoholic solutions. The S1 state lifetimes (2.9 and 37ps in water) imply that vulgaxanthin I exists in two stereoisomeric forms. An increase in the solvent viscosity extends the S1 lifetimes and fluorescence quantum yields, probably due to hindered internal rotations in the dye. Internal conversion is the major S1 state deactivation path, with fluorescence being a minor channel, and S1→T1 intersystem crossing not observed. Betaxanthins extracted from A. muscaria L. have similar properties. Efficient dissipation of the absorbed light energy as heat supports the postulate of photoprotective role of betaxanthins in vivo.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kryjewski, Michal; Tykarska, Ewa; Rebis, Tomasz; Dlugaszewska, Jolanta; Ratajczak, Magdalena; Teubert, Anna; Gapiński, Jacek; Patkowski, Adam; Piskorz, Jaroslaw; Milczarek, Grzegorz; Gdaniec, Maria; Goslinski, Tomasz; Mielcarek, Jadwiga
Porphyrazine with bulky 2-(1-adamantyl)-5-phenylpyrrol-1-yl periphery tuning its spectral and electrochemical properties Journal Article
In: Polyhedron, vol. 98, pp. 217–223, 2015, ISSN: 02775387.
@article{Kryjewski2015,
title = {Porphyrazine with bulky 2-(1-adamantyl)-5-phenylpyrrol-1-yl periphery tuning its spectral and electrochemical properties},
author = {Michal Kryjewski and Ewa Tykarska and Tomasz Rebis and Jolanta Dlugaszewska and Magdalena Ratajczak and Anna Teubert and Jacek Gapiński and Adam Patkowski and Jaroslaw Piskorz and Grzegorz Milczarek and Maria Gdaniec and Tomasz Goslinski and Jadwiga Mielcarek},
url = {https://www.sciencedirect.com/science/article/pii/S0277538715002934 http://linkinghub.elsevier.com/retrieve/pii/S0277538715002934},
doi = {10.1016/j.poly.2015.05.033},
issn = {02775387},
year = {2015},
date = {2015-09-01},
journal = {Polyhedron},
volume = {98},
pages = {217--223},
publisher = {Pergamon},
abstract = {The synthesis and physicochemical properties of a novel porphyrazine possessing an alternate system of two peripheral substituents, 2-(1-adamantyl)-5-phenylpyrrol-1-yl and dimethylamino, are presented. Precursor maleonitriles were characterized using X-ray crystallography. Novel porphyrazine was subjected to spectroscopic studies, including the determination of fluorescence quantum yield and singlet oxygen quantum yield. Moreover, its electrochemical and spectroelectrochemical properties were investigated. The antimicrobial photodynamic activities of the novel porphyrazine encapsulated in various liposomal formulations were tested against Staphylococcus aureus and Pseudomonas aeruginosa.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Deptuła, Tobiasz; Buitenhuis, Johan; Jarzębski, Maciej; Patkowski, Adam; Gapiński, Jacek
Size of Submicrometer Particles Measured by FCS: Correction of the Confocal Volume Journal Article
In: Langmuir, vol. 31, no. 24, pp. 6681–6687, 2015, ISSN: 0743-7463.
@article{Deptua2015,
title = {Size of Submicrometer Particles Measured by FCS: Correction of the Confocal Volume},
author = {Tobiasz Deptuła and Johan Buitenhuis and Maciej Jarzębski and Adam Patkowski and Jacek Gapiński},
url = {http://pubs.acs.org/doi/10.1021/acs.langmuir.5b01225},
doi = {10.1021/acs.langmuir.5b01225},
issn = {0743-7463},
year = {2015},
date = {2015-06-01},
journal = {Langmuir},
volume = {31},
number = {24},
pages = {6681--6687},
publisher = {American Chemical Society},
abstract = {When fluorescence correlation spectroscopy (FCS) in combination with a confocal microscope is used to determine the hydrodynamic radius a of particles comparable to or larger than the linear size $sigma$ of the confocal volume of the microscope, a correction must be used that depends on the a2/$sigma$2 ratio and the distribution of the dye within the particle. Here we present the experimental validation of the theoretically predicted approximate correction necessary for appropriate measurements of the size of uniformly fluorescently labeled spheres of radius comparable to the size of the confocal volume. We also test the approximate correction formula for different ranges of the a/$sigma$ ratio and propose a simple procedure to obtain the correct nanoparticle size from such a measurement.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Deptuła, Tobiasz; Warowicka, Alicja; Woźniak, Anna; Grzeszkowiak, Mikołaj; Jarzębski, Maciej; Bednarowicz, Magdalena; Patkowski, Adam; Słomski, Ryszard
Cytotoxicity of thermo-responsive polymeric nanoparticles based on N-isopropylacrylamide for potential application as a bioscaffold Journal Article
In: Acta Biochimica Polonica, vol. 62, no. 2, pp. 311–316, 2015, ISSN: 0001-527X.
@article{Deptua2015a,
title = {Cytotoxicity of thermo-responsive polymeric nanoparticles based on N-isopropylacrylamide for potential application as a bioscaffold},
author = {Tobiasz Deptuła and Alicja Warowicka and Anna Woźniak and Mikołaj Grzeszkowiak and Maciej Jarzębski and Magdalena Bednarowicz and Adam Patkowski and Ryszard Słomski},
url = {http://www.ncbi.nlm.nih.gov/pubmed/25980357 http://www.actabp.pl/#File?./html/2_2015/2015_1007.html},
doi = {10.18388/abp.2015_1007},
issn = {0001-527X},
year = {2015},
date = {2015-06-01},
journal = {Acta Biochimica Polonica},
volume = {62},
number = {2},
pages = {311--316},
abstract = {Polymeric nanoparticles based on poly-N-isopropylacrylamide (pNiPAM NPs) and their bio-medical applications have been widely investigated in recent years. These tunable nanoparticles are considered to be great candidates for drug delivery systems, biosensors and bioanalytical devices. Thus, the biocompatibility and toxicity of these nanoparticles is clearly a crucial issue. In this work, the cytotoxicity of thermo-responsive pNiPAM nanoparticles was studied, followed by a detailed analysis of the NPs morphology in growing cell cultures and their 3D structure. Cytotoxic examination was conducted for two cell cultures - HeLa (cervical cancer cell line) and HeK293 (human embryonic kidney cell line), employing MTT (3-4, 5-dimethylthiazol-2-yl-2, 5-diphenyltetrazolium bromide) assay and viability tests. We used Cryo-SEM (scanning electron microscopy) and fluorescence microscopy (IN Cell Analyzer) in order to investigate the morphological structure of the polymer network. We show that pNiPAM nanoparticles do not exhibit any cytotoxicity effects on the investigated cell lines. Additionally, we report that the pNiPAM nanoparticle based scaffold promotes cell growth.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pochylski, Mikołaj; Gapiński, Jacek
Simple way to analyze Brillouin spectra from turbid liquids. Journal Article
In: Optics letters, vol. 40, no. 7, pp. 1456–9, 2015, ISSN: 1539-4794.
@article{Pochylski2015,
title = {Simple way to analyze Brillouin spectra from turbid liquids.},
author = {Mikołaj Pochylski and Jacek Gapiński},
url = {http://www.ncbi.nlm.nih.gov/pubmed/25831358},
issn = {1539-4794},
year = {2015},
date = {2015-04-01},
journal = {Optics letters},
volume = {40},
number = {7},
pages = {1456--9},
abstract = {The shape of the Brillouin light-scattering spectrum recorded from turbid liquids is distinctly distorted compared to that from a transparent sample. The reason for this is the multiple scattering of light within the medium. The usual expression for the Brillouin spectrum does not apply to the multiple scattering situation. In this Letter, we consider a Brillouin spectrum from opaque samples composed of a distribution of spectra resulting from elementary scattering events, each occurring in single scattering vector conditions. We introduce a one-parameter test function to define the probability distribution of scattering events occurring at a given value of the scattering vector. The proposed procedure was tested on model liquids that consisted of suspensions of sub-micrometer spherical particles of different size and concentration, dispersed in different carrier liquids and studied as a function of temperature. Our analysis made it possible to account for the effect of multiple scattering and to recover the values of mechanical parameters describing the pure solvents.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Adamiec, Małgorzata; Luciński, Robert; Giera, Wojciech; Chełminiak, Przemysław; Szewczyk, Sebastian; Sipińska, Weronika; Głów, Edyta; Karolczak, Jerzy; van Grondelle, Rienk; Jackowski, Grzegorz
Monte Carlo simulations of excitation and electron transfer in grana membranes Journal Article
In: Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol. 1847, no. 3, pp. 314–327, 2015, ISSN: 00052728.
@article{Gibasiewicz2015,
title = {Monte Carlo simulations of excitation and electron transfer in grana membranes},
author = {Krzysztof Gibasiewicz and Małgorzata Adamiec and Robert Luciński and Wojciech Giera and Przemysław Chełminiak and Sebastian Szewczyk and Weronika Sipińska and Edyta Głów and Jerzy Karolczak and Rienk van Grondelle and Grzegorz Jackowski},
url = {http://www.ncbi.nlm.nih.gov/pubmed/25524819 http://linkinghub.elsevier.com/retrieve/pii/S0005272814006628},
doi = {10.1016/j.bbabio.2014.12.004},
issn = {00052728},
year = {2015},
date = {2015-03-01},
journal = {Biochimica et Biophysica Acta (BBA) - Bioenergetics},
volume = {1847},
number = {3},
pages = {314--327},
abstract = {Time-resolved fluorescence measurements on grana membranes with instrumental response function of 3 ps reveal faster excitation dynamics (120 ps) than those reported previously. A possible reason for the faster decay may be a relatively low amount of "extra" LHCII trimers per reaction center of Photosystem II. Monte Carlo modeling of excitation dynamics in C2S2M2 form of PSII-LHCII supercomplexes has been performed using a coarse grained model of this complex, constituting a large majority of proteins in grana membranes. The main factor responsible for the fast fluorescence decay reported in this work was the deep trap constituted by the primary charge separated state in the reaction center (950-1090 cm(-1)). This value is critical for a good fit, whereas typical hopping times between antenna polypeptides (from ~4.5 to ~10.5 ps) and reversible primary charge separation times (from ~4 to ~1.5 ps, respectively) are less critical. Consequently, respective mean migration times of excitation from anywhere in the PSII-LHCII supercomplexes to reaction center range from ~30 to ~80 ps. Thus 1/4-2/3 of the ~120-ps average excitation lifetime is necessary for the diffusion of excitation to reaction center, whereas the remaining time is due to the bottle-neck effect of the trap. Removal of 27% of the Lhcb6 apoprotein pool by mutagenesis of DEG5 gene caused the acceleration of the excitation decay from ~120 to ~100 ps. This effect may be due to the detachment of LHCII-M trimers from PSII-LHCII supercomplexes, accompanied by deepening of the reaction center trap.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Śliwa, Tomasz; Jarzębski, Maciej
Dynamic Light Scattering Investigation of Pnipam-Co-Maa Microgel Solution Journal Article
In: Current Topics in Biophysics, vol. 37, no. 1, pp. 29–33, 2015, ISSN: 1232-9630.
@article{Sliwa2015,
title = {Dynamic Light Scattering Investigation of Pnipam-Co-Maa Microgel Solution},
author = {Tomasz Śliwa and Maciej Jarzębski},
url = {https://www.degruyter.com/downloadpdf/j/ctb.2014.37.issue-1/ctb-2014-0071/ctb-2014-0071.pdf http://www.degruyter.com/view/j/ctb.2014.37.issue-1/ctb-2014-0071/ctb-2014-0071.xml},
doi = {10.2478/ctb-2014-0071},
issn = {1232-9630},
year = {2015},
date = {2015-01-01},
journal = {Current Topics in Biophysics},
volume = {37},
number = {1},
pages = {29--33},
abstract = {The paper presents results of a study of the effect of the environment temperature and pH on the size of particles based on poly N (isopropylacrylamide) chain. The tested substance was the copolymer PNIPAM-co-MAA. The particle size measurements were performed by dynamic light scattering. It was found that the copolymer tested reacts specifically to temperature increase by shrinking more than two times. Important for stabilization of the structure are the chemical groups -COOH present in methacrylic acid that undergoes dissociation. Gradual increase in temperature results in a decrease in the dissociation constant, in binding of protons and thus causes shrinkage of the entire particle. It was also shown that PNIPAM-co-MAA in high concentrations undergoes crystallization.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Śliwa, Tomasz; Jarzębski, Maciej; Szutkowski, Kosma
Nanoparticle Tracking Analysis of Latex Standardized Beads Journal Article
In: Current Topics in Biophysics, vol. 37, no. 1, pp. 49–53, 2015, ISSN: 1232-9630.
@article{Sliwa2015a,
title = {Nanoparticle Tracking Analysis of Latex Standardized Beads},
author = {Tomasz Śliwa and Maciej Jarzębski and Kosma Szutkowski},
url = {https://www.degruyter.com/downloadpdf/j/ctb.2014.37.issue-1/ctb-2014-0074/ctb-2014-0074.pdf http://www.degruyter.com/view/j/ctb.2014.37.issue-1/ctb-2014-0074/ctb-2014-0074.xml},
doi = {10.2478/ctb-2014-0074},
issn = {1232-9630},
year = {2015},
date = {2015-01-01},
journal = {Current Topics in Biophysics},
volume = {37},
number = {1},
pages = {49--53},
abstract = {The most popular technique for particle size characterization is the dynamic light scattering (DLS). In recent years new advanced method based on counting each single particle movement was introduced giving perspective for measurement of each component of mixture. This study presents some advantages of nanoparticle tracking analysis (NTA) method in comparison to DLS. For tests standard polystyrene beds were chosen vary diameter of 22, 61 and 150 nm and its mixtures. Experiments showed that the particles size resolution allows to distinguish each population in two population suspension opposed to DLS. The NTA method permits to eliminate the negative effects i.e. dust or aggregates in sample during post processing, that permits to use it in a variety of studies.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Jarzębski, Maciej; Śliwa, Tomasz; Jarzębska, Małgorzata; Szutkowski, Kosma
Fabrication of Size-Tunable Silica Particles During Seed-Growth Process Journal Article
In: Current Topics in Biophysics, vol. 37, no. 1, pp. 35–41, 2015, ISSN: 1232-9630.
@article{Jarzebski2014,
title = {Fabrication of Size-Tunable Silica Particles During Seed-Growth Process},
author = {Maciej Jarzębski and Tomasz Śliwa and Małgorzata Jarzębska and Kosma Szutkowski},
url = {https://www.degruyter.com/downloadpdf/j/ctb.2014.37.issue-1/ctb-2014-0072/ctb-2014-0072.pdf http://www.degruyter.com/view/j/ctb.2014.37.issue-1/ctb-2014-0072/ctb-2014-0072.xml},
doi = {10.2478/ctb-2014-0072},
issn = {1232-9630},
year = {2015},
date = {2015-01-01},
journal = {Current Topics in Biophysics},
volume = {37},
number = {1},
pages = {35--41},
abstract = {The size control is one of the most important factors during seed-growth process. Although precise determination of ingredients concentrations is easily controllable during the growth process, there is still a possibility to synthesize oversized particles. Nanosized fluorescent silica particles were synthetized using Stoeber process and verified using three complementary methods of particle size determination, namely Dynamic Light Scattering (DLS), Particle Tracking (PT) as well as by Transmission Electron Microscopy (TEM) and Confocal Microscopy. The final diameter was verified by DLS and estimated to 494 nm. Parameters necessary to control the size were derived.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Sarbak, Szymon; Kujawa, Melania; Jurga-Nowak, Hanna; Dobek, Andrzej
Sodium chloride-induced conformational change in tRNA as measured by circular dichroism Journal Article
In: Current Topics in Biophysics, vol. 38, no. 1, pp. 1–5, 2015, ISSN: 1232-9630.
@article{Sarbak2015,
title = {Sodium chloride-induced conformational change in tRNA as measured by circular dichroism},
author = {Szymon Sarbak and Melania Kujawa and Hanna Jurga-Nowak and Andrzej Dobek},
url = {https://www.degruyter.com/downloadpdf/j/ctb.2015.38.issue-1/ctb-2015-0001/ctb-2015-0001.pdf https://www.degruyter.com/view/j/ctb.2015.38.issue-1/ctb-2015-0001/ctb-2015-0001.xml},
doi = {10.1515/ctb-2015-0001},
issn = {1232-9630},
year = {2015},
date = {2015-01-01},
journal = {Current Topics in Biophysics},
volume = {38},
number = {1},
pages = {1--5},
abstract = {The effect of 0.01-1 M sodium ions on the conformation of the folded brewer's yeast tRNA},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2014
Pochylski, Mikołaj; Calandra, Pietro; Aliotta, Francesco; Ponterio, Rosina C
Electrically induced birefringence in nanoparticle dispersions for electrorheological applications Journal Article
In: Journal of Physics D: Applied Physics, vol. 47, no. 46, pp. 465301, 2014, ISSN: 0022-3727.
@article{Pochylski2014,
title = {Electrically induced birefringence in nanoparticle dispersions for electrorheological applications},
author = {Miko{ł}aj Pochylski and Pietro Calandra and Francesco Aliotta and Rosina C Ponterio},
url = {http://stacks.iop.org/0022-3727/47/i=46/a=465301?key=crossref.9cf2eece206b63d16da1f5c0a4ad2dfb},
doi = {10.1088/0022-3727/47/46/465301},
issn = {0022-3727},
year = {2014},
date = {2014-11-01},
journal = {Journal of Physics D: Applied Physics},
volume = {47},
number = {46},
pages = {465301},
publisher = {IOP Publishing},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Giera, Wojciech; Szewczyk, Sebastian; McConnell, Michael D; Snellenburg, Joris; Redding, Kevin E; van Grondelle, Rienk; Gibasiewicz, Krzysztof
Excitation dynamics in Photosystem I from Chlamydomonas reinhardtii. Comparative studies of isolated complexes and whole cells Journal Article
In: Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol. 1837, no. 10, pp. 1756–1768, 2014, ISSN: 00052728.
@article{Giera2014,
title = {Excitation dynamics in Photosystem I from Chlamydomonas reinhardtii. Comparative studies of isolated complexes and whole cells},
author = {Wojciech Giera and Sebastian Szewczyk and Michael D McConnell and Joris Snellenburg and Kevin E Redding and Rienk van Grondelle and Krzysztof Gibasiewicz},
url = {http://www.ncbi.nlm.nih.gov/pubmed/24973599 http://linkinghub.elsevier.com/retrieve/pii/S0005272814005192},
doi = {10.1016/j.bbabio.2014.06.004},
issn = {00052728},
year = {2014},
date = {2014-10-01},
journal = {Biochimica et Biophysica Acta (BBA) - Bioenergetics},
volume = {1837},
number = {10},
pages = {1756--1768},
abstract = {Identical time-resolved fluorescence measurements with ~3.5-ps resolution were performed for three types of PSI preparations from the green alga, Chlamydomonas reinhardtii: isolated PSI cores, isolated PSI-LHCI complexes and PSI-LHCI complexes in whole living cells. Fluorescence decay in these types of PSI preparations has been previously investigated but never under the same experimental conditions. As a result we present consistent picture of excitation dynamics in algal PSI. Temporal evolution of fluorescence spectra can be generally described by three decay components with similar lifetimes in all samples (6-8ps, 25-30ps, 166-314ps). In the PSI cores, the fluorescence decay is dominated by the two fastest components (~90%), which can be assigned to excitation energy trapping in the reaction center by reversible primary charge separation. Excitation dynamics in the PSI-LHCI preparations is more complex because of the energy transfer between the LHCI antenna system and the core. The average trapping time of excitations created in the well coupled LHCI antenna system is about 12-15ps longer than excitations formed in the PSI core antenna. Excitation dynamics in PSI-LHCI complexes in whole living cells is very similar to that observed in isolated complexes. Our data support the view that chlorophylls responsible for the long-wavelength emission are located mostly in LHCI. We also compared in detail our results with the literature data obtained for plant PSI.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Aliotta, Francesco; Calandra, Pietro; Pochylski, Mikołaj; Ponterio, Rosina C; Salvato, Gabriele; Vasi, Cirino
Is electrospray emission really due to columbic forces? Journal Article
In: AIP Advances, vol. 4, no. 9, pp. 097105, 2014, ISSN: 2158-3226.
@article{Aliotta2014,
title = {Is electrospray emission really due to columbic forces?},
author = {Francesco Aliotta and Pietro Calandra and Mikołaj Pochylski and Rosina C Ponterio and Gabriele Salvato and Cirino Vasi},
url = {http://aip.scitation.org/doi/10.1063/1.4894800},
doi = {10.1063/1.4894800},
issn = {2158-3226},
year = {2014},
date = {2014-09-01},
journal = {AIP Advances},
volume = {4},
number = {9},
pages = {097105},
publisher = {American Institute of Physics},
abstract = {Electrospray ionization (ESI) is a widely adopted soft ionization method for mass spectroscopy (MS). In spite of the undeniable success of the technique, its mechanisms are difficult to be analytically modelled because the process is characterized by non-equilibrium conditions. The common belief is that the formation of gas-phase ions takes place at the apex of the Taylor cone via electrophoretic charging. The charge balance implies that a conversion of electrons to ions should occur at the metal-liquid interface of the injector needle. We have detected that the above description is based on unproved assumptions which are not consistent with the correct evaluation of the problem. The comparison between experiments performed under the usual geometry and observations obtained under symmetric field configurations suggests that the emitted droplets cannot be significantly charged or, at least, that any possible ionization mechanism is so poorly efficient to ensure that columbic forces cannot play a major role...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gapiński, Jacek; Naegele, Gerhard; Patkowski, Adam
Freezing lines of colloidal Yukawa spheres. II. Local structure and characteristic lengths Journal Article
In: The Journal of Chemical Physics, vol. 141, no. 12, pp. 124505, 2014, ISSN: 0021-9606.
@article{Gapinski2014,
title = {Freezing lines of colloidal Yukawa spheres. II. Local structure and characteristic lengths},
author = {Jacek Gapiński and Gerhard Naegele and Adam Patkowski},
url = {http://aip.scitation.org/doi/10.1063/1.4895965},
doi = {10.1063/1.4895965},
issn = {0021-9606},
year = {2014},
date = {2014-09-01},
journal = {The Journal of Chemical Physics},
volume = {141},
number = {12},
pages = {124505},
publisher = {American Institute of Physics},
abstract = {Using the Rogers-Young (RY) integral equation scheme for the static pair correlation functions combined with the liquid-phase Hansen-Verlet freezing rule, we study the generic behavior of the radial distribution function and static structure factor of monodisperse charge-stabilized suspensions with Yukawa-type repulsive particle interactions at freezing. In a related article, labeled Paper I [J. Gapinski, G. Naegele, and A. Patkowski, J. Chem. Phys. 136, 024507 (2012)], this hybrid method was used to determine two-parameter freezing lines for experimentally controllable parameters, characteristic of suspensions of charged silica spheres in dimethylformamide. A universal scaling of the RY radial distribution function maximum is shown to apply to the liquid-bcc and liquid-fcc segments of the universal freezing line. A thorough analysis is made of the behavior of characteristic distances and wavenumbers, next-neighbor particle coordination numbers, osmotic compressibility factor, and the Ravache-Mountain-Stre...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Banachowicz, Ewa; Patkowski, Adam; Meier, Gerd; Klamecka, Kamila; Gapiński, Jacek
Successful FCS Experiment in Nonstandard Conditions Journal Article
In: Langmuir, vol. 30, no. 29, pp. 8945–8955, 2014, ISSN: 0743-7463.
@article{Banachowicz2014,
title = {Successful FCS Experiment in Nonstandard Conditions},
author = {Ewa Banachowicz and Adam Patkowski and Gerd Meier and Kamila Klamecka and Jacek Gapiński},
url = {http://pubs.acs.org/doi/10.1021/la5015708},
doi = {10.1021/la5015708},
issn = {0743-7463},
year = {2014},
date = {2014-07-01},
journal = {Langmuir},
volume = {30},
number = {29},
pages = {8945--8955},
publisher = {American Chemical Society},
abstract = {Fluorescence correlation spectroscopy (FCS) is frequently used to measure the self-diffusion coefficient of fluorescently labeled probes in solutions, complex media, and living cells. In a standard experiment water immersion objectives and window thickness in the range of 0.13–0.19 mm are used. We show that successful FCS measurements can be performed using samples of different refractive index placed in cells having windows of different thickness, even much thicker than nominally allowed. Different water, oil, and silicon oil immersion as well as long working distance dry objectives, equipped with the correction collar, were tested and compared. We demonstrate that the requirements for FCS experiments are less stringent than those for high resolution confocal imaging and reliable relative FCS measurements can be performed even beyond the compensation range of the objectives. All these features open new possibilities for construction of custom-made high temperature and high pressure cells for FCS.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Śliwa, Tomasz; Jarzębski, Maciej; Gapiński, Jacek; Grzeszkowiak, M; Kleshchanok, D
Stimuli-Responsive PNIPAM Based Copolymers: Modeling and Light Scattering Investigations Journal Article
In: Acta Physica Polonica A, vol. 125, no. 5, pp. 1236–1239, 2014, ISSN: 0587-4246.
@article{Sliwa2014,
title = {Stimuli-Responsive PNIPAM Based Copolymers: Modeling and Light Scattering Investigations},
author = {Tomasz Śliwa and Maciej Jarzębski and Jacek Gapiński and M Grzeszkowiak and D Kleshchanok},
url = {http://przyrbwn.icm.edu.pl/APP/PDF/125/a125z5p31.pdf},
doi = {10.12693/APhysPolA.125.1236},
issn = {0587-4246},
year = {2014},
date = {2014-05-01},
journal = {Acta Physica Polonica A},
volume = {125},
number = {5},
pages = {1236--1239},
abstract = {Temperature dependent behavior of poly(N-isopropylacrylamide) (PNIPAM) copolymers was investigated in three buer-stabilized environments. The tests were performed in thermostabilized goniometer by dynamic and static light scattering. From the dynamic light scattering hydrodynamic radius was obtained. Based on the static light scattering data, calculations of the particle radius from the form factor model were done. Depending of the kind of copolymer, the dierent material response to temperature was observed. Also the characterization of dry particles was done by scanning electron microscope. These scanning electron microscopy micrograms showed the possibility of particles to aggregation.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2013
Danielewicz-Ferchmin, I; Banachowicz, Ewa; Ferchmin, A R
In: Journal of Molecular Liquids, vol. 187, pp. 157–164, 2013, ISSN: 01677322.
@article{Danielewicz-Ferchmin2013,
title = {Dielectric saturation in water as quantitative measure of formation of well-defined hydration shells of ions at various temperatures and pressures. Vapor–liquid equilibrium case},
author = {I Danielewicz-Ferchmin and Ewa Banachowicz and A R Ferchmin},
url = {https://www.sciencedirect.com/science/article/pii/S0167732213002079 http://linkinghub.elsevier.com/retrieve/pii/S0167732213002079},
doi = {10.1016/j.molliq.2013.06.005},
issn = {01677322},
year = {2013},
date = {2013-11-01},
journal = {Journal of Molecular Liquids},
volume = {187},
pages = {157--164},
publisher = {Elsevier},
abstract = {Static electric permittivity ϵ of water at equilibrium saturated vapor pressures in electric field in the range 108textlessEtextless1011Vm−1 was calculated. A quantitative measure of the dielectric saturation phenomenon was introduced. It is found that, according to the definition of this measure, well-defined first hydration shells of numerous ions investigated by X-ray and neutron scattering methods described in literature are electrically saturated, and that at various conditions. Calculations show that around some ions, including Ag+, whose hydration shells are not saturated at ambient conditions, dielectric saturation of water can be achieved by increasing temperature and pressure up to the values not far from the critical ones. This is compared with extended X-ray absorption fine structure (EXAFS) and XAFS data for Ag+ and Rb+ found in literature.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Pajzderska, Maria; Dobek, Andrzej; Karolczak, Jerzy; Burdziński, Gotard; Brettel, Klaus; Jones, Michael R
In: Physical Chemistry Chemical Physics, vol. 15, no. 38, pp. 16321-16333, 2013, ISSN: 1463-9076.
@article{Gibasiewicz2013a,
title = {Analysis of the temperature-dependence of P+HA− charge recombination in the Rhodobacter sphaeroides reaction center suggests nanosecond temperature-independent protein relaxation},
author = {Krzysztof Gibasiewicz and Maria Pajzderska and Andrzej Dobek and Jerzy Karolczak and Gotard Burdziński and Klaus Brettel and Michael R Jones},
url = {http://www.ncbi.nlm.nih.gov/pubmed/23999896 http://xlink.rsc.org/?DOI=c3cp44187c},
doi = {10.1039/c3cp44187c},
issn = {1463-9076},
year = {2013},
date = {2013-10-01},
journal = {Physical Chemistry Chemical Physics},
volume = {15},
number = {38},
pages = {16321-16333},
abstract = {The temperature dependence of charge recombination of the pair P(+)HA(-) in isolated reaction centers from the purple bacterium Rhodobacter sphaeroides with prereduced quinone QA was studied by sub-nanosecond to microsecond time-scale transient absorption. Overall, the kinetics slowed down substantially upon cooling from room temperature to ∼200 K, and then remained virtually unchanged down to 77 K, indicating the coexistence of two competitive pathways of charge recombination, a thermally-activated pathway appearing only above ~200 K and a temperature-independent pathway. In our modelling, the thermally activated pathway includes an uphill electron transfer from HA(-) to BA(-) leading to transient formation of the state P(+)BA(-), whereas the temperature-independent pathway is due to direct downhill electron transfer from HA(-) to P(+). At all temperatures studied, the kinetics could be approximated by a four-component decay. Detailed analysis of the lifetimes and amplitudes of particular phases over the range of temperatures suggests that the kinetically resolved phases reveal the consecutive appearance of three conformational states characterized by an increasing free energy gap between the states P(+)BA(-) and P(+)HA(-). The initial gap between these states was estimated to be only ~8 meV, the intermediate gap being ~92 meV, and the final gap ~135 meV, with no dependence on temperature. It was also calculated through a very straightforward approach that the relaxation process from the initial to the intermediate state occurs within 0.6 ± 0.1 ns, whereas the second step of relaxation from the intermediate to the final state takes 11 ± 2 ns. Both phases of the protein relaxation process are essentially temperature-independent. Possible alternative models to describe the experimental data that cannot be definitely excluded are also discussed.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Koralewski, Marceli; Pochylski, Mikołaj; Gierszewski, Jacek
Magnetic properties of ferritin and akaganeite nanoparticles in aqueous suspension Journal Article
In: Journal of Nanoparticle Research, vol. 15, no. 9, pp. 1902, 2013, ISSN: 1388-0764.
@article{Koralewski2013,
title = {Magnetic properties of ferritin and akaganeite nanoparticles in aqueous suspension},
author = {Marceli Koralewski and Mikołaj Pochylski and Jacek Gierszewski},
url = {http://link.springer.com/10.1007/s11051-013-1902-0},
doi = {10.1007/s11051-013-1902-0},
issn = {1388-0764},
year = {2013},
date = {2013-09-01},
journal = {Journal of Nanoparticle Research},
volume = {15},
number = {9},
pages = {1902},
publisher = {Springer Netherlands},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Pajzderska, Maria; Dobek, Andrzej; Brettel, Klaus; Jones, Michael R
In: The Journal of Physical Chemistry B, vol. 117, no. 38, pp. 11112–11123, 2013, ISSN: 1520-6106.
@article{Gibasiewicz2013b,
title = {Analysis of the Kinetics of P + H A – Recombination in Membrane-Embedded Wild-Type and Mutant Rhodobacter sphaeroides Reaction Centers between 298 and 77 K Indicates That the Adjacent Negatively Charged Q A Ubiquinone Modulates the Free Energy of P + H A},
author = {Krzysztof Gibasiewicz and Maria Pajzderska and Andrzej Dobek and Klaus Brettel and Michael R Jones},
url = {http://pubs.acs.org/doi/10.1021/jp4011235},
doi = {10.1021/jp4011235},
issn = {1520-6106},
year = {2013},
date = {2013-09-01},
journal = {The Journal of Physical Chemistry B},
volume = {117},
number = {38},
pages = {11112--11123},
publisher = {American Chemical Society},
abstract = {Time-resolved spectroscopic studies of recombination of the P+HA– radical pair in photosynthetic reaction centers (RCs) from Rhodobacter sphaeroides give an opportunity to study protein dynamics triggered by light and occurring over the lifetime of P+HA–. The state P+HA– is formed after the ultrafast light-induced electron transfer from the primary donor pair of bacteriochlorophylls (P) to the acceptor bacteriopheophytin (HA). In order to increase the lifetime of this state, and thus increase the temporal window for the examination of protein dynamics, it is possible to block forward electron transfer from HA– to the secondary electron acceptor QA. In this contribution, the dynamics of P+HA– recombination were compared at a range of temperatures from 77 K to room temperature, electron transfer from HA– to QA being blocked either by prereduction of QA or by genetic removal of QA. The observed P+HA– charge recombination was significantly slower in the QA-deficient RCs, and in both types of complexes, loweri...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Aliotta, F; Calandra, P; Pochylski, Mikołaj; Ponterio, R C; Salvato, G; Vasi, C
Enhancement of electrorheological effect by particle-fluid interaction Journal Article
In: Physical Review E, vol. 87, no. 6, pp. 062304, 2013, ISSN: 1539-3755.
@article{Aliotta2013b,
title = {Enhancement of electrorheological effect by particle-fluid interaction},
author = {F Aliotta and P Calandra and Mikołaj Pochylski and R C Ponterio and G Salvato and C Vasi},
url = {https://link.aps.org/doi/10.1103/PhysRevE.87.062304},
doi = {10.1103/PhysRevE.87.062304},
issn = {1539-3755},
year = {2013},
date = {2013-06-01},
journal = {Physical Review E},
volume = {87},
number = {6},
pages = {062304},
publisher = {American Physical Society},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Aliotta, Francesco; Giaquinta, Paolo V; Pochylski, Mikołaj; Ponterio, Rosina C; Prestipino, Santi; Saija, Franz; Vasi, Cirino
Volume crossover in deeply supercooled water adiabatically freezing under isobaric conditions Journal Article
In: The Journal of Chemical Physics, vol. 138, no. 18, pp. 184504, 2013, ISSN: 0021-9606.
@article{Aliotta2013a,
title = {Volume crossover in deeply supercooled water adiabatically freezing under isobaric conditions},
author = {Francesco Aliotta and Paolo V Giaquinta and Mikołaj Pochylski and Rosina C Ponterio and Santi Prestipino and Franz Saija and Cirino Vasi},
url = {http://aip.scitation.org/doi/10.1063/1.4803659},
doi = {10.1063/1.4803659},
issn = {0021-9606},
year = {2013},
date = {2013-05-01},
journal = {The Journal of Chemical Physics},
volume = {138},
number = {18},
pages = {184504},
publisher = {American Institute of Physics},
abstract = {The irreversible return of a supercooled liquid to stable thermodynamic equilibrium often begins as a fast process which adiabatically drives the system to solid-liquid coexistence. Only at a later stage will solidification proceed with the expected exchange of thermal energy with the external bath. In this paper we discuss some aspects of the adiabatic freezing of metastable water at constant pressure. In particular, we investigated the thermal behavior of the isobaric gap between the molar volume of supercooled water and that of the warmer ice-water mixture which eventually forms at equilibrium. The available experimental data at ambient pressure, extrapolated into the metastable region within the scheme provided by the reference IAPWS-95 formulation, show that water ordinarily expands upon (partially) freezing under isenthalpic conditions. However, the same scheme also suggests that, for increasing undercoolings, the volume gap is gradually reduced and eventually vanishes at a temperature close to the ...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Aliotta, F; Gapiński, Jacek; Pochylski, Mikołaj; Ponterio, R C; Saija, F; Salvato, G; Vasi, C
High-frequency propagating density fluctuations in deeply supercooled water: Evidence of a single viscous relaxation Journal Article
In: Physical Review E, vol. 87, no. 2, pp. 022303, 2013, ISSN: 1539-3755.
@article{Aliotta2013,
title = {High-frequency propagating density fluctuations in deeply supercooled water: Evidence of a single viscous relaxation},
author = {F Aliotta and Jacek Gapiński and Mikołaj Pochylski and R C Ponterio and F Saija and G Salvato and C Vasi},
url = {http://www.ncbi.nlm.nih.gov/pubmed/23496512 https://link.aps.org/doi/10.1103/PhysRevE.87.022303},
doi = {10.1103/PhysRevE.87.022303},
issn = {1539-3755},
year = {2013},
date = {2013-02-01},
journal = {Physical Review E},
volume = {87},
number = {2},
pages = {022303},
abstract = {We performed a Brillouin scattering experiment on deeply supercooled water and compared the results with similar literature data obtained both at the same and at higher values of the exchanged wave vector. The whole set of available experimental data can be well reproduced with the use of the generalized hydrodynamic model where all the involved thermodynamic parameters are fixed to their literature values. On the contrary, the model based on the memory function approach generates the wrong estimates for measurables when the same values of the thermodynamic parameters are used. This result confirms our recent criticisms against the utilization of models originating from linear response theory [Phys. Rev. E 84, 051202 (2011)]. The inconsistency between models explains apparent discrepancies between the different conclusions on water acoustic behavior which may be found in the literature. We demonstrate that the observed behavior can be explained by assuming only a single relaxation process that is typical of any viscoelastic system. With all thermodynamics quantities fixed, the hydrodynamic description needs only two parameters to model the experimental data, namely, the relaxation time and the high-frequency limit of the sound velocity. The whole body of the experimental data can be well reproduced when the relaxation time behaves in an Arrhenian manner and the difference between the relaxed and not relaxed sound velocities is a constant. The high-frequency sound velocity is never higher than 2200 m/s. We conclude that, at least from experiments performed within the hydrodynamic regime, there is no indication for a fast sound close to the hypersonic velocity observed in ice.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Melnikowa, L; Mitroova, Z; Timko, M; Kovac, J; Koralewski, M; Pochylski, Mikołaj; Avdeev, M V; Petrenko, V I; Garamus, V M; Almasy, L; Kopcansky, P
Physical characterization of iron oxide nanoparticles in magnetoferritin Journal Article
In: Magnetohydrodynamics, vol. 49, no. 3/4, pp. 293–296, 2013.
@article{Melnikowa2013,
title = {Physical characterization of iron oxide nanoparticles in magnetoferritin},
author = {L Melnikowa and Z Mitroova and M Timko and J Kovac and M Koralewski and Mikołaj Pochylski and M V Avdeev and V I Petrenko and V M Garamus and L Almasy and P Kopcansky},
url = {http://mhd.sal.lv/contents/2013/3/MG.49.3.8.R.html},
year = {2013},
date = {2013-01-01},
journal = {Magnetohydrodynamics},
volume = {49},
number = {3/4},
pages = {293--296},
abstract = {Natural ferritin is the iron-storage protein of animals, plants, and bacteria. It is a spherical biomacromolecule of external diameter about 12 nm composed of 24 protein subunits arranged as a hollow sphere of approximately 8 nm in diameter. Inside the sphere, iron is stored in the ferric oxidation state as a complex molecule with a crystallographic structure similar to mineral ferrihydrite. By a proper chemical process, it is possible to use the empty protein shell of ferritin, i.e. apoferritin, as a confined environment, in which magnetic iron oxide nanoparticles can be synthesized forming a biocompatible ferrofluid called magnetoferritin [1]. The latest studies show that brain ferritin [2] in patients with the Alzheimer's disease [3] has a polyphase structure, incorporating also magnetite. The structure, quality and quantity of the iron core composition in the brain ferritin have not been fully determined yet, and it has not been established whether they are related to the origin of neurodegenerative diseases or to their consequences [4, 5]. For these reasons, by combining different techniques it is necessary to fully characterize the structure and the physico-chemical properties of ferritin and distinguish between magnetic structures, especially for understanding the role of magnetite presence in the development of neurodegenerative diseases. Of particular interest is the search for methods allowing detection of magnetite inside ferritin proteins in vivo and inside magnetoferritin as a model system in vitro, respectively. Magnetoferritin is a relatively new biocompatible nanomaterial with continuously increasing popularity in many fields of science from medicine through nanotechnology up to physics. If compared with physiological ferritin, magnetoferritin contains magnetic nanoparticles (Fe 3O 4, $gamma$-Fe 2O 3) surrounded by the empty protein shell (apoferritin). The problem of toxicity and side effects of magnetic nanoparticles in organs and tissues is minimized due to the protein nature of this unique material, which is important for many possible applications in clinical practice as a drug carrier, contrast medium in radiodiagnostics, or in magnetic hyperthermia therapy. In addition to biocompatibility, another advantage of magnetoferritin for biotechnological applications is a relatively short time of controlled synthesis adapted to the formation of magnetite specifically inside the protein cavity and creation the magnetoferritin molecule. Figs 3, Refs 6.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Sikora, Bożena; Fronc, Krzysztof; Kamińska, Izabela; Koper, Kamil; Szewczyk, Sebastian; Paterczyk, Bohdan; Wojciechowski, Tomasz; Sobczak, Kamil; Minikayev, Roman; Paszkowicz, Wojciech; Stępień, Piotr; Elbaum, Danek
Transport of NaYF4:Er3+, Yb3+ up-converting nanoparticles into HeLa cells Journal Article
In: Nanotechnology, vol. 24, no. 23, pp. 235702, 2013.
@article{Sikora2013,
title = {Transport of NaYF_{4}:Er^{3+}, Yb^{3+} up-converting nanoparticles into HeLa cells},
author = {Bożena Sikora and Krzysztof Fronc and Izabela Kamińska and Kamil Koper and Sebastian Szewczyk and Bohdan Paterczyk and Tomasz Wojciechowski and Kamil Sobczak and Roman Minikayev and Wojciech Paszkowicz and Piotr Stępień and Danek Elbaum},
url = {http://stacks.iop.org/0957-4484/24/i=23/a=235702},
doi = {10.1088/0957-4484/24/23/235702},
year = {2013},
date = {2013-01-01},
journal = {Nanotechnology},
volume = {24},
number = {23},
pages = {235702},
abstract = {An effective, simple and practically useful method to incorporate fluorescent nanoparticles inside live biological cells was developed. The internalization time and concentration dependence of a frequently used liposomal transfection factor (Lipofectamine 2000) was studied. A user friendly, one-step technique to obtain water and organic solvent soluble Er 3+ and Yb 3+ doped NaYF 4 nanoparticles coated with polyvinylpyrrolidone was obtained. Structural analysis of the nanoparticles confirmed the formation of nanocrystals of the desired sizes and spectral properties. The internalization of NaYF 4 nanoparticles in HeLa cervical cancer cells was determined at different nanoparticle concentrations and for incubation periods from 3 to 24 h. The images revealed a redistribution of nanoparticles inside the cell, which increases with incubation time and concentration levels, and depends on the presence of the transfection factor. The study identifies, for the first time, factors responsible for an effective endocytosis of the up-converting nanoparticles to HeLa cells. Thus, the method could be applied to investigate a wide range of future ‘smart’ theranostic agents. Nanoparticles incorporated into the liposomes appear to be very promising fluorescent probes for imaging real-time cellular dynamics.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Banachowicz, Ewa
Wydawnictwo Naukowe Uniwersytetu im. Adama Mickiewicza, 2013, ISBN: 9788323226246.
@book{Banachowicz2013,
title = {Struktura i parametry fizyczne biopolimerów: badania z zastosowaniem metod rozproszeniowych i modelowania komputerowego},
author = {Ewa Banachowicz},
url = {https://www.nieprzeczytane.pl/Struktura-i-parametry-fizyczne-biopolimerow,product320280.html},
isbn = {9788323226246},
year = {2013},
date = {2013-01-01},
publisher = {Wydawnictwo Naukowe Uniwersytetu im. Adama Mickiewicza},
keywords = {},
pubstate = {published},
tppubtype = {book}
}
2012
Pinkney, J N M; Zawadzki, Paweł; Mazuryk, Jarosław; Arciszewska, L K; Sherratt, D J; Kapanidis, A N
Capturing reaction paths and intermediates in Cre-loxP recombination using single-molecule fluorescence Journal Article
In: Proceedings of the National Academy of Sciences, vol. 109, no. 51, pp. 20871–20876, 2012, ISSN: 0027-8424.
@article{Pinkney2012,
title = {Capturing reaction paths and intermediates in Cre-loxP recombination using single-molecule fluorescence},
author = {J N M Pinkney and Paweł Zawadzki and Jarosław Mazuryk and L K Arciszewska and D J Sherratt and A N Kapanidis},
url = {http://www.ncbi.nlm.nih.gov/pubmed/23184986 http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=PMC3529024 http://www.pnas.org/cgi/doi/10.1073/pnas.1211922109},
doi = {10.1073/pnas.1211922109},
issn = {0027-8424},
year = {2012},
date = {2012-12-01},
journal = {Proceedings of the National Academy of Sciences},
volume = {109},
number = {51},
pages = {20871--20876},
abstract = {Site-specific recombination plays key roles in microbe biology and is exploited extensively to manipulate the genomes of higher organisms. Cre is a well studied site-specific recombinase, responsible for establishment and maintenance of the P1 bacteriophage genome in bacteria. During recombination, Cre forms a synaptic complex between two 34-bp DNA sequences called loxP after which a pair of strand exchanges forms a Holliday junction (HJ) intermediate; HJ isomerization then allows a second pair of strand exchanges and thus formation of the final recombinant product. Despite extensive work on the Cre-loxP system, many of its mechanisms have remained unclear, mainly due to the transient nature of complexes formed and the ensemble averaging inherent to most biochemical work. Here, we address these limitations by introducing tethered fluorophore motion (TFM), a method that monitors large-scale DNA motions through reports of the diffusional freedom of a single fluorophore. We combine TFM with Foerster resonance energy transfer (FRET) and simultaneously observe both large- and small-scale conformational changes within single DNA molecules. Using TFM-FRET, we observed individual recombination reactions in real time and analyzed their kinetics. Recombination was initiated predominantly by exchange of the "bottom-strands" of the DNA substrate. In productive complexes we used FRET distributions to infer rapid isomerization of the HJ intermediates and that a rate-limiting step occurs after this isomerization. We also observed two nonproductive synaptic complexes, one of which was structurally distinct from conformations in crystals. After recombination, the product synaptic complex was extremely stable and refractory to subsequent rounds of recombination.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Aliotta, F; Pochylski, Mikołaj; Ponterio, R C; Saija, F; Salvato, G; Vasi, C S
Structure of bulk water from Raman measurements of supercooled pure liquid and LiCl solutions Journal Article
In: Physical Review B, vol. 86, no. 13, pp. 134301, 2012, ISSN: 1098-0121.
@article{Aliotta2012,
title = {Structure of bulk water from Raman measurements of supercooled pure liquid and LiCl solutions},
author = {F Aliotta and Mikołaj Pochylski and R C Ponterio and F Saija and G Salvato and C S Vasi},
url = {https://link.aps.org/doi/10.1103/PhysRevB.86.134301},
doi = {10.1103/PhysRevB.86.134301},
issn = {1098-0121},
year = {2012},
date = {2012-10-01},
journal = {Physical Review B},
volume = {86},
number = {13},
pages = {134301},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Koralewski, M; Pochylski, Mikołaj; Mitróová, Z; Melníková, L; Kováč, J; Timko, M; Kopčanský, P
Magnetic Birefringence Study of the Magnetic Core Structure of Ferritin Journal Article
In: Acta Physica Polonica A, vol. 121, no. 5-6, pp. 1237–1239, 2012, ISSN: 0587-4246.
@article{Koralewski2012,
title = {Magnetic Birefringence Study of the Magnetic Core Structure of Ferritin},
author = {M Koralewski and Mikołaj Pochylski and Z Mitróová and L Melníková and J Kováč and M Timko and P Kopčanský},
url = {http://przyrbwn.icm.edu.pl/APP/PDF/121/a121z5p76.pdf},
doi = {10.12693/APhysPolA.121.1237},
issn = {0587-4246},
year = {2012},
date = {2012-05-01},
journal = {Acta Physica Polonica A},
volume = {121},
number = {5-6},
pages = {1237--1239},
abstract = {Magnetically induced optical birefringence (∆n) was measured for magnetoferritin and horse spleen ferritin aqueous suspensions. The ∆n for magnetoferritin was described in the frame of the Langevin formalism taking into account distribution of core diameter. The established average magnetic dipole moment and core diameter is equal to about 460 µB and 3 nm, respectively. It was shown that magnetic birefringence and the CottonMouton constant can be powerful parameters in identication of the magnetic core structure of ferritin, especially useful in biomedicine.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Szymańska, A; Ślósarek, Genowefa
Light Scattering Studies of Hydration and Structural Transformations of Lysozyme Journal Article
In: Acta Physica Polonica A, vol. 121, no. 3, pp. 694–698, 2012, ISSN: 0587-4246.
@article{Szymanska2012,
title = {Light Scattering Studies of Hydration and Structural Transformations of Lysozyme},
author = {A Szymańska and Genowefa Ślósarek},
url = {http://przyrbwn.icm.edu.pl/APP/PDF/121/a121z3p24.pdf},
doi = {10.12693/APhysPolA.121.694},
issn = {0587-4246},
year = {2012},
date = {2012-03-01},
journal = {Acta Physica Polonica A},
volume = {121},
number = {3},
pages = {694--698},
abstract = {We have applied the method of dynamic light scattering to analyse the lysozymeethanol interaction. For low ethanol concentration (below 4.3% (v/v)) no chemical denaturation process is observed. When the ethanol concentration grows above the triggering concentration the hydrodynamic radius of lysozyme increases, indicating the structural changes within the protein molecule. The observed structural modications are attributed to dehydration and preliminary tertiary structure modication of the protein molecule.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Calandra, Pietro; Mandanici, Andrea; Liveri, Vincenzo Turco; Pochylski, Mikołaj; Aliotta, Francesco
Emerging dynamics in surfactant-based liquid mixtures: Octanoic acid/bis(2-ethylhexyl) amine systems Journal Article
In: The Journal of Chemical Physics, vol. 136, no. 6, pp. 064515, 2012, ISSN: 0021-9606.
@article{Calandra2012,
title = {Emerging dynamics in surfactant-based liquid mixtures: Octanoic acid/bis(2-ethylhexyl) amine systems},
author = {Pietro Calandra and Andrea Mandanici and Vincenzo Turco Liveri and Mikołaj Pochylski and Francesco Aliotta},
url = {http://aip.scitation.org/doi/10.1063/1.3684713},
doi = {10.1063/1.3684713},
issn = {0021-9606},
year = {2012},
date = {2012-02-01},
journal = {The Journal of Chemical Physics},
volume = {136},
number = {6},
pages = {064515},
publisher = {American Institute of Physics},
abstract = {This work focuses on the dynamic phenomena emerging in self-assembled transient intermolecular networks formed when two different surfactants are mixed. In particular, the relaxation processes in liquid mixtures composed by bis(2-ethylhexyl)amine (BEEA) and octanoic acid (OA) in the whole composition range has been investigated by dielectric spectroscopy and Brillouin spectroscopy. A thorough analysis of all the experimental data consistently suggests that, mainly driven by acid-base interactions arising when the two surfactants are mixed, supra-molecular aggregates formation causes the slowing down of molecular dynamics. This, in turn, reflects to longer-range relaxations. These changes have been found to be composition-dependent, involving strong departures of the mixture physico-chemical properties from an ideal behaviour, and reflecting the structural and dynamical features of local structures. In particular, the peculiar dynamic processes occurring in these local inter-molecular structures, have been...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ślósarek, Genowefa
Fizyka - biofizyka - biologia Incollection
In: Nauka - Religia - Dzieje, pp. 77–89, Polska Akademia Umiejętności, 2012, 2012.
@incollection{Slosarek2012a,
title = {Fizyka - biofizyka - biologia},
author = {Genowefa Ślósarek},
year = {2012},
date = {2012-01-01},
booktitle = {Nauka - Religia - Dzieje},
pages = {77--89},
publisher = {Polska Akademia Umiejętności},
address = {2012},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
Gapiński, Jacek; Naegele, Gerhard; Patkowski, Adam
Freezing lines of colloidal Yukawa spheres. I. A Rogers-Young integral equation study Journal Article
In: The Journal of Chemical Physics, vol. 136, no. 2, pp. 024507, 2012, ISSN: 0021-9606.
@article{Gapinski2012,
title = {Freezing lines of colloidal Yukawa spheres. I. A Rogers-Young integral equation study},
author = {Jacek Gapiński and Gerhard Naegele and Adam Patkowski},
url = {http://www.ncbi.nlm.nih.gov/pubmed/22260603 http://aip.scitation.org/doi/10.1063/1.3675607},
doi = {10.1063/1.3675607},
issn = {0021-9606},
year = {2012},
date = {2012-01-01},
journal = {The Journal of Chemical Physics},
volume = {136},
number = {2},
pages = {024507},
abstract = {Using the Rogers-Young (RY) integral equation scheme for the static structure factor combined with the one-phase Hansen-Verlet (HV) freezing rule, we study the equilibrium structure and two-parameter freezing lines of colloidal particles with Yukawa-type pair interactions representing charge-stabilized silica spheres suspended in dimethylformamide (DMF). Results are presented for a vast range of concentrations, salinities and effective charges covering particles with masked excluded-volume interactions. The freezing lines were obtained for the low-charge and high-charge solutions of the static structure factor, for various two-parameter sets of experimentally accessible system parameters. All RY-HV based freezing lines can be mapped on a universal fluid-solid coexistence line in good agreement with computer simulation predictions. The RY-HV calculations extend the freezing lines obtained in earlier simulations to a broader parameter range. The experimentally observed fluid-bcc-fluid reentrant transition of charged silica spheres in DMF can be explained using the freezing lines obtained in this work.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Szymańska, Agnieszka; Hornowski, Tomasz; Ślósarek, Genowefa
Denaturation and aggregation of lysozyme in water-ethanol solution. Journal Article
In: Acta Biochimica Polonica, vol. 59, no. 2, pp. 317–21, 2012, ISSN: 1734-154X.
@article{Szymanska2012a,
title = {Denaturation and aggregation of lysozyme in water-ethanol solution.},
author = {Agnieszka Szymańska and Tomasz Hornowski and Genowefa Ślósarek},
url = {http://www.ncbi.nlm.nih.gov/pubmed/22712059},
issn = {1734-154X},
year = {2012},
date = {2012-01-01},
journal = {Acta Biochimica Polonica},
volume = {59},
number = {2},
pages = {317--21},
abstract = {We have applied rheological methods for the analysis of ethanol-lysozyme interaction during the process of denaturation and aggregation of the protein. At low concentration of ethanol a destruction of the hydration shell of lysozyme is observed. With the increase in the ethanol concentration a structural transformation takes place. It leads to the formation of a protein aggregate with an elongated structure. The rheological characteristics of lysozyme-water-ethanol solution changes from Newtonian to pseudoplastic.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ślósarek, Genowefa
Współczesna rewolucja naukowa na pograniczu fizyki i biologii Journal Article
In: Zagadnienia Filozoficzne w Nauce (Philosophical Problems in Science), no. 51, pp. 96–115, 2012, ISSN: 0867-8296.
@article{Slosarek2012b,
title = {Współczesna rewolucja naukowa na pograniczu fizyki i biologii},
author = {Genowefa Ślósarek},
url = {http://cejsh.icm.edu.pl/cejsh/element/bwmeta1.element.cejsh-5e0cf13c-1391-4434-8b9a-88e146652db4},
issn = {0867-8296},
year = {2012},
date = {2012-01-01},
journal = {Zagadnienia Filozoficzne w Nauce (Philosophical Problems in Science)},
number = {51},
pages = {96--115},
publisher = {Uniwersytet Papieski Jana Pawła II w Krakowie - Wydawnictwo Naukowe},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Pajzderska, Maria; Karolczak, Jerzy; Burdziński, Gotard; Dobek, Andrzej; Jones, Michael R
Primary electron transfer reactions in membrane-bound open and closed reaction centers from purple bacterium Rhodobacter sphaeroides Journal Article
In: Acta Physica Polonica A, vol. 131, no. 2, pp. 263-268, 2012.
@article{Gibasiewicz2012,
title = {Primary electron transfer reactions in membrane-bound open and closed reaction centers from purple bacterium Rhodobacter sphaeroides},
author = {Krzysztof Gibasiewicz and Maria Pajzderska and Jerzy Karolczak and Gotard Burdziński and Andrzej Dobek and Michael R Jones},
doi = {10.12693/APhysPolA.122.263},
year = {2012},
date = {2012-01-01},
journal = {Acta Physica Polonica A},
volume = {131},
number = {2},
pages = {263-268},
abstract = {Most ultrafast transient absorption studies of primary electron transfer in reaction centers from purple bacteria have been performed in complexes isolated from their natural lipid membrane environment using detergent. In this contribution we present near-UV-vis transient absorption studies of reaction centers embedded in their natural membrane environment. The evolution of absorption spectra recorded with subpicosecond resolution and reflecting primarily electron transfer reactions has been compared to data obtained previously for isolated reaction centers. We conclude that the overall spectral evolution in both types of samples is similar, and the environment of the reaction center protein has only a minor effect on the primary electron transfer reactions. The differences between the two samples are explained in terms of different energetic levels (and their different temporal evolution) of the two initial charge separated states P+BA- and P+HA-, with P being the primary electron donor and BA and HA the two consecutive electron acceptors. Additionally, in the electric field generated by P+HA-, BA in membrane-bound reaction centers undergoes a stronger electrochromic shift than in isolated reaction centers.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2011
Aliotta, F; Gapiński, Jacek; Pochylski, Mikołaj; Ponterio, R C; Saija, F; Vasi, C
Collective acoustic modes in liquids: A comparison between the generalized-hydrodynamics and memory-function approaches Journal Article
In: Physical Review E, vol. 84, no. 5, pp. 051202, 2011, ISSN: 1539-3755.
@article{Aliotta2011,
title = {Collective acoustic modes in liquids: A comparison between the generalized-hydrodynamics and memory-function approaches},
author = {F Aliotta and Jacek Gapiński and Mikołaj Pochylski and R C Ponterio and F Saija and C Vasi},
url = {http://www.ncbi.nlm.nih.gov/pubmed/22181402 https://link.aps.org/doi/10.1103/PhysRevE.84.051202},
doi = {10.1103/PhysRevE.84.051202},
issn = {1539-3755},
year = {2011},
date = {2011-11-01},
journal = {Physical Review E},
volume = {84},
number = {5},
pages = {051202},
abstract = {The most familiar approaches used to describe the dynamical structure factor from adiabatic density fluctuations in liquids are based on generalized hydrodynamics and on the memory function, respectively. We show that, contrary to the common belief, the two approaches are not fully equivalent. In particular, models based on the memory function of a normalized damped oscillator fail in reproducing the correct experimental spectral profiles of systems close to the relaxation process. The discrepancy is due to misleading interpretation of the theoretical memory-function expressions, producing an unavoidable mixing of spectral contribution at different wave vectors when the theory is forced beyond its limits of validity.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Pajzderska, Maria; Potter, Jane A; Fyfe, Paul. K; Dobek, Andrzej; Brettel, Klaus; Jones, Michael R
In: The Journal of Physical Chemistry B, vol. 115, no. 44, pp. 13037–13050, 2011, ISSN: 1520-6106.
@article{Gibasiewicz2011,
title = {Mechanism of Recombination of the P + H A – Radical Pair in Mutant Rhodobacter sphaeroides Reaction Centers with Modified Free Energy Gaps Between P + B A – and P + H A –},
author = {Krzysztof Gibasiewicz and Maria Pajzderska and Jane A Potter and Paul. K Fyfe and Andrzej Dobek and Klaus Brettel and Michael R Jones},
url = {http://pubs.acs.org/doi/abs/10.1021/jp206462g},
doi = {10.1021/jp206462g},
issn = {1520-6106},
year = {2011},
date = {2011-11-01},
journal = {The Journal of Physical Chemistry B},
volume = {115},
number = {44},
pages = {13037--13050},
publisher = {American Chemical Society},
abstract = {The kinetics of recombination of the P+HA– radical pair were compared in wild-type reaction centers from Rhodobacter sphaeroides and in seven mutants in which the free energy gap, $Delta$G, between the charge separated states P+BA– and P+HA– was either increased or decreased. Five of the mutant RCs had been described previously, and X-ray crystal structures of two newly constructed complexes were determined by X-ray crystallography. The charge recombination reaction was accelerated in all mutants with a smaller $Delta$G than in the wild-type, and was slowed in a mutant having a larger $Delta$G. The free energy difference between the state P+HA– and the PHA ground state was unaffected by most of these mutations. These observations were consistent with a model in which the P+HA– → PHA charge recombination is thermally activated and occurs via the intermediate state P+BA–, with a mean rate related to the size of the $Delta$G between the states P+BA– and P+HA– and not the $Delta$G between P+HA– and the ground state. A more detailed analys...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Graczykowski, Bartłomiej; Dobek, Andrzej
Iron–dextran complex: Geometrical structure and magneto-optical features Journal Article
In: Journal of Colloid and Interface Science, vol. 363, no. 2, pp. 551–556, 2011, ISSN: 00219797.
@article{Graczykowski2011,
title = {Iron–dextran complex: Geometrical structure and magneto-optical features},
author = {Bartłomiej Graczykowski and Andrzej Dobek},
url = {http://www.ncbi.nlm.nih.gov/pubmed/21872262 http://linkinghub.elsevier.com/retrieve/pii/S0021979711009465},
doi = {10.1016/j.jcis.2011.07.080},
issn = {00219797},
year = {2011},
date = {2011-11-01},
journal = {Journal of Colloid and Interface Science},
volume = {363},
number = {2},
pages = {551--556},
abstract = {Molecular mass of the iron-dextran complex (M(w)=1133 kDa), diameter of its particles (∼8.3 nm) and the content of iron ions in the complex core (N(Fe)=6360) were determined by static light scattering, measurements of refractive index increment and the Cotton-Mouton effect in solution. The known number of iron ions permitted the calculation of the permanent magnetic dipole moment value to be $mu$(Fe)=3.17×10(-18) erg Oe(-1) and the determination of anisotropy of linear magneto-optical polarizabilities components as $Delta$$chi$=9.2×10(-21) cm(3). Knowing both values and the value of the mean linear optical polarizability $alpha$=7.3×10(-20) cm(3), it was possible to show that the total measured CM effect was due to the reorientation of the permanent and the induced magnetic dipole moments of the complex. Analysis of the measured magneto-optical birefringence indicated very small optical anisotropy of linear optical polarizability components, $kappa$($alpha$), which suggested a homogeneous structure of particles of spherical symmetry.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Koralewski, M; Pochylski, Mikołaj; Mitróová, Z; Timko, M; Kopčanský, P; Melníková, L
Magnetic birefringence of natural and synthetic ferritin Journal Article
In: Journal of Magnetism and Magnetic Materials, vol. 323, no. 18-19, pp. 2413–2417, 2011, ISSN: 03048853.
@article{Koralewski2011,
title = {Magnetic birefringence of natural and synthetic ferritin},
author = {M Koralewski and Mikołaj Pochylski and Z Mitróová and M Timko and P Kopčanský and L Melníková},
url = {https://www.sciencedirect.com/science/article/pii/S0304885311002861 http://linkinghub.elsevier.com/retrieve/pii/S0304885311002861},
doi = {10.1016/j.jmmm.2011.05.017},
issn = {03048853},
year = {2011},
date = {2011-10-01},
journal = {Journal of Magnetism and Magnetic Materials},
volume = {323},
number = {18-19},
pages = {2413--2417},
publisher = {North-Holland},
abstract = {Magnetically induced optical birefringence ($Delta$n) was measured for magnetoferritin (MFer), horse spleen ferritin (HSF) and nanoscale magnetite aqueous suspensions. The anisotropy of optical polarizability was calculated. The average magnetic dipole moment calculated assuming the Langevin model was about 20,000 and 8500$mu$B per particle, for magnetite nanoparticle and magnetoferritin, respectively. Poor fitting results and the unphysical value of average magnetic moment per Fe ion for MFer excluded the use of the simple Langevin model for description of $Delta$n for this compound. It was deduced that for MFer the estimated average magnetic moment should be about 1125$mu$B per molecule. A magnetic contribution from the protein shell was found to be negligible. Results from the low-field region permit the calculation of the Cotton–Mouton (C–M) constants and their comparison for the substances studied. It was shown that magnetic birefringence and C–M constant can be powerful parameters in identification of the magnetic core structure of ferritins, especially useful in biomedicine.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Danielewicz-Ferchmin, Irena; Banachowicz, Ewa; Ferchmin, Ryszard A
Role of electromechanical and mechanoelectric effects in protein hydration under hydrostatic pressure Journal Article
In: Physical Chemistry Chemical Physics, vol. 13, no. 39, pp. 17722, 2011, ISSN: 1463-9076.
@article{Danielewicz-Ferchmin2011,
title = {Role of electromechanical and mechanoelectric effects in protein hydration under hydrostatic pressure},
author = {Irena Danielewicz-Ferchmin and Ewa Banachowicz and Ryszard A Ferchmin},
url = {http://www.ncbi.nlm.nih.gov/pubmed/21897960 http://xlink.rsc.org/?DOI=c1cp21819k},
doi = {10.1039/c1cp21819k},
issn = {1463-9076},
year = {2011},
date = {2011-10-01},
journal = {Physical Chemistry Chemical Physics},
volume = {13},
number = {39},
pages = {17722},
abstract = {Recent measurements of lysozyme hydration water density under non-denaturing pressure show that it is higher than that of bulk water in the same conditions. High protein hydration layer density has earlier been observed at ambient conditions and ascribed to electrostriction. We calculate the pressure-induced protein mean surface charge density increment $Delta$$sigma$. Within the hydration layer, the higher fields due to $Delta$$sigma$ lead to an additional water compression via electrostriction. The increment $Delta$$sigma$ is considered as due to a mechanoelectric effect in protein molecules. The mean value of the effective mechanoelectric coefficient d is calculated and compared with piezoelectric coefficients of amino acids and their compounds.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Koralewski, M; Pochylski, Mikołaj; Gierszewski, J
Magnetic birefringence of iron oxyhydroxide nanoparticles stabilised by sucrose Journal Article
In: Journal of Magnetism and Magnetic Materials, vol. 323, no. 9, pp. 1140–1144, 2011, ISSN: 03048853.
@article{Koralewski2011a,
title = {Magnetic birefringence of iron oxyhydroxide nanoparticles stabilised by sucrose},
author = {M Koralewski and Mikołaj Pochylski and J Gierszewski},
url = {https://www.sciencedirect.com/science/article/pii/S0304885310009194 http://linkinghub.elsevier.com/retrieve/pii/S0304885310009194},
doi = {10.1016/j.jmmm.2010.12.024},
issn = {03048853},
year = {2011},
date = {2011-05-01},
journal = {Journal of Magnetism and Magnetic Materials},
volume = {323},
number = {9},
pages = {1140--1144},
publisher = {North-Holland},
abstract = {Magnetically induced optical birefringence is used to investigate pharmaceutically important iron–sucrose aqueous suspensions. XRD and TEM measurements of the system of oxyhydroxide particles stabilised by sucrose have shown that this system contains iron oxyhydroxide in the form of 2–5nm particles. The mineral form of the iron-core is suggested to be akaganeite. Anisotropy of the optical polarizability and magnetic susceptibility of akaganeite nanoparticles are calculated. The permanent dipole moment obtained for the nanoparticles studied was found to be negligible, in agreement with the characteristic superparamagnetic behaviour of the magnetic nanoparticles observed at room temperature. The Neel temperature of these nanoparticles is estimated as below 276K. The results obtained are discussed against a background of the earlier studies of similar nanoscale systems.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kalwarczyk, Tomasz; Ziȩbacz, Natalia; Bielejewska, Anna; Zaboklicka, Ewa; Koynov, Kaloian; Szymański, Jȩdrzej; Wilk, Agnieszka; Patkowski, Adam; Gapiński, Jacek; Butt, Hans-Jürgen; Hołyst, Robert
Comparative Analysis of Viscosity of Complex Liquids and Cytoplasm of Mammalian Cells at the Nanoscale Journal Article
In: Nano Letters, vol. 11, no. 5, pp. 2157–2163, 2011, ISSN: 1530-6984.
@article{Kalwarczyk2011,
title = {Comparative Analysis of Viscosity of Complex Liquids and Cytoplasm of Mammalian Cells at the Nanoscale},
author = {Tomasz Kalwarczyk and Natalia Ziȩbacz and Anna Bielejewska and Ewa Zaboklicka and Kaloian Koynov and Jȩdrzej Szymański and Agnieszka Wilk and Adam Patkowski and Jacek Gapiński and Hans-Jürgen Butt and Robert Hołyst},
url = {http://www.ncbi.nlm.nih.gov/pubmed/21513331 http://pubs.acs.org/doi/abs/10.1021/nl2008218},
doi = {10.1021/nl2008218},
issn = {1530-6984},
year = {2011},
date = {2011-05-01},
journal = {Nano Letters},
volume = {11},
number = {5},
pages = {2157--2163},
abstract = {We present a scaling formula for size-dependent viscosity coefficients for proteins, polymers, and fluorescent dyes diffusing in complex liquids. The formula was used to analyze the mobilities of probes of different sizes in HeLa and Swiss 3T3 mammalian cells. This analysis unveils in the cytoplasm two length scales: (i) the correlation length $xi$ (approximately 5 nm in HeLa and 7 nm in Swiss 3T3 cells) and (ii) the limiting length scale that marks the crossover between nano- and macroscale viscosity (approximately 86 nm in HeLa and 30 nm in Swiss 3T3 cells). During motion, probes smaller than $xi$ experienced matrix viscosity: $eta$(matrix) ≈ 2.0 mPatextperiodcentereds for HeLa and 0.88 mPatextperiodcentereds for Swiss 3T3 cells. Probes much larger than the limiting length scale experienced macroscopic viscosity, $eta$(macro) ≈ 4.4 × 10(-2) and 2.4 × 10(-2) Patextperiodcentereds for HeLa and Swiss 3T3 cells, respectively. Our results are persistent for the lengths scales from 0.14 nm to a few hundred nanometers.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Aliotta, F; Ponterio, R C; Saija, F; Gapiński, J; Pochylski, Mikołaj
Relaxation dynamics and evidence of scaling behaviours in aqueous polymer solutions Journal Article
In: Journal of Molecular Liquids, vol. 159, no. 1, pp. 105–111, 2011, ISSN: 01677322.
@article{Aliotta2011b,
title = {Relaxation dynamics and evidence of scaling behaviours in aqueous polymer solutions},
author = {F Aliotta and R C Ponterio and F Saija and J Gapiński and Mikołaj Pochylski},
url = {http://www.events.sbg.ac.at/emlg2009/EMLG2009 Abstracts/PL_Aliotta_abstract2.pdf http://linkinghub.elsevier.com/retrieve/pii/S0167732210003545},
doi = {10.1016/j.molliq.2010.12.006},
issn = {01677322},
year = {2011},
date = {2011-02-01},
journal = {Journal of Molecular Liquids},
volume = {159},
number = {1},
pages = {105--111},
abstract = {The results from some recent Brillouin scattering experiments on aqueous solution of Polyethylene glycol and Polyethylene glycol dimethyl ether are presented. In all the systems a non-Debye relaxation processes have been detected, proceeding on the ps time scale. The average values of the detected relaxation time distributions fail to follow simple Arrhenius behaviors. The temperature evolution of the relaxation time is adequately fitted after the adoption of a phenomenological Vogel-Fulcher-Tammon model. In spite of the different temperature and concentration dependences observed for each system, a unique scaling behavior has been evidenced, at relatively low water contents, when the real and imaginary parts of the loss modulus are plotted as a function of a reduced reverse temperature, T 0 /T, being T 0 the values of the arrest temperature as obtained by the Vogel-Fulcher-Tammon fits. The observation of a unique scaling law for aqueous solutions of polymers characterized by the same average molecular weight but with different end groups suggests for the establishment of similar hydrogen bonded local structures where water plays a main role, acting as a stabilizer bridging neighbouring polymer chains. The possible physical meanings of the obtained phenomenological fitting parameters are discussed and the results are compared with other literature findings. Some excess thermodynamic quantities are analyzed and discussed in the frame of recent approaches. REFERENCES},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Graczykowski, Bartłomiej; Dobek, Andrzej
Iron--dextran complex: Geometrical structure and magneto-optical features Journal Article
In: Journal of colloid and interface science, vol. 363, no. 2, pp. 551–556, 2011.
@article{graczykowski2011iron,
title = {Iron--dextran complex: Geometrical structure and magneto-optical features},
author = {Bartłomiej Graczykowski and Andrzej Dobek},
year = {2011},
date = {2011-01-01},
journal = {Journal of colloid and interface science},
volume = {363},
number = {2},
pages = {551--556},
publisher = {Elsevier},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2010
Wilk, Agnieszka; Huißmann, S; Stiakakis, E; Kohlbrecher, J; Vlassopoulos, D; Likos, C N; Meier, G; Dhont, J K G; Petekidis, G; Vavrin, R
Osmotic shrinkage in star/linear polymer mixtures Journal Article
In: The European Physical Journal E, vol. 32, no. 2, pp. 127–134, 2010, ISSN: 1292-8941.
@article{Wilk2010,
title = {Osmotic shrinkage in star/linear polymer mixtures},
author = {Agnieszka Wilk and S Huißmann and E Stiakakis and J Kohlbrecher and D Vlassopoulos and C N Likos and G Meier and J K G Dhont and G Petekidis and R Vavrin},
url = {http://www.ncbi.nlm.nih.gov/pubmed/20596881 http://www.springerlink.com/index/10.1140/epje/i2010-10607-2},
doi = {10.1140/epje/i2010-10607-2},
issn = {1292-8941},
year = {2010},
date = {2010-06-01},
journal = {The European Physical Journal E},
volume = {32},
number = {2},
pages = {127--134},
abstract = {Multiarm star polymers were used as model grafted colloidal particles with long hairs, to study their size variation due to osmotic forces arising from added linear homopolymers of smaller size. This is the origin of the depletion phenomenon that has been exploited in the past as a means to melt soft colloidal glasses by adding linear chains and analyzed using dynamic light scattering experiments and an effective interactions analysis yielding the depletion potential. Shrinkage is a generic phenomenon for hairy particles, which affects macroscopic properties and state transitions at high concentrations. In this work we present a small-angle neutron scattering study of star/linear polymer mixtures with different size ratios (varying the linear polymer molar mass) and confirm the depletion picture, i.e., osmotic star shrinkage. Moreover, we find that as the linear/star polymer size ratio increases for the same effective linear volume fraction (c/c* with c* the overlapping concentration), the star shrinkage is reduced whereas the onset of shrinkage appears to take place at higher linear polymer volume fractions. A theoretical description of the force balance on a star polymer in solution, accounting for the classic Flory contributions, i.e. elastic and excluded volume, as well as the osmotic force due to the linear chains, accurately predicts the experimental findings of reduced star size as a function of linear polymer concentration. This is done in a parameter-free fashion, in which the size of the cavity created by the star, and from which the chains are excluded, is related to the radius of the former from first principles.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gapiński, Jacek; Szymański, Jȩdrzej; Wilk, Agnieszka; Kohlbrecher, Joachim; Patkowski, Adam; Hołyst, Robert
Size and Shape of Micelles Studied by Means of SANS, PCS, and FCS Journal Article
In: Langmuir, vol. 26, no. 12, pp. 9304–9314, 2010, ISSN: 0743-7463.
@article{Gapinski2010,
title = {Size and Shape of Micelles Studied by Means of SANS, PCS, and FCS},
author = {Jacek Gapiński and Jȩdrzej Szymański and Agnieszka Wilk and Joachim Kohlbrecher and Adam Patkowski and Robert Hołyst},
url = {http://pubs.acs.org/doi/abs/10.1021/la100181d},
doi = {10.1021/la100181d},
issn = {0743-7463},
year = {2010},
date = {2010-06-01},
journal = {Langmuir},
volume = {26},
number = {12},
pages = {9304--9314},
publisher = {American Chemical Society},
abstract = {The hexaethylene glycol monododecyl ether (C12E6) micelles at concentrations up to 10% have been studied in their isotropic phase (10−48 °C) by means of small angle neutron scattering (SANS) and photon correlation spectroscopy (PCS). The SANS data obtained at low temperatures could be unequivocally interpreted as a result of scattering from a suspension of compact globular micelles with the shape of a triaxial ellipsoid or a short end-capped elliptical rod. Different models have been applied to analyze the SANS data obtained at higher temperatures: (i) elongated rod-like micelles with purely sterical interactions, (ii) compact globular micelles with a weak attractive potential, and (iii) globular micelles influenced by the critical phenomena in the whole temperature range studied. The good quality of the experimental data indicated model (i) as the best fit for our data. The diffusion coefficients obtained from the PCS measurements have been compared to the diffusion coefficients calculated for the rod-li...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pochylski, Mikołaj; Gapiński, Jacek
Brillouin Scattering Study of Polyethylene Glycol/Water System below Crystallization Temperature Journal Article
In: The Journal of Physical Chemistry B, vol. 114, no. 8, pp. 2644–2649, 2010, ISSN: 1520-6106.
@article{Pochylski2010a,
title = {Brillouin Scattering Study of Polyethylene Glycol/Water System below Crystallization Temperature},
author = {Mikołaj Pochylski and Jacek Gapiński},
url = {http://www.ncbi.nlm.nih.gov/pubmed/20146525 http://pubs.acs.org/doi/abs/10.1021/jp910783j},
doi = {10.1021/jp910783j},
issn = {1520-6106},
year = {2010},
date = {2010-03-01},
journal = {The Journal of Physical Chemistry B},
volume = {114},
number = {8},
pages = {2644--2649},
abstract = {We present the results of a Brillouin scattering experiment on aqueous mixtures of polyethylene glycol polymer cooled below their crystallization temperature. The shape of the registered spectrum changed considerably when the phase transition occurs. The Brillouin profile consisted of two peaks which has been interpreted as a result of the scattering of light on the local regions exhibiting different compressibility. Examination of the temperature dependence of the two Brillouin peak positions allows the identification of the specific microstructures present in the studied system. The existence of a complexlike hydration structure, stable against dilution and temperature agitation, was suggested. The nature and the behavior of the hydration complex is discussed in view of the earlier investigations in similar systems.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Stiakakis, E; Wilk, Agnieszka; Kohlbrecher, J; Vlassopoulos, D; Petekidis, G
Slow dynamics, aging, and crystallization of multiarm star glasses Journal Article
In: Physical Review E, vol. 81, no. 2, pp. 020402, 2010, ISSN: 1539-3755.
@article{Stiakakis2010,
title = {Slow dynamics, aging, and crystallization of multiarm star glasses},
author = {E Stiakakis and Agnieszka Wilk and J Kohlbrecher and D Vlassopoulos and G Petekidis},
url = {https://link.aps.org/doi/10.1103/PhysRevE.81.020402},
doi = {10.1103/PhysRevE.81.020402},
issn = {1539-3755},
year = {2010},
date = {2010-02-01},
journal = {Physical Review E},
volume = {81},
number = {2},
pages = {020402},
publisher = {American Physical Society},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pochylski, Mikołaj; Aliotta, F; Ponterio, R C; Saija, F; Gapiński, Jacek
Some Evidence of Scaling Behavior in the Relaxation Dynamics of Aqueous Polymer Solutions Journal Article
In: The Journal of Physical Chemistry B, vol. 114, no. 4, pp. 1614–1620, 2010, ISSN: 1520-6106.
@article{Pochylski2010b,
title = {Some Evidence of Scaling Behavior in the Relaxation Dynamics of Aqueous Polymer Solutions},
author = {Mikołaj Pochylski and F Aliotta and R C Ponterio and F Saija and Jacek Gapiński},
url = {http://www.ncbi.nlm.nih.gov/pubmed/20055360 http://pubs.acs.org/doi/abs/10.1021/jp9052456},
doi = {10.1021/jp9052456},
issn = {1520-6106},
year = {2010},
date = {2010-02-01},
journal = {The Journal of Physical Chemistry B},
volume = {114},
number = {4},
pages = {1614--1620},
abstract = {The structural relaxation behavior of aqueous solution of poly(ethylene glycol) and methoxy-capped poly(ethylene glycol), both of mean molecular mass 400 g/mol, is investigated by Brillouin scattering experiments. In both cases non-Debye relaxation processes have been detected, proceeding on the picosecond time scale. The average values of the detected relaxation time distributions fail to follow the simple Arrhenius behavior. The temperature evolution of the relaxation time is adequately fitted using the phenomenological Vogel-Fulcher-Tamman (VFT) model. In spite of the different temperature and concentration dependences observed for the two kinds of systems, with the exception of the highest samples concentrations, a unique scaling behavior has been found for the real and imaginary parts of the loss modulus plotted as a function of the reduced inverse temperature, T(0)/T, T(0) being the VFT arrest temperature. The presence of a unique scaling law in aqueous solutions of polymers characterized by different end groups suggests the establishment of similar hydrogen-bonded local structures. Within this scenario, water acts as a stabilizer and plays the main role bridging neighboring polymer chains. The possible physical interpretation of the obtained fit parameters is discussed, and the results are compared with other literature findings.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gapiński, Jacek; Patkowski, Adam; Naegele, Gerhard
Generic behavior of the hydrodynamic function of charged colloidal suspensions Journal Article
In: The Journal of Chemical Physics, vol. 132, no. 5, pp. 054510, 2010, ISSN: 0021-9606.
@article{Gapinski2010a,
title = {Generic behavior of the hydrodynamic function of charged colloidal suspensions},
author = {Jacek Gapiński and Adam Patkowski and Gerhard Naegele},
url = {http://www.ncbi.nlm.nih.gov/pubmed/20136325 http://aip.scitation.org/doi/10.1063/1.3306397},
doi = {10.1063/1.3306397},
issn = {0021-9606},
year = {2010},
date = {2010-02-01},
journal = {The Journal of Chemical Physics},
volume = {132},
number = {5},
pages = {054510},
abstract = {We discuss the generic behavior of the hydrodynamic function H(q) and diffusion function D(q) characterizing the short-time diffusion in suspensions of charge-stabilized colloidal spheres, by covering the whole fluid regime. Special focus is given to the behavior of these functions at the freezing transition specified by the Hansen-Verlet freezing rule. Results are presented in dependence on scattering wavenumber q, effective particle charge, volume fraction, salt concentration, and particle size, by considering both the low-charge and high-charge branch solutions of static structure factors. The existence of two charge branches leads to the prediction of a re-entrant melting-freezing-melting transition for increasing particle concentration at very low salinity. A universal limiting contour line is derived for the principal peak height value of H(q), independent of particle charge and diameter, and concentration and salinity, which separates the fluid from the fluid-solid coexistence region. This line is only weakly dependent on the value of the structure factor peak height entering the Hansen-Verlet rule. A dynamic freezing criterion is derived in terms of the short-time cage diffusion coefficient, a quantity easily measurable in a scattering experiment. The higher-dimensional parameter scans underlying this study make use of the fast and highly efficient deltagamma-scheme in conjunction with the analytic rescaled mean spherical approximation input for the static structure factor. Our results constitute a comprehensive database useful to researchers performing dynamic scattering experiments on charge-stabilized dispersions.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ponterio, R C; Pochylski, Mikołaj; Aliotta, F; Vasi, C; Fontanella, M E; Saija, F
Raman scattering measurements on a floating water bridge Journal Article
In: Journal of Physics D: Applied Physics, vol. 43, no. 17, pp. 175405, 2010.
@article{Ponterio2010,
title = {Raman scattering measurements on a floating water bridge},
author = {R C Ponterio and Mikołaj Pochylski and F Aliotta and C Vasi and M E Fontanella and F Saija},
url = {http://stacks.iop.org/0022-3727/43/i=17/a=175405},
doi = {10.1088/0022-3727/43/17/175405},
year = {2010},
date = {2010-01-01},
journal = {Journal of Physics D: Applied Physics},
volume = {43},
number = {17},
pages = {175405},
abstract = {It was observed that when polarized by an intense electric field, water is able to self-arrange into macroscopic cylindrical wires that can hang up and remain floating against gravity. This phenomenon is now known as a 'water bridge'. Several attempts have been made to give an explanation of this apparently unusual behaviour of water. A number of experiments have been performed with the aim of probing any possible structural change of bulk water, after application of the electric field. None of the available findings appear conclusive at the moment. Here we report the results of the first Raman scattering experiment on floating water bridges. The inter-molecular OH-stretching band has been investigated and the results have been compared with those from bulk water. Some changes in the scattering profiles after application of the electric field are shown to have a structural origin. The bridges have been obtained, for the first time, in a vertical geometry and under application of an alternating field. The adopted geometry has allowed us to reveal a clear asymmetry between opposite direct current biasing, which can be related to the nature of the charge carriers.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Saija, F; Aliotta, F; Fontanella, M E; Pochylski, Mikołaj; Salvato, G; Vasi, C; Ponterio, R C
Communication: An extended model of liquid bridging Journal Article
In: The Journal of Chemical Physics, vol. 133, no. 8, pp. 081104, 2010.
@article{Saija2010,
title = {Communication: An extended model of liquid bridging},
author = {F Saija and F Aliotta and M E Fontanella and Mikołaj Pochylski and G Salvato and C Vasi and R C Ponterio},
url = {https://doi.org/10.1063/1.3483690},
doi = {10.1063/1.3483690},
year = {2010},
date = {2010-01-01},
journal = {The Journal of Chemical Physics},
volume = {133},
number = {8},
pages = {081104},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Zawadzki, Paweł; Ślósarek, Genowefa; Boryski, Jerzy; Wojtaszek, Przemysław
A fluorescence correlation spectroscopy study of ligand interaction with cytokinin-specific binding protein from mung bean Journal Article
In: Biological Chemistry, vol. 391, no. 1, pp. 43–53, 2010, ISSN: 1437-4315.
@article{Zawadzki2010,
title = {A fluorescence correlation spectroscopy study of ligand interaction with cytokinin-specific binding protein from mung bean},
author = {Paweł Zawadzki and Genowefa Ślósarek and Jerzy Boryski and Przemysław Wojtaszek},
url = {http://www.ncbi.nlm.nih.gov/pubmed/19919180 https://www.degruyter.com/view/j/bchm.2010.391.issue-1/bc.2010.005/bc.2010.005.xml},
doi = {10.1515/bc.2010.005},
issn = {1437-4315},
year = {2010},
date = {2010-01-01},
journal = {Biological Chemistry},
volume = {391},
number = {1},
pages = {43--53},
abstract = {Cytokinins are essential plant hormones that regulate numerous physiological processes. Recently, a protein was identified in mung bean (Vigna radiata) and characterized as a cytokinin-specific binding protein (VrCSBP). Fluorescence correlation spectroscopy was used to investigate the interaction between VrCSBP and its ligands. The synthetic cytokinin, N-phenyl-N'-(4-pyridyl) urea, was labeled with two fluorophores, 7-nitro-2,1,3-benzoxadiazole and rhodamine B. Protein-ligand binding was analyzed in an equilibrium saturation binding experiment and confirmed by the competition assay. Surprisingly, it was found that VrCSBP binds not only to cytokinins, but also to gibberellins. In addition, in the presence of natural cytokinins and gibberellins, two populations of VrCSBP that differ in their diffusion coefficients were detected. The diffusion coefficients of these two populations could be related to mono- and dimeric states, which suggests a new mode of operation in ligand binding by VrCSBP, in which dimerization induced by natural ligands enhances the ligand binding capacity of the protein.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Giera, Wojciech; Ramesh, V M; Webber, Andrew N; van Stokkum, Ivo; van Grondelle, Rienk; Gibasiewicz, Krzysztof
In: Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol. 1797, no. 1, pp. 106–112, 2010, ISSN: 00052728.
@article{Giera2010,
title = {Effect of the P700 pre-oxidation and point mutations near A0 on the reversibility of the primary charge separation in Photosystem I from Chlamydomonas reinhardtii},
author = {Wojciech Giera and V M Ramesh and Andrew N Webber and Ivo van Stokkum and Rienk van Grondelle and Krzysztof Gibasiewicz},
url = {https://www.sciencedirect.com/science/article/pii/S000527280900262X http://linkinghub.elsevier.com/retrieve/pii/S000527280900262X},
doi = {10.1016/j.bbabio.2009.09.006},
issn = {00052728},
year = {2010},
date = {2010-01-01},
journal = {Biochimica et Biophysica Acta (BBA) - Bioenergetics},
volume = {1797},
number = {1},
pages = {106--112},
publisher = {Elsevier},
abstract = {Time-resolved fluorescence studies with a 3-ps temporal resolution were performed in order to: (1) test the recent model of the reversible primary charge separation in Photosystem I (Muller et al., 2003; Holwzwarth et al., 2005, 2006), and (2) to reconcile this model with a mechanism of excitation energy quenching by closed Photosystem I (with P700 pre-oxidized to P700+). For these purposes, we performed experiments using Photosystem I core samples isolated from Chlamydomonas reinhardtii wild type, and two mutants in which the methionine axial ligand to primary electron acceptor, A0, has been change to either histidine or serine. The temporal evolution of fluorescence spectra was recorded for each preparation under conditions where the “primary electron donor,” P700, was either neutral or chemically pre-oxidized to P700+. For all the preparations under study, and under neutral and oxidizing conditions, we observed multiexponential fluorescence decay with the major phases of ∼7 ps and ∼25 ps. The relative amplitudes and, to a minor extent the lifetimes, of these two phases were modulated by the redox state of P700 and by the mutations near A0: both pre-oxidation of P700 and mutations caused slight deceleration of the excited state decay. These results are consistent with a model in which P700 is not the primary electron donor, but rather a secondary electron donor, with the primary charge separation event occurring between the accessory chlorophyll, A, and A0. We assign the faster phase to the equilibration process between the excited state of the antenna/reaction center ensemble and the primary radical pair, and the slower phase to the secondary electron transfer reaction. The pre-oxidation of P700 shifts the equilibrium between the excited state and the primary radical pair towards the excited state. This shift is proposed to be induced by the presence of the positive charge on P700+. The same charge is proposed to be responsible for the fast A+A0−→AA0 charge recombination to the ground state and, in consequence, excitation quenching in closed reaction centers. Mutations of the A0 axial ligand shift the equilibrium in the same direction as pre-oxidation of P700 due to the up-shift of the free energy level of the state A+A0−.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2009
Gibasiewicz, Krzysztof; Pajzderska, Maria; Karolczak, J; Dobek, Andrzej
In: Physical Chemistry Chemical Physics, vol. 11, no. 44, pp. 10484, 2009, ISSN: 1463-9076.
@article{Gibasiewicz2009,
title = {Excitation and electron transfer in reaction centers from Rhodobacter sphaeroides probed and analyzed globally in the 1-nanosecond temporal window from 330 to 700 nm},
author = {Krzysztof Gibasiewicz and Maria Pajzderska and J Karolczak and Andrzej Dobek},
url = {http://xlink.rsc.org/?DOI=b912431d},
doi = {10.1039/b912431d},
issn = {1463-9076},
year = {2009},
date = {2009-11-01},
journal = {Physical Chemistry Chemical Physics},
volume = {11},
number = {44},
pages = {10484},
publisher = {The Royal Society of Chemistry},
abstract = {Global analysis of a set of room temperature transient absorption spectra of Rhodobacter sphaeroidesreaction centers, recorded in wide temporal and spectral ranges and triggered by femtosecond excitation of accessory bacteriochlorophylls at 800 nm, is presented. The data give a comprehensive review of all spectral dynamics features in the visible and near UV, from 330 to 700 nm, related to the primary events in the Rb. sphaeroidesreaction center: excitation energy transfer from the accessory bacteriochlorophylls (B) to the primary donor (P), primary charge separation between the primary donor and primary acceptor (bacteriopheophytin, H), and electron transfer from the primary to the secondary electron acceptor (ubiquinone). In particular, engagement of the accessory bacteriochlorophyll in primary charge separation is shown as an intermediate electron acceptor, and the initial free energy gap of ∼40 meV, between the states P+BA− and P+HA− is estimated. The size of this gap is shown to be constant for the whole 230 ps lifetime of the P+HA− state. The ultrafast spectral dynamics features recorded in the visible range are presented against a background of results from similar studies performed for the last two decades.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kozak, Maciej; Wlodarczyk, Agnieszka; Dobek, Andrzej
Synchrotron radiation small angle scattering studies of d(TTAGGG)4 oligomer in solution Journal Article
In: Radiation Physics and Chemistry, vol. 78, no. 10, pp. S134–S136, 2009, ISSN: 0969806X.
@article{Kozak2009,
title = {Synchrotron radiation small angle scattering studies of d(TTAGGG)4 oligomer in solution},
author = {Maciej Kozak and Agnieszka Wlodarczyk and Andrzej Dobek},
url = {https://www.sciencedirect.com/science/article/pii/S0969806X09002333 http://linkinghub.elsevier.com/retrieve/pii/S0969806X09002333},
doi = {10.1016/j.radphyschem.2009.04.028},
issn = {0969806X},
year = {2009},
date = {2009-10-01},
journal = {Radiation Physics and Chemistry},
volume = {78},
number = {10},
pages = {S134--S136},
publisher = {Pergamon},
abstract = {Telomeric DNA sequences play a crucial role in maintaining chromosome stability and integrity. In human chromosomes telomeres are composed of tandem (TTAGGG)n repeats. The structural parameters and low-resolution structure of a synthetic d(TTAGGG)4 oligomer in solution has been studied in the absence and in the presence of potassium cations, with the use of the small angle scattering of synchrotron radiation. The radii of gyration RG, calculated for d(TTAGGG)4 oligomer (in 10mM Tris/HCl pH 7.3) was 1.42nm, while RG, (in 10mM Tris/HCl pH 7.3; 0.1mM KCl) was 1.32nm. The pair distance distribution function, P(r), yielded a maximum dimension of 4.55and 4.35nm for solutions in the absence and the presence of potassium cations. On the basis of SAXS data, the low-resolution structure in solution has been reconstructed using ab inito methods.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Holyst, Robert; Bielejewska, Anna; Szymański, Jędrzej; Wilk, Agnieszka; Patkowski, Adam; Gapiński, Jacek; żywociński, Andrzej; Kalwarczyk, Tomasz; Kalwarczyk, Ewelina; Tabaka, Marcin; Ziębacz, Natalia; Wieczorek, Stefan A
In: Physical Chemistry Chemical Physics, vol. 11, no. 40, pp. 9025, 2009, ISSN: 1463-9076.
@article{Holyst2009,
title = {Scaling form of viscosity at all length-scales in poly(ethylene glycol) solutions studied by fluorescence correlation spectroscopy and capillary electrophoresis},
author = {Robert Holyst and Anna Bielejewska and Jędrzej Szymański and Agnieszka Wilk and Adam Patkowski and Jacek Gapiński and Andrzej żywociński and Tomasz Kalwarczyk and Ewelina Kalwarczyk and Marcin Tabaka and Natalia Ziębacz and Stefan A Wieczorek},
url = {http://xlink.rsc.org/?DOI=b908386c},
doi = {10.1039/b908386c},
issn = {1463-9076},
year = {2009},
date = {2009-10-01},
journal = {Physical Chemistry Chemical Physics},
volume = {11},
number = {40},
pages = {9025},
publisher = {The Royal Society of Chemistry},
abstract = {We measured the viscosity of poly(ethylene glycol) (PEG 6000, 12 000, 20 000) in water using capillary electrophoresis and fluorescence correlation spectroscopy with nanoscopic probes of different diameters (from 1.7 to 114 nm). For a probe of diameter smaller than the radius of gyration of PEG (e.g.rhodamine B or lyzozyme) the measured nanoviscosity was orders of magnitude smaller than the macroviscosity. For sizes equal to (or larger than) the polymer radius of gyration, macroscopic value of viscosity was measured. A mathematical relation for macro and nanoviscosity was found as a function of PEG radius of gyration, Rg, correlation length in semi-dilute solution, $xi$, and probe size, R. For R textless Rg, the nanoviscosity (normalized by water viscosity) is given by exp(b(R/$xi$)a), and for R textgreater Rg, both nano and macroviscosity follow the same curve, exp(b(R/$xi$)a), where a and b are two constants close to unity. This mathematical relation was shown to equally well describe rhodamine (of size 1.7 nm) in PEG 20 000 and the macroviscosity of PEG 8 000 000, whose radius of gyration exceeds 200 nm. Additionally, for the smallest probes (rhodamine B and lysozyme) we have verified, using capillary electrophoresis and fluorescence correlation spectroscopy, that the Stokes–Einstein (SE) relation holds, providing that we use a size-dependent viscosity in the formula. The SE relation is correct even in PEG solutions of very high viscosity (three orders of magnitude larger than that of water).},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Holmqvist, P; Ratajczyk, M; Meier, G; Wensink, H H; Lettinga, M P
Supersaturated dispersions of rodlike viruses with added attraction Journal Article
In: Physical Review E, vol. 80, no. 3, pp. 031402, 2009, ISSN: 1539-3755.
@article{Holmqvist2009,
title = {Supersaturated dispersions of rodlike viruses with added attraction},
author = {P Holmqvist and M Ratajczyk and G Meier and H H Wensink and M P Lettinga},
url = {http://www.ncbi.nlm.nih.gov/pubmed/19905111 https://link.aps.org/doi/10.1103/PhysRevE.80.031402},
doi = {10.1103/PhysRevE.80.031402},
issn = {1539-3755},
year = {2009},
date = {2009-09-01},
journal = {Physical Review E},
volume = {80},
number = {3},
pages = {031402},
abstract = {The kinetics of isotropic-nematic (I-N) and nematic-isotropic (N-I) phase transitions in dispersions of rodlike fd viruses are studied. Concentration quenches were applied using pressure jumps in combination with polarization microscopy, birefringence, and turbidity measurements. The full biphasic region could be accessed, resulting in the construction of an experimental analog of the bifurcation diagram. The N-I spinodal points for dispersions of rods with varying concentrations of depletion agent (dextran) were obtained from orientation quenches using cessation of shear flow in combination with small-angle light scattering. We found that the location of the N-I spinodal point is independent of the attraction, which was confirmed by theory. Surprisingly, the experiments showed that also the absolute induction time, the critical nucleus, and the growth rate are insensitive of the attraction if the concentration is scaled to the distance to the phase boundaries.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Pajzderska, Maria; Ziółek, M; Karolczak, J; Dobek, Andrzej
In: The Journal of Physical Chemistry B, vol. 113, no. 31, pp. 11023–11031, 2009, ISSN: 1520-6106.
@article{Gibasiewicz2009b,
title = {Internal Electrostatic Control of the Primary Charge Separation and Recombination in Reaction Centers from Rhodobacter sphaeroides Revealed by Femtosecond Transient Absorption},
author = {Krzysztof Gibasiewicz and Maria Pajzderska and M Ziółek and J Karolczak and Andrzej Dobek},
url = {http://pubs.acs.org/doi/abs/10.1021/jp811234q},
doi = {10.1021/jp811234q},
issn = {1520-6106},
year = {2009},
date = {2009-08-01},
journal = {The Journal of Physical Chemistry B},
volume = {113},
number = {31},
pages = {11023--11031},
publisher = {American Chemical Society},
abstract = {We report the observation of two conformational states of closed RCs from Rhodobacter sphaeroides characterized by different P+HA− → PHA charge recombination lifetimes, one of which is of subnanosecond value (700 ± 200 ps). These states are also characterized by different primary charge separation lifetimes. It is proposed that the distinct conformations are related to two protonation states either of reduced secondary electron acceptor, QA−, or of a titratable amino acid residue localized near QA. The reaction centers in the protonated state are characterized by faster charge separation and slower charge recombination when compared to those in the unprotonated state. Both effects are explained in terms of the model assuming modulation of the free energy level of the state P+HA− by the charges on or near QA and decay of the P+HA− state via the thermally activated P+BA− state.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Rutkowski, M; van Grondelle, R
Fluorescence hole-burning and site-selective studies of LHCII Journal Article
In: Photosynthetica, vol. 47, no. 2, pp. 232–240, 2009, ISSN: 0300-3604.
@article{Gibasiewicz2009a,
title = {Fluorescence hole-burning and site-selective studies of LHCII},
author = {Krzysztof Gibasiewicz and M Rutkowski and R van Grondelle},
url = {http://link.springer.com/10.1007/s11099-009-0037-0},
doi = {10.1007/s11099-009-0037-0},
issn = {0300-3604},
year = {2009},
date = {2009-06-01},
journal = {Photosynthetica},
volume = {47},
number = {2},
pages = {232--240},
publisher = {Springer Netherlands},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Giera, Wojciech; Gibasiewicz, Krzysztof; Ramesh, V M; Lin, Su; Webber, Andrew
Electron transfer from A−0 to A1 in Photosystem I from Chlamydomonas reinhardtii occurs in both the A and B branch with 25–30-ps lifetime Journal Article
In: Physical Chemistry Chemical Physics, vol. 11, no. 25, pp. 5186, 2009, ISSN: 1463-9076.
@article{Giera2009,
title = {Electron transfer from A−0 to A1 in Photosystem I from Chlamydomonas reinhardtii occurs in both the A and B branch with 25–30-ps lifetime},
author = {Wojciech Giera and Krzysztof Gibasiewicz and V M Ramesh and Su Lin and Andrew Webber},
url = {http://xlink.rsc.org/?DOI=b822938d},
doi = {10.1039/b822938d},
issn = {1463-9076},
year = {2009},
date = {2009-06-01},
journal = {Physical Chemistry Chemical Physics},
volume = {11},
number = {25},
pages = {5186},
publisher = {The Royal Society of Chemistry},
abstract = {We have recorded transient absorption kinetics at 390 nm with picosecond resolution in order to observe electron transfer from the reduced primary acceptor, A−0, to the secondary acceptor, A1, in wild type and mutated Photosystem I from Chlamydomonas reinhardtii. In the mutants, the methionine axial ligand to the primary electron acceptor in either the A- or B-branch of electron transfer cofactors, was replaced with histidine. Both of the mutations reduced the formation of a positive signal at 390 nm, characteristic of A−1 to a level approximately half of that observed in wild type Photosystem I. It is concluded that in the mutated branch of Photosystem I, electron transfer from A−0 to A1 does not occur. The absorption kinetics resulting from subtraction of either of the mutants' traces from that of wild type is interpreted to reflect the kinetics of A- or B-side electron transfer from A−0 to A1 in the the wild type Photosystem I. Each of these traces could be fitted with a monoexpoenential decay characterized by the same amplitude and 25–30-ps lifetime. The almost identical effect of both mutations on A−1 formation confirm a similar engagement of both the A- ad B-branches in electron transfer to A1 in Photosystem I from C. reinhardtii. This observation is in contrast to the unidirectional electron transfer concluded from the studies on similar mutants of cyanobacterial Photosystem I.1 Thus, this contribution provides further evidence for functional differences between these two model Photosystems.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Banachowicz, Ewa; Kozak, Maciej; Patkowski, Adam; Meier, Gerhard; Kohlbrecher, Joachim
High-pressure small-angle neutron scattering studies of glucose isomerase conformation in solution Journal Article
In: Journal of Applied Crystallography, vol. 42, no. 3, pp. 461–468, 2009, ISSN: 0021-8898.
@article{Banachowicz2009,
title = {High-pressure small-angle neutron scattering studies of glucose isomerase conformation in solution},
author = {Ewa Banachowicz and Maciej Kozak and Adam Patkowski and Gerhard Meier and Joachim Kohlbrecher},
url = {http://scripts.iucr.org/cgi-bin/paper?S0021889809007456},
doi = {10.1107/S0021889809007456},
issn = {0021-8898},
year = {2009},
date = {2009-06-01},
journal = {Journal of Applied Crystallography},
volume = {42},
number = {3},
pages = {461--468},
publisher = {International Union of Crystallography},
abstract = {Small-angle neutron scattering (SANS) of solutions of glucose/xylose isomerase from Streptomyces rubiginosus was measured as a function of pressure. It is shown that the structure of the enzyme in solution as seen by SANS is practically the same as that in the crystal and does not change with pressure up to 150 MPa. This reflects the unusually high structural stability of this material, which makes it extremely interesting to use as a secondary standard for pressure-dependent SANS experiments. This lack of pressure dependence of the SANS data also indicates that any possible change in hydration of the protein induced by pressure is not visible in the SANS curves. An appropriate correction procedure must be used for the SANS data in order to account for the distortion of the intensity curve due to hard-sphere and electrostatic interactions. After this correction, the isomerase can be readily used as a secondary standard for SANS measurements.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Vavrin, R; Kohlbrecher, J; Wilk, Agnieszka; Ratajczyk, M; Lettinga, M P; Buitenhuis, J; Meier, G
In: The Journal of Chemical Physics, vol. 130, no. 15, pp. 154903, 2009, ISSN: 0021-9606.
@article{Vavrin2009,
title = {Structure and phase diagram of an adhesive colloidal dispersion under high pressure: A small angle neutron scattering, diffusing wave spectroscopy, and light scattering study},
author = {R Vavrin and J Kohlbrecher and Agnieszka Wilk and M Ratajczyk and M P Lettinga and J Buitenhuis and G Meier},
url = {http://www.ncbi.nlm.nih.gov/pubmed/19388768 http://aip.scitation.org/doi/10.1063/1.3103245},
doi = {10.1063/1.3103245},
issn = {0021-9606},
year = {2009},
date = {2009-04-01},
journal = {The Journal of Chemical Physics},
volume = {130},
number = {15},
pages = {154903},
abstract = {We have applied small angle neutron scattering (SANS), diffusing wave spectroscopy (DWS), and dynamic light scattering (DLS) to investigate the phase diagram of a sterically stabilized colloidal system consisting of octadecyl grafted silica particles dispersed in toluene. This system is known to exhibit gas-liquid phase separation and percolation, depending on temperature T, pressure P, and concentration phi. We have determined by DLS the pressure dependence of the coexistence temperature and the spinodal temperature to be dP/dT=77 bar/K. The gel line or percolation limit was measured by DWS under high pressure using the condition that the system became nonergodic when crossing it and we determined the coexistence line at higher volume fractions from the DWS limit of turbid samples. From SANS measurements we determined the stickiness parameter tau(B)(P,T,phi) of the Baxter model, characterizing a polydisperse adhesive hard sphere, using a global fit routine on all curves in the homogenous regime at various temperatures, pressures, and concentrations. The phase coexistence and percolation line as predicted from tau(B)(P,T,phi) correspond with the determinations by DWS and were used to construct an experimental phase diagram for a polydisperse sticky hard sphere model system. A comparison with theory shows good agreement especially concerning the predictions for the percolation threshold. From the analysis of the forward scattering we find a critical scaling law for the susceptibility corresponding to mean field behavior. This finding is also supported by the critical scaling properties of the collective diffusion.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gapiński, Jacek; Patkowski, Adam; Banchio, A J; Buitenhuis, J; Holmqvist, P; Lettinga, M P; Meier, G; Naegele, G
Structure and short-time dynamics in suspensions of charged silica spheres in the entire fluid regime Journal Article
In: The Journal of Chemical Physics, vol. 130, no. 8, pp. 084503, 2009, ISSN: 0021-9606.
@article{Gapinski2009,
title = {Structure and short-time dynamics in suspensions of charged silica spheres in the entire fluid regime},
author = {Jacek Gapiński and Adam Patkowski and A J Banchio and J Buitenhuis and P Holmqvist and M P Lettinga and G Meier and G Naegele},
url = {http://aip.scitation.org/doi/10.1063/1.3078408},
doi = {10.1063/1.3078408},
issn = {0021-9606},
year = {2009},
date = {2009-02-01},
journal = {The Journal of Chemical Physics},
volume = {130},
number = {8},
pages = {084503},
publisher = {American Institute of Physics},
abstract = {We present an experimental study of short-time diffusion properties in fluidlike suspensions of monodisperse charge-stabilized silica spheres suspended in dimethylformamide. The static structure factor S(q), the short-time diffusion function D(q), and the hydrodynamic function H(q) have been probed by combining x-ray photon correlation spectroscopy experiments with static small-angle x-ray scattering. Our experiments cover the full liquid-state part of the phase diagram, including de-ionized systems right at the liquid-solid phase boundary. We show that the dynamic data can be consistently described by the renormalized density fluctuation expansion theory of Beenakker and Mazur over a wide range of concentrations and ionic strengths. In accordance with this theory and Stokesian dynamics computer simulations, the measured short-time properties cross over monotonically, with increasing salt content, from the bounding values of salt-free suspensions to those of neutral hard spheres. Moreover, we discuss an u...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dobek, Andrzej
Magneto-optics of ferritin Inproceedings
In: Dubnickowa, A; Dubnicka, S; Granja, C; Leroy, C; Stekl, I (Ed.): Nuclear Physics Methods and Accelerators in Biology and Medicine, pp. 143–146, AIP Conference Proceedings, New York, 2009.
@inproceedings{Dobek2009,
title = {Magneto-optics of ferritin},
author = {Andrzej Dobek},
editor = {A Dubnickowa and S Dubnicka and C Granja and C Leroy and I Stekl},
year = {2009},
date = {2009-01-01},
booktitle = {Nuclear Physics Methods and Accelerators in Biology and Medicine},
pages = {143--146},
publisher = {AIP Conference Proceedings},
address = {New York},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Pankowska, M; Dobek, Andrzej
Linear and nonlinear magneto-optics of ferritin Journal Article
In: The Journal of Chemical Physics, vol. 131, pp. 01505-1-10, 2009.
@article{Pankowska2009,
title = {Linear and nonlinear magneto-optics of ferritin},
author = {M Pankowska and Andrzej Dobek},
doi = {10.1063/1.3159844},
year = {2009},
date = {2009-01-01},
journal = {The Journal of Chemical Physics},
volume = {131},
pages = {01505-1-10},
abstract = {Measurements of Rayleigh light scattering and Cotton–Mouton (CM) effect are carried out at room temperature for 100 mM NaCl solutions of apoferritin/ferritin loaded with 0, 90, 100, 500, 700, and 1500 Fe atoms/molecule. Because of the spherical shape, ferritin macromolecule should not manifest magnetic anisotropy; however, in solution it shows the induced magnetic birefringence (CM effect) and changes in intensity of the scattered light components. The newly obtained data support the previously reported conclusions indicating that the deformation of linear optical polarizability induced in the ferritin by a magnetic field and the orientation of the induced magnetic dipole moment by this field are the main sources of the magneto-optical phenomena observed. Nevertheless, it is also found that the orientation of the permanent magnetic dipole moment contributes to both effects. The magnetic field induced changes in the light scattering and the CM effect theoretically depend on the linear magneto-optical polarizability, χχ, on the nonlinear magneto-optical polarizability, ηη, and square of the permanent magnetic dipole moment value of the macromolecule, μ2μ2. On the basis of the theory describing both effects as well as the experimental data, the values of the anisotropy of linear magneto-optical polarizabilities components, the values of the linear optical polarizability and its anisotropy, nonlinear magneto-optical polarizability and its anisotropy, are estimated. Also the magnetic dipole moment of the ferritin macromolecule is found. Interestingly, not all iron atoms in the ferritin are indicated to be in the superparamagnetic state, some of them occur in the diamagnetic form.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2008
Szymańska, A; Ślósarek, Genowefa; Hornowski, T; Kozak, M
The SAXS and Rheological Studies of HEWL Amyloid Formation Journal Article
In: Acta Physica Polonica A, vol. 114, no. 2, pp. 447–454, 2008, ISSN: 0587-4246.
@article{Szymanska2008,
title = {The SAXS and Rheological Studies of HEWL Amyloid Formation},
author = {A Szymańska and Genowefa Ślósarek and T Hornowski and M Kozak},
url = {http://przyrbwn.icm.edu.pl/APP/PDF/114/a114z216.pdf},
doi = {10.12693/APhysPolA.114.447},
issn = {0587-4246},
year = {2008},
date = {2008-08-01},
journal = {Acta Physica Polonica A},
volume = {114},
number = {2},
pages = {447--454},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Gapiński, Jacek; Fluerasu, A; Holmqvist, P; Meier, G; Lettinga, M P; Naegele, G
Structure and Dynamics of Colloidal Suspensions Studied by Means of XPCS Journal Article
In: Acta Physica Polonica A, vol. 114, no. 2, pp. 339–350, 2008, ISSN: 0587-4246.
@article{Patkowski2008,
title = {Structure and Dynamics of Colloidal Suspensions Studied by Means of XPCS},
author = {Adam Patkowski and Jacek Gapiński and A Fluerasu and P Holmqvist and G Meier and M P Lettinga and G Naegele},
url = {http://przyrbwn.icm.edu.pl/APP/PDF/114/a114z204.pdf},
doi = {10.12693/APhysPolA.114.339},
issn = {0587-4246},
year = {2008},
date = {2008-08-01},
journal = {Acta Physica Polonica A},
volume = {114},
number = {2},
pages = {339--350},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Meier, G; Vavrin, R; Kohlbrecher, J; Buitenhuis, J; Lettinga, M P; Ratajczyk, M
SANS and dynamic light scattering to investigate the viscosity of toluene under high pressure up to 1800 bar Journal Article
In: Measurement Science and Technology, vol. 19, no. 3, pp. 034017, 2008, ISSN: 0957-0233.
@article{Meier2008,
title = {SANS and dynamic light scattering to investigate the viscosity of toluene under high pressure up to 1800 bar},
author = {G Meier and R Vavrin and J Kohlbrecher and J Buitenhuis and M P Lettinga and M Ratajczyk},
url = {http://stacks.iop.org/0957-0233/19/i=3/a=034017?key=crossref.bfbdaf02abacd76a9551bd29e8590a14},
doi = {10.1088/0957-0233/19/3/034017},
issn = {0957-0233},
year = {2008},
date = {2008-03-01},
journal = {Measurement Science and Technology},
volume = {19},
number = {3},
pages = {034017},
publisher = {IOP Publishing},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Pajzderska, Maria
Primary Radical Pair P + H - Lifetime in Rhodobacter sphaeroides with Blocked Electron Transfer to Q A . Effect of o -Phenanthroline Journal Article
In: The Journal of Physical Chemistry B, vol. 112, no. 6, pp. 1858–1865, 2008, ISSN: 1520-6106.
@article{Gibasiewicz2008,
title = {Primary Radical Pair P + H - Lifetime in Rhodobacter sphaeroides with Blocked Electron Transfer to Q A . Effect of o -Phenanthroline},
author = {Krzysztof Gibasiewicz and Maria Pajzderska},
url = {http://www.ncbi.nlm.nih.gov/pubmed/18215032 http://pubs.acs.org/doi/abs/10.1021/jp075184j},
doi = {10.1021/jp075184j},
issn = {1520-6106},
year = {2008},
date = {2008-02-01},
journal = {The Journal of Physical Chemistry B},
volume = {112},
number = {6},
pages = {1858--1865},
abstract = {Transient absorption spectroscopy with a time resolution of approximately 1 ns was applied to study the decay of the primary radical pair P+H- in Rhodobacter sphaeroides R-26 reaction centers with blocked electron transfer from H- to QA. The block in the electron transfer was realized in two ways: by either reducing or removing QA. We found very different kinetics of the P+H- decay in these two cases. Convolution of the multiexponential decay with the instrument response function allowed resolution of as many as three kinetic components of textless1-, 3-4-, and 9-12-ns lifetimes in chromatophores with QA reduced and in isolated reaction centers both with QA either reduced or removed (with or without o-phenanthroline) but with variable relative amplitudes. Removing QA or adding o-phenanthroline to isolated reaction centers increased the amplitude of the slowest decay phase relative to that of the fastest phase. On the basis of these observations, we propose that reaction centers adopt three conformational states characterized by different decay kinetics of P+H-. These conformational states appear to be controlled by the charges in the vicinity of the QA site as revealed by the effects of QA reduction and o-phenanthroline-mediated protonation of the sites close to QA.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kaczmarek, Michał S; Ładziński, Piotr; Woźniak, Zenon; Błaszczak, Zdzisław; Surma, Marian; Pochylski, Mikołaj
In: Journal of Molecular Liquids, vol. 138, no. 1, pp. 168 - 172, 2008, ISSN: 0167-7322.
@article{Kaczmarek2008b,
title = {Dynamics of transportation of glucose and urea water solutions through a porous polyethyleneterephthalate membrane studied by optical interference},
author = {Michał S Kaczmarek and Piotr Ładziński and Zenon Woźniak and Zdzisław Błaszczak and Marian Surma and Mikołaj Pochylski},
url = {http://www.sciencedirect.com/science/article/pii/S0167732207001948},
doi = {10.1016/j.molliq.2007.10.002},
issn = {0167-7322},
year = {2008},
date = {2008-01-01},
journal = {Journal of Molecular Liquids},
volume = {138},
number = {1},
pages = {168 - 172},
abstract = {The paper reports an interferometric method for characterisation of the dynamics of transportation of glucose and urea water solutions through a porous polyethyleneterephthalate membrane. The method is based on measurements of the changes in the light refraction indices of solutions partitioned by the membrane, using a Jamina interferometer. Synthetic membranes have been used among others in haemodialysis. In this process selective transportation of substances through a membrane permits elimination of toxic substances form the patient's blood employing the phenomena of osmosis, filtration, ultrafiltration and diffusion. The process efficiency depends on the parameters of the membrane pores (diameter, channel length, number of channels per diffusion active area). The process of haemodialysis can be optimised by changing the parameters influencing its course, whose effect is determined by measurements of diffusion rate of substances of the known molar weight, molecule size and permeability (glucose, urea) in laboratory conditions. In this paper, assuming the porous model of the membrane structure, the permeability P and mean number of pores m per a unit of the diffusion active area have been determined in order to establish the parameters at which the course of haemodialysis will be the most effective.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kasprzak, W; Nadolny, Z; Kaczmarek, M. S; Woźniak, Z.; Pochylski, Mikołaj
Kerr effect in liquids with various electro-optic properties Journal Article
In: Przegląd Elektrotechniczny, vol. 84, no. 10, pp. 166-169, 2008.
@article{Kasprzak2008,
title = {Kerr effect in liquids with various electro-optic properties},
author = {W Kasprzak and Z Nadolny and M.S Kaczmarek and Z. Woźniak and Mikołaj Pochylski},
year = {2008},
date = {2008-01-01},
journal = {Przegląd Elektrotechniczny},
volume = {84},
number = {10},
pages = {166-169},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ślósarek, Genowefa
Odkrycie struktury komórkowej tkanki nerwowej Journal Article
In: Kosmos. Problemy Nauk Biologicznych, vol. 57, no. 1-2, pp. 103–107, 2008.
@article{Slosarek2008,
title = {Odkrycie struktury komórkowej tkanki nerwowej},
author = {Genowefa Ślósarek},
year = {2008},
date = {2008-01-01},
journal = {Kosmos. Problemy Nauk Biologicznych},
volume = {57},
number = {1-2},
pages = {103--107},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kriegs, H; Meier, G; Gapiński, Jacek; Patkowski, Adam
In: The Journal of Chemical Physics, vol. 128, no. 1, pp. 014507, 2008, ISSN: 0021-9606.
@article{Kriegs2008,
title = {The effect of intramolecular relaxations on the damping of longitudinal and transverse phonons in polysiloxanes studied by Brillouin spectroscopy},
author = {H Kriegs and G Meier and Jacek Gapiński and Adam Patkowski},
url = {http://www.ncbi.nlm.nih.gov/pubmed/18190204 http://aip.scitation.org/doi/10.1063/1.2816136},
doi = {10.1063/1.2816136},
issn = {0021-9606},
year = {2008},
date = {2008-01-01},
journal = {The Journal of Chemical Physics},
volume = {128},
number = {1},
pages = {014507},
abstract = {The effect of intramolecular relaxations on the damping of longitudinal and transverse phonons was studied in poly(methylphenylsiloxane) (PMPS) and poly(ethylmethylsiloxane) (PEMS) polymers by means of Brillouin spectroscopy. It is shown that studies of the polarized and depolarized Brillouin spectra as functions of temperature and pressure allow for the separation of the contributions of the internal and structural relaxations to the damping of longitudinal and transverse phonons, respectively. In polymers with intramolecular relaxations these processes contribute not only to the damping of longitudinal phonons, according to theoretical predictions, but also transverse phonons, in contradiction to the theory.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Szymański, Jędrzej; Wilk, Agnieszka; Hołyst, Robert; Roberts, Geraint; Sinclair, Kirsty; Kowalski, Adam
Micro- and macro-shear viscosity in dispersed lamellar phases Journal Article
In: Journal of Non-Newtonian Fluid Mechanics, vol. 148, no. 1-3, pp. 134–140, 2008, ISSN: 03770257.
@article{Szymanski2008,
title = {Micro- and macro-shear viscosity in dispersed lamellar phases},
author = {Jędrzej Szymański and Agnieszka Wilk and Robert Hołyst and Geraint Roberts and Kirsty Sinclair and Adam Kowalski},
url = {https://www.sciencedirect.com/science/article/pii/S0377025707001024 http://linkinghub.elsevier.com/retrieve/pii/S0377025707001024},
doi = {10.1016/j.jnnfm.2007.04.008},
issn = {03770257},
year = {2008},
date = {2008-01-01},
journal = {Journal of Non-Newtonian Fluid Mechanics},
volume = {148},
number = {1-3},
pages = {134--140},
publisher = {Elsevier},
abstract = {Surfactant phases, such as dispersed lamellar gels, are extremely useful in commercial products because they are very weight-effective at building viscosity. An enduring challenge is to determine the microstructural features responsible for the bulk rheology so that we can design products with improved performance. The samples described here have very different rheological profiles as exemplified by an order-of-magnitude difference in their zero-shear-rate viscosity, and infinite-shear-rate viscosities which differ by half an order of magnitude. As a first approximation we consider the dispersed lamellar system to be analogous to a high-internal-phase-volume emulsion which is described by the well-known Kreiger–Dougherty equation. This requires us to establish the value of a number of parameters of which the continuous phase viscosity is the one that defines the baseline viscosity. We measured this in situ by a micro-viscosity technique involving Fluorescence Correlation Spectroscopy using microscopic probes: viz. a fluorescent dye molecule (rhodamine) of size 0.85nm; a lyzozyme protein of 2nm size and a quantum dot of 12.5nm size. We show that the continuous phase has a viscosity about twice that of water. Moreover, this viscosity is the same for the all three probes indicating that the system is quite uniform at the microscopic level investigated. Interestingly, this micro-viscosity was practically the same for all the samples and thus could not be correlated with zero-shear-rate viscosity or other rheological characteristics. We conclude that the macro-viscosity arises from structures much larger than 25nm (twice the hydrodynamic diameter of the quantum dot). Our future intention is to use larger probes to establish the length-scale at which the microstructure begins to be apparent in the bulk rheology characteristics.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Giera, Wojciech; Gibasiewicz, Krzysztof; Ramesh, V M; Ziółek, Marcin; Karolczak, Jerzy; Dobek, Andrzej; Webber, A N
A0 → A1 Electron Transfer in Chlamydomonas reinhardtii PS I with Replaced A0 Axial Ligand Inproceedings
In: Allen, J F; Gantt, E; Golbeck, J H; Osmond, B (Ed.): Photosynthesis. Energy from the Sun. 14th International Congress on Photosynthesis, pp. 65-68, Springer, 2008, ISBN: 978-1-4020-6709-9.
@inproceedings{Giera2008,
title = {A0 → A1 Electron Transfer in Chlamydomonas reinhardtii PS I with Replaced A0 Axial Ligand},
author = {Wojciech Giera and Krzysztof Gibasiewicz and V M Ramesh and Marcin Ziółek and Jerzy Karolczak and Andrzej Dobek and A N Webber},
editor = {J F Allen and E Gantt and J H Golbeck and B Osmond},
doi = {10.1007/978-1-4020-6709-9_15},
isbn = {978-1-4020-6709-9},
year = {2008},
date = {2008-01-01},
booktitle = {Photosynthesis. Energy from the Sun. 14th International Congress on Photosynthesis},
pages = {65-68},
publisher = {Springer},
abstract = {Replacement of methionine, the natural axial ligand to the primary electron acceptor (A0) in Photosystem I, with a series of different amino acids results in dramatic increase of the A0− lifetime from ̃20 ps in wild type to a few nanoseconds in the mutants in the case of Chlamydomonas reinhardtii (Ramesh et al. 2004, 2007). This effect is similar independently if the mutation affects A-side or B-side A0. This observation confirms an existence of two equivalent primary electron acceptors in both symmetric branches of Photosystem I in Chlamydomonas reinhardtii, which makes this photosystem unusual among other photosystems (from purple bacteria, PS II), which are essentially unidirectional. However, it is still not clear if the bidirectionality of electron transfer in Photosystem I is complete, i.e. if the electron from A0− reaches A1 in both branches or takes another route in the “non-active” branch. In order to solve this issue, in this contribution we attempted to compare kinetics of A0− reoxidation to the kinetics of A1− formation in the case of B-side A0 mutant with methionine replaced by serine.},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
2007
żywociński, Andrzej; Korda, Anna; Gosk, Joanna; Wieczorek, Stefan A; Wilk, Agnieszka; Hołyst, Robert
Kinetic Trapping of Large Amount of Long Polymers in Nanopores Journal Article
In: Journal of the American Chemical Society, vol. 129, no. 44, pp. 13398–13399, 2007, ISSN: 0002-7863.
@article{Zywocinski2007,
title = {Kinetic Trapping of Large Amount of Long Polymers in Nanopores},
author = {Andrzej żywociński and Anna Korda and Joanna Gosk and Stefan A Wieczorek and Agnieszka Wilk and Robert Hołyst},
url = {http://pubs.acs.org/doi/abs/10.1021/ja0762590},
doi = {10.1021/ja0762590},
issn = {0002-7863},
year = {2007},
date = {2007-11-01},
journal = {Journal of the American Chemical Society},
volume = {129},
number = {44},
pages = {13398--13399},
publisher = {American Chemical Society},
abstract = {It is well-established that when polymer size exceeds the size of a confining space, the equilibrium partition of polymer between the confined space and the bulk solution is zero. Surprisingly, we found that the long water-soluble polymers with a small hydrophobic group can be efficiently trapped inside the water channels (nanopores) of the hexagonal phase of non-ionic surfactant.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Marcinkowska-Gapińska, Anna; Gapiński, Jacek; Elikowski, Waldemar; Jaroszyk, Feliks; Kubisz, Leszek
Comparison of three rheological models of shear flow behavior studied on blood samples from post-infarction patients Journal Article
In: Medical & Biological Engineering & Computing, vol. 45, no. 9, pp. 837–844, 2007, ISSN: 0140-0118.
@article{Marcinkowska-Gapinska2007,
title = {Comparison of three rheological models of shear flow behavior studied on blood samples from post-infarction patients},
author = {Anna Marcinkowska-Gapińska and Jacek Gapiński and Waldemar Elikowski and Feliks Jaroszyk and Leszek Kubisz},
url = {http://www.ncbi.nlm.nih.gov/pubmed/17674068 http://link.springer.com/10.1007/s11517-007-0236-4},
doi = {10.1007/s11517-007-0236-4},
issn = {0140-0118},
year = {2007},
date = {2007-09-01},
journal = {Medical & Biological Engineering & Computing},
volume = {45},
number = {9},
pages = {837--844},
abstract = {Quantitative analysis of blood viscosity was performed on the basis of mathematical models of non-Newtonian fluid shear flow behavior (Casson, Ree-Eyring and Quemada). A total of 100 blood samples were drawn from clinically stable survivors of myocardial infarction, treated with aspirin or acenocoumarol and controls to these drugs. Whole blood and plasma viscosity were measured at a broad range of shear rates using a rotary-oscillating viscometer Contraves LS40. Numerical analysis of the experimental data was carried out by means of linear (for Casson) and non-linear regression for the remaining models. In the evaluation of the results, both the fit quality and physical interpretation of the models' parameters were considered. The Quemada model fitted most precisely with the experimental findings and, despite the controversies concerning the relationship between in vivo tissue perfusion and in vitro rheological measurements, seemed to be a valuable method enhancing investigation possibilities of cardiovascular patients. Our results suggest that aspirin does not affect blood rheological properties, while acenocoumarol may slightly alter red cell deformability and rouleaux formation.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Danielewicz-Ferchmin, I; Banachowicz, Ewa; Ferchmin, A R
Water phases under high electric field and pressure applied simultaneously Journal Article
In: Journal of Molecular Liquids, vol. 135, no. 1-3, pp. 75–85, 2007, ISSN: 01677322.
@article{Danielewicz-Ferchmin2007,
title = {Water phases under high electric field and pressure applied simultaneously},
author = {I Danielewicz-Ferchmin and Ewa Banachowicz and A R Ferchmin},
url = {https://www.sciencedirect.com/science/article/pii/S0167732207000074 http://linkinghub.elsevier.com/retrieve/pii/S0167732207000074},
doi = {10.1016/j.molliq.2006.10.006},
issn = {01677322},
year = {2007},
date = {2007-07-01},
journal = {Journal of Molecular Liquids},
volume = {135},
number = {1-3},
pages = {75--85},
publisher = {Elsevier},
abstract = {The rigorous equation of state of an open system containing water in an electric field above 108 V m−1 under pressure applied in the range 10−4≤Po≤0.8 GPa leads to phase diagrams with two possible kinds of phase transitions at 293 K. The first one is the discontinuous phase transition under pressure applied in the range 10−4≤Po≤0.05 GPa in the $Pi$, $sigma$ coordinates ($Pi$ is the electrostriction pressure and $sigma$ denotes the surface charge density at an adjacent charged surface). The second one represents the continuous phase transition under pressure applied in the range 10−4≤Po≤0.8 GPa; it occurs at higher values of $sigma$ than the former one.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Ramesh, V M; Lin, Su; Redding, Kevin; Woodbury, Neal W; Webber, Andrew N
Two equilibration pools of chlorophylls in the Photosystem I core antenna of Chlamydomonas reinhardtii Journal Article
In: Photosynthesis Research, vol. 92, no. 1, pp. 55–63, 2007, ISSN: 0166-8595.
@article{Gibasiewicz2007,
title = {Two equilibration pools of chlorophylls in the Photosystem I core antenna of Chlamydomonas reinhardtii},
author = {Krzysztof Gibasiewicz and V M Ramesh and Su Lin and Kevin Redding and Neal W Woodbury and Andrew N Webber},
url = {http://www.ncbi.nlm.nih.gov/pubmed/17611814 http://link.springer.com/10.1007/s11120-006-9125-1},
doi = {10.1007/s11120-006-9125-1},
issn = {0166-8595},
year = {2007},
date = {2007-07-01},
journal = {Photosynthesis Research},
volume = {92},
number = {1},
pages = {55--63},
abstract = {Femtosecond transient absorption spectroscopy was applied for a comparative study of excitation decay in several different Photosystem I (PSI) core preparations from the green alga Chlamydomonas reinhardtii. For PSI cores with a fully interconnected network of chlorophylls, the excitation energy was equilibrated over a pool of chlorophylls absorbing at approximately 683 nm, independent of excitation wavelength [Gibasiewicz et al. J Phys Chem B 105:11498-11506, 2001; J Phys Chem B 106:6322-6330, 2002]. In preparations with impaired connectivity between chlorophylls, we have found that the spectrum of chlorophylls connected to the reaction center (i.e., with approximately 20 ps decay time) over which the excitation is equilibrated becomes excitation-wavelength-dependent. Excitation at 670 nm is finally equilibrated over chlorophylls absorbing at approximately 675 nm, whereas excitation at 695 nm or 700 nm is equilibrated over chlorophylls absorbing at approximately 683 nm. This indicates that in the vicinity of the reaction center there are two spectrally different and spatially separated pools of chlorophylls that are equally capable of effective excitation energy transfer to the reaction center. We propose that they are related to the two groups of central PSI core chlorophylls lying on the opposite sides of reaction center.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Aliotta, F; Gapiński, Jacek; Pochylski, Mikołaj; Ponterio, R C; Saija, F; Salvato, G
Excess compressibility in binary liquid mixtures Journal Article
In: The Journal of Chemical Physics, vol. 126, no. 22, pp. 224508, 2007, ISSN: 0021-9606.
@article{Aliotta2007,
title = {Excess compressibility in binary liquid mixtures},
author = {F Aliotta and Jacek Gapiński and Mikołaj Pochylski and R C Ponterio and F Saija and G Salvato},
url = {http://www.ncbi.nlm.nih.gov/pubmed/17581064 http://aip.scitation.org/doi/10.1063/1.2745292},
doi = {10.1063/1.2745292},
issn = {0021-9606},
year = {2007},
date = {2007-06-01},
journal = {The Journal of Chemical Physics},
volume = {126},
number = {22},
pages = {224508},
abstract = {Brillouin scattering experiments have been carried out on some mixtures of molecular liquids. From the measurement of the hypersonic velocities we have evaluated the adiabatic compressibility as a function of the volume fraction. We show how the quadratic form of the excess compressibility dependence on the solute volume fraction can be derived by simple statistical effects and does not imply any interaction among the components of the system other than excluded volume effects. This idea is supported by the comparison of the experimental results with a well-established prototype model, consisting of a binary mixture of hard spheres with a nonadditive interaction potential. This naive model turns out to be able to produce a very wide spectrum of structural and thermodynamic features depending on values of its parameters. An attempt has made to understand what kind of structural information can be gained through the analysis of the volume fraction dependence of the compressibility.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kang, Kyongok; Wilk, Agnieszka; Patkowski, Adam; Dhont, Jan K G
Diffusion of spheres in isotropic and nematic networks of rods: Electrostatic interactions and hydrodynamic screening Journal Article
In: The Journal of Chemical Physics, vol. 126, no. 21, pp. 214501, 2007, ISSN: 0021-9606.
@article{Kang2007,
title = {Diffusion of spheres in isotropic and nematic networks of rods: Electrostatic interactions and hydrodynamic screening},
author = {Kyongok Kang and Agnieszka Wilk and Adam Patkowski and Jan K G Dhont},
url = {http://www.ncbi.nlm.nih.gov/pubmed/17567202 http://aip.scitation.org/doi/10.1063/1.2737446},
doi = {10.1063/1.2737446},
issn = {0021-9606},
year = {2007},
date = {2007-06-01},
journal = {The Journal of Chemical Physics},
volume = {126},
number = {21},
pages = {214501},
abstract = {Translational diffusion of a small charged tracer sphere in isotropic and nematic suspensions of long and thin charged rods is investigated as a function of ionic strength and rod concentration. A theory for the diffusive properties of a small sphere is developed, where both (screened) hydrodynamic interactions and charge interactions between the tracer sphere and the rod network are analyzed. Hydrodynamic interactions are formulated in terms of the hydrodynamic screening length. As yet, there are no independent theoretical predictions for the hydrodynamic screening length for rod networks. Experimental tracer-diffusion data are presented for various ionic strengths as a function of the rod concentration, both in the isotropic and nematic states. Orientational order parameters are measured for the same ionic strengths as a function of the rod concentration. The hydrodynamic screening length is determined from these experimental data and scaling relations obtained from the above mentioned theory. For the isotropic networks, a master curve is found for the hydrodynamic screening length as a function of the rod concentration. For the nematic networks the screening length turns out to be a very sensitive function of the orientational order parameter.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Szymański, Jȩdrzej; Poboży, Ewa; Trojanowicz, Marek; Wilk, Agnieszka; Garstecki, Piotr; Hołyst, Robert
Net Charge and Electrophoretic Mobility of Lysozyme Charge Ladders in Solutions of Nonionic Surfactant Journal Article
In: The Journal of Physical Chemistry B, vol. 111, no. 19, pp. 5503–5510, 2007, ISSN: 1520-6106.
@article{Szymanski2007,
title = {Net Charge and Electrophoretic Mobility of Lysozyme Charge Ladders in Solutions of Nonionic Surfactant},
author = {Jȩdrzej Szymański and Ewa Poboży and Marek Trojanowicz and Agnieszka Wilk and Piotr Garstecki and Robert Hołyst},
url = {http://www.ncbi.nlm.nih.gov/pubmed/17441752 http://pubs.acs.org/doi/abs/10.1021/jp067511d},
doi = {10.1021/jp067511d},
issn = {1520-6106},
year = {2007},
date = {2007-05-01},
journal = {The Journal of Physical Chemistry B},
volume = {111},
number = {19},
pages = {5503--5510},
abstract = {We report on the electrophoretic mobility and on the thermal diffusion of lysozyme proteins dissolved in aqueous solutions of a nonionic surfactant (C12E6) at a wide range of concentrations of the surfactant (0-20% by weight). We want to estimate the influence of a dense network of elongated micelles of C12E6 on the effective charge of the proteins as observed in the capillary electrophoresis experiments. The possible mechanism leading to the change in the effective charge of protein could involve the deformation of the cloud of counterions around the protein when it squeezes through the narrow (of the order of a protein diameter) aqueous channels formed in the solution of elongated micelles. The combination of independent measurements of the electrophoretic mobility of a family of modified proteins (lysozyme charge ladder [Colton et al. J. Am. Chem. Soc. 1997, 119, 12701]), of the microviscosity of the solutions of surfactant (obtained via fluorescence correlation spectroscopy), and of the hydrodynamic radius of the proteins (photon correlation spectroscopy) allow us to conclude that the effective charge of the proteins is not affected by the presence of surfactant, even at high concentrations.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gapiński, Jacek; Patkowski, Adam; Banchio, A J; Holmqvist, P; Meier, G; Lettinga, M P; Naegele, G
Collective diffusion in charge-stabilized suspensions: Concentration and salt effects Journal Article
In: The Journal of Chemical Physics, vol. 126, no. 10, pp. 104905, 2007, ISSN: 0021-9606.
@article{Gapinski2007,
title = {Collective diffusion in charge-stabilized suspensions: Concentration and salt effects},
author = {Jacek Gapiński and Adam Patkowski and A J Banchio and P Holmqvist and G Meier and M P Lettinga and G Naegele},
url = {http://www.ncbi.nlm.nih.gov/pubmed/17362085 http://aip.scitation.org/doi/10.1063/1.2538891},
doi = {10.1063/1.2538891},
issn = {0021-9606},
year = {2007},
date = {2007-03-01},
journal = {The Journal of Chemical Physics},
volume = {126},
number = {10},
pages = {104905},
abstract = {The authors present a joint experimental-theoretical study of collective diffusion properties in aqueous suspensions of charge-stabilized fluorinated latex spheres. Small-angle x-ray scattering and x-ray photon correlation spectroscopy have been used to explore the concentration and ionic-strength dependence of the static and short-time dynamic properties including the hydrodynamic function H(q), the wave-number-dependent collective diffusion coefficient D(q), and the intermediate scattering function over the entire accessible range. They show that all experimental data can be quantitatively described and explained by means of a recently developed accelerated Stokesian dynamics simulation method, in combination with a modified hydrodynamic many-body theory. In particular, the behavior of H(q) for de-ionized and dense suspensions can be attributed to the influence of many-body hydrodynamics, without any need for postulating hydrodynamic screening to be present, as it was done in earlier work. Upper and lower boundaries are provided for the peak height of the hydrodynamic function and for the short-time self-diffusion coefficient over the entire range of added salt concentrations.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ramesh, V M; Gibasiewicz, Krzysztof; Lin, Su; Bingham, Scott E; Webber, Andrew N
Replacement of the methionine axial ligand to the primary electron acceptor A0 slows the A0− reoxidation dynamics in Photosystem I Journal Article
In: Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol. 1767, no. 2, pp. 151–160, 2007, ISSN: 00052728.
@article{Ramesh2007,
title = {Replacement of the methionine axial ligand to the primary electron acceptor A0 slows the A0− reoxidation dynamics in Photosystem I},
author = {V M Ramesh and Krzysztof Gibasiewicz and Su Lin and Scott E Bingham and Andrew N Webber},
url = {http://www.ncbi.nlm.nih.gov/pubmed/17316554 http://linkinghub.elsevier.com/retrieve/pii/S0005272806003896},
doi = {10.1016/j.bbabio.2006.12.013},
issn = {00052728},
year = {2007},
date = {2007-02-01},
journal = {Biochimica et Biophysica Acta (BBA) - Bioenergetics},
volume = {1767},
number = {2},
pages = {151--160},
abstract = {The recent crystal structure of photosystem I (PSI) from Thermosynechococcus elongatus shows two nearly symmetric branches of electron transfer cofactors including the primary electron donor, P(700), and a sequence of electron acceptors, A, A(0) and A(1), bound to the PsaA and PsaB heterodimer. The central magnesium atoms of each of the putative primary electron acceptor chlorophylls, A(0), are unusually coordinated by the sulfur atom of methionine 688 of PsaA and 668 of PsaB, respectively. We [Ramesh et al. (2004a) Biochemistry 43:1369-1375] have shown that the replacement of either methionine with histidine in the PSI of the unicellular green alga Chlamydomonas reinhardtii resulted in accumulation of A(0)(-) (in 300-ps time scale), suggesting that both the PsaA and PsaB branches are active. This is in contrast to cyanobacterial PSI where studies with methionine-to-leucine mutants show that electron transfer occurs predominantly along the PsaA branch. In this contribution we report that the change of methionine to either leucine or serine leads to a similar accumulation of A(0)(-) on both the PsaA and the PsaB branch of PSI from C. reinhardtii, as we reported earlier for histidine mutants. More importantly, we further demonstrate that for all the mutants under study, accumulation of A(0)(-) is transient, and that reoxidation of A(0)(-) occurs within 1-2 ns, two orders of magnitude slower than in wild type PSI, most likely via slow electron transfer to A(1). This illustrates an indispensable role of methionine as an axial ligand to the primary acceptor A(0) in optimizing the rate of charge stabilization in PSI. A simple energetic model for this reaction is proposed. Our findings support the model of equivalent electron transfer along both cofactor branches in Photosystem I.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pochylski, Mikołaj; Aliotta, F; Błaszczak, Z; Gapiński, J
High-Frequency Dynamical Behavior of Poly(ethylene glycol)+H2O Mixtures by Brillouin Spectroscopy Journal Article
In: Macromolecular Symposia, vol. 251, no. 1, pp. 47-53, 2007, ISSN: 1521-3900.
@article{MASY:MASY200750507,
title = {High-Frequency Dynamical Behavior of Poly(ethylene glycol)+H2O Mixtures by Brillouin Spectroscopy},
author = {Mikołaj Pochylski and F Aliotta and Z Błaszczak and J Gapiński},
url = {http://dx.doi.org/10.1002/masy.200750507},
doi = {10.1002/masy.200750507},
issn = {1521-3900},
year = {2007},
date = {2007-01-01},
journal = {Macromolecular Symposia},
volume = {251},
number = {1},
pages = {47-53},
publisher = {WILEY-VCH Verlag},
abstract = {Brillouin spectroscopy has been used to examine high-frequency dynamical behavior of aqueous solutions of poly(ethylene glycol) (Mw ≈ 400g/mol) at 298K in the entire concentration region. It was found that a relaxation process takes place in the experimental frequency window that significantly affects the shape of experimentally recorded spectrum of the density fluctuations (dynamical structure factor). The process detected was attributed to segmental motion of the flexible polymeric chain. The full spectrum analysis of Brillouin spectra has been performed taking advantage of the relaxation function previously used in describing a single relaxation process in dielectric examination of water solutions of PEG 400. The proposed data processing procedure permits a qualitative reproduction of concentration dependencies of the hypersonic wave velocity and absorption measured. The shapes of the concentration dependencies of the relaxation times obtained from the Brillouin and the dielectric spectroscopies are in good agreement over a very broad concentration range, although their absolute values are scaled by the factor of 3. This result indicate that the two processes revealed independently by dielectric and Brillouin spectroscopies, apparently separated in time-scale, are just the same relaxation process.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pochylski, Mikołaj; Blaszczak, Zdzislaw
Brillouin spectroscopy investigations of poly(ethylene glycol) water and organic solvent mixtures Journal Article
In: Proc. SPIE, vol. 6598, pp. 65980X, 2007.
@article{Pochylski2007,
title = {Brillouin spectroscopy investigations of poly(ethylene glycol) water and organic solvent mixtures},
author = {Mikołaj Pochylski and Zdzislaw Blaszczak},
doi = {10.1117/12.726588},
year = {2007},
date = {2007-01-01},
journal = {Proc. SPIE},
volume = {6598},
pages = {65980X},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dobek, Andrzej
Optical and Electric Gradients in Photosynthesis Inproceedings
In: Granja, Carlos; Leroy, Claude; Stekl, Ivan (Ed.): Nuclear Physics Methods and Accelerators in Biology and Medicine: Fourth International Summer School on Nuclear Physics Methods and Accelerators in Biology and Medicine, pp. 169–174, AIP Conference Proceedings, 2007, ISSN: 0094243X.
@inproceedings{Dobek2007,
title = {Optical and Electric Gradients in Photosynthesis},
author = {Andrzej Dobek},
editor = {Carlos Granja and Claude Leroy and Ivan Stekl},
url = {http://aip.scitation.org/doi/abs/10.1063/1.2825772},
doi = {10.1063/1.2825772},
issn = {0094243X},
year = {2007},
date = {2007-01-01},
booktitle = {Nuclear Physics Methods and Accelerators in Biology and Medicine: Fourth International Summer School on Nuclear Physics Methods and Accelerators in Biology and Medicine},
volume = {958},
pages = {169--174},
publisher = {AIP Conference Proceedings},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Pacławski, K; Gapiński, Jacek
Static and dynamic light scattering method for analysis of gold colloidal growth in aqueous solution Journal Article
In: Archives of Metallurgy and Materials, vol. 52, no. 1, pp. 121–128, 2007.
@article{Pacawski2007,
title = {Static and dynamic light scattering method for analysis of gold colloidal growth in aqueous solution},
author = {K Pacławski and Jacek Gapiński},
url = {http://yadda.icm.edu.pl/baztech/element/bwmeta1.element.baztech-article-BSW3-0029-0017},
year = {2007},
date = {2007-01-01},
journal = {Archives of Metallurgy and Materials},
volume = {52},
number = {1},
pages = {121--128},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Gapiński, Jacek; Meier, G; Kriegs, H
Isotropic Brillouin spectra of liquids having an internal degree of freedom Journal Article
In: The Journal of Chemical Physics, vol. 126, no. 1, pp. 014508, 2007, ISSN: 0021-9606.
@article{Patkowski2007,
title = {Isotropic Brillouin spectra of liquids having an internal degree of freedom},
author = {Adam Patkowski and Jacek Gapiński and G Meier and H Kriegs},
url = {http://aip.scitation.org/doi/10.1063/1.2426347},
doi = {10.1063/1.2426347},
issn = {0021-9606},
year = {2007},
date = {2007-01-01},
journal = {The Journal of Chemical Physics},
volume = {126},
number = {1},
pages = {014508},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dwiecki, Krzysztof; Górnas, Paweł; Wilk, Agnieszka; Nogala-Kałucka, Małgorzata; Polewski, Krzysztof
Spectroscopic studies of D-$alpha$-tocopherol concentration-induced transformation in egg phosphatidylcholne vesicles Journal Article
In: Cellular and Molecular Biology Letters, vol. 12, no. 1, pp. 51–69, 2007, ISSN: 1689-1392.
@article{Dwiecki2007,
title = {Spectroscopic studies of D-$alpha$-tocopherol concentration-induced transformation in egg phosphatidylcholne vesicles},
author = {Krzysztof Dwiecki and Paweł Górnas and Agnieszka Wilk and Małgorzata Nogala-Kałucka and Krzysztof Polewski},
url = {http://www.ncbi.nlm.nih.gov/pubmed/17124545 http://www.degruyter.com/view/j/cmble.2007.12.issue-1/s11658-006-0059-6/s11658-006-0059-6.xml},
doi = {10.2478/s11658-006-0059-6},
issn = {1689-1392},
year = {2007},
date = {2007-01-01},
journal = {Cellular and Molecular Biology Letters},
volume = {12},
number = {1},
pages = {51--69},
abstract = {The effects of embedding up to 60 mol% of $alpha$-tocopherol ($alpha$-Toc) on the morphology and structure of the egg phosphatidylcholine (PC) membrane were studied using spectroscopic techniques. The resulting vesicles were subjected to turbidometric and dynamic light scattering measurements to evaluate their size distribution. The $alpha$-Toc intrinsic fluorescence and its quenching was used to estimate the tocopherol position in the membrane. Optical microscopy was used to visualize morphological changes in the vesicles during the inclusion of tocopherol into the 2 mg/ml PC membrane. The incorporation of up to 15 mol% of tocopherol molecules into PC vesicles is accompanied by a linear increase in the fluorescence intensity and the simultaneous formation of larger, multilamellar vesicles. Increasing the tocopherol concentration above 20 mol% induced structural and morphological changes leading to the disappearance of micrometer-sized vesicles and the formation of small unilamellar vesicles of size ranging from 30 to 120 nm, mixed micelles and non-lamellar structures.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2006
Szymański, Jedrzej; Patkowski, Adam; Wilk, Agnieszka; Garstecki, Piotr; Holyst, Robert
Diffusion and Viscosity in a Crowded Environment: from Nano- to Macroscale Journal Article
In: The Journal of Physical Chemistry B, vol. 110, no. 51, pp. 25593–25597, 2006, ISSN: 1520-6106.
@article{Szymanski2006a,
title = {Diffusion and Viscosity in a Crowded Environment: from Nano- to Macroscale},
author = {Jedrzej Szymański and Adam Patkowski and Agnieszka Wilk and Piotr Garstecki and Robert Holyst},
url = {http://pubs.acs.org/doi/abs/10.1021/jp0666784},
doi = {10.1021/jp0666784},
issn = {1520-6106},
year = {2006},
date = {2006-12-01},
journal = {The Journal of Physical Chemistry B},
volume = {110},
number = {51},
pages = {25593--25597},
publisher = {American Chemical Society},
abstract = {Although water is the chief component of living cells, food, and personal care products, the supramolecular components make their viscosity larger than that of water by several orders of magnitude. Using fluorescence correlation spectroscopy (FCS), photon correlation spectroscopy (PCS), NMR, and rheology data, we show how the viscosity changes from the value for water at the molecular scale to the large macroviscosity. We determined the viscosity experienced by nanoprobes (of sizes from 0.28 to 190 nm) in aqueous micellar solution of hexaethylene-glycol-monododecyl-ether (in a range of concentration from 0.1% w/w to 35% w/w) and identified a clear crossover at the length scale of 17 ± 2 nm (slightly larger than persistence length of micelles) at which viscosity acquires its macroscopic value. The sharp dependence of the viscosity coefficients on the size of the probe in the nanoregime has important consequences for diffusion-limited reactions in crowded environments (e.g., living cells).},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pochylski, Mikołaj; Aliotta, F; Blaszczak, Z; Gapiński, Jacek
Structuring Effects and Hydration Phenomena in Poly(Ethylene Glycol)/Water Mixtures Investigated by Brillouin Scattering Journal Article
In: The Journal of Physical Chemistry B, vol. 110, no. 41, pp. 20533–20539, 2006, ISSN: 1520-6106.
@article{Pochylski2006a,
title = {Structuring Effects and Hydration Phenomena in Poly(Ethylene Glycol)/Water Mixtures Investigated by Brillouin Scattering},
author = {Mikołaj Pochylski and F Aliotta and Z Blaszczak and Jacek Gapiński},
url = {http://www.ncbi.nlm.nih.gov/pubmed/17034240 http://pubs.acs.org/doi/abs/10.1021/jp0620973},
doi = {10.1021/jp0620973},
issn = {1520-6106},
year = {2006},
date = {2006-10-01},
journal = {The Journal of Physical Chemistry B},
volume = {110},
number = {41},
pages = {20533--20539},
abstract = {Aqueous solutions of poly(ethylene glycol) (PEG) of mean molecular mass of 600 g/mol (PEG600) are investigated by Brillouin scattering technique. At high PEG content, a relaxation phenomenon is observed, which is related to a local rearrangement of the polymer structure where the interaction, via hydrogen bonding, with the solvent molecules plays a role. The obtained values of the relaxation times match the literature data very well for a fast relaxation time revealed by dielectric relaxation measurements in very similar mixtures. The calculated concentration behaviors of the excess adiabatic compressibility turns out in good agreement with the previous findings from ultrasonic measurements at 3 MHz. The observed minimum in the adiabatic compressibility is interpreted as the result of the interaction between water and the EO units of the PEG chain, which results in a structure tighter then that typical of bulk water and of pure PEG600. Such a hypothesis is supported by the observation that volume fraction value of about 0.3 coincides with the concentration value at which full hydration of EO units takes place. The observation that at the same concentration, the polymer coils start to overlap each other further supports the idea that the adiabatic compressibility behavior is monitoring the structural evolution of the mixture. However, similar results are obtained for largely different binary mixture which suggests caution in taking this conclusion too literally. In particular, the hypothesis that the occurrence of an extreme in the excess adiabatic compressibility could be simply originated by statistical effects and that further work is required for disentangling entropic contribution from effects of hetero-association and self-aggregation of one or both the components.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Danielewicz-Ferchmin, Irena; Banachowicz, Ewa; Ferchmin, Ryszard A
Properties of Hydration Shells of Protein Molecules at their Pressure- and Temperature-Induced Native-Denatured Transition Journal Article
In: ChemPhysChem, vol. 7, no. 10, pp. 2126–2133, 2006, ISSN: 1439-4235.
@article{Danielewicz-Ferchmin2006,
title = {Properties of Hydration Shells of Protein Molecules at their Pressure- and Temperature-Induced Native-Denatured Transition},
author = {Irena Danielewicz-Ferchmin and Ewa Banachowicz and Ryszard A Ferchmin},
url = {http://www.ncbi.nlm.nih.gov/pubmed/16955512 http://doi.wiley.com/10.1002/cphc.200600289},
doi = {10.1002/cphc.200600289},
issn = {1439-4235},
year = {2006},
date = {2006-10-01},
journal = {ChemPhysChem},
volume = {7},
number = {10},
pages = {2126--2133},
abstract = {Properties of water at the surface of biomolecules are important for their conformational stability. The behaviour of hydrating water at protein transition (t) pressures P(t) and temperatures T(t) , with the points (P(t),T(t) ) lying in the Native-Denatured (N-D) transition line, is studied. Hydration shells at the hydrophilic regions of protein molecules with surface charge density sigma are investigated with the help of the equation of state of water in an open system. The local values of sigma rather close to each other (sigma(D) approximately 0.3 C m(-2)) are found for six different experimental lines of the N-D transition found in the literature. The values sigma(D) correspond to the crossings of the total pressure (P(t)+Pi) vs sigma isotherms at different T(t) (Pi-electrostriction pressure). The pressures P(t) and temperatures T(t) appear to be related with some selected sites at the surfaces of the protein molecules.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Gapiński, Jacek; Pakula, T; Meier, G
Physical nature of complex structural relaxation in polysiloxane – PMpTS: $alpha$ and $alpha$′ relaxations Journal Article
In: Polymer, vol. 47, no. 20, pp. 7231–7240, 2006, ISSN: 00323861.
@article{Patkowski2006a,
title = {Physical nature of complex structural relaxation in polysiloxane – PMpTS: $alpha$ and $alpha$′ relaxations},
author = {Adam Patkowski and Jacek Gapiński and T Pakula and G Meier},
url = {https://www.sciencedirect.com/science/article/pii/S0032386106006860 http://linkinghub.elsevier.com/retrieve/pii/S0032386106006860},
doi = {10.1016/j.polymer.2006.05.065},
issn = {00323861},
year = {2006},
date = {2006-09-01},
journal = {Polymer},
volume = {47},
number = {20},
pages = {7231--7240},
publisher = {Elsevier},
abstract = {Structural relaxation processes in poly(methyl-para-tolyl-siloxane) (PMpTS) polymers of three molecular weights were studied using dynamic light scattering. Two relaxation processes: the usual $alpha$ and an additional slow one $alpha$′ were observed and studied as function of temperature and molecular weight. Contrary to the structural relaxation, we find that in a plot T–Tg the relaxation times for the $alpha$′ process for all molecular weights do not collapse to a single curve. For one of the samples the light scattering correlation functions were compared with the corresponding functions obtained by means of mechanical relaxation, dielectric spectroscopy and computer simulations. The simulations show that the bimodal distribution, i.e. the $alpha$ relaxation and the slow ($alpha$′) process are contained in the correlation functions of most of the probes (optical anisotropy, dipole moment, chain bond, density) in agreement with experimental observations.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Rathgeber, Silke; Pakula, Tadeusz; Wilk, Agnieszka; Matyjaszewski, Krzysztof; Lee, Hyung-il; Beers, Kathryn L
Bottle-brush macromolecules in solution: Comparison between results obtained from scattering experiments and computer simulations Journal Article
In: Polymer, vol. 47, no. 20, pp. 7318–7327, 2006, ISSN: 00323861.
@article{Rathgeber2006,
title = {Bottle-brush macromolecules in solution: Comparison between results obtained from scattering experiments and computer simulations},
author = {Silke Rathgeber and Tadeusz Pakula and Agnieszka Wilk and Krzysztof Matyjaszewski and Hyung-il Lee and Kathryn L Beers},
url = {https://www.sciencedirect.com/science/article/pii/S0032386106006872 http://linkinghub.elsevier.com/retrieve/pii/S0032386106006872},
doi = {10.1016/j.polymer.2006.06.010},
issn = {00323861},
year = {2006},
date = {2006-09-01},
journal = {Polymer},
volume = {47},
number = {20},
pages = {7318--7327},
publisher = {Elsevier},
abstract = {We addressed the structure of bottle-brush macromolecules under good solvent conditions by means of scattering techniques and computer simulations. Architectural parameters, such as backbone length, side chain length and side chain stiffness were varied systematically. A consistent description of the form factors was achieved by describing the bottle-brush polymers as flexible cylinders with internal density fluctuations. The model leads to direct conclusions about parameters, such as the brush persistence length, describing the overall shape of the bottle-brush polymers. Indirect conclusions about the side chain and backbone conformation can be drawn. Experimental results were compared to those obtained from computer simulations carried out for single bottle-brush polymers using the cooperative motion algorithm. The simulation gives direct access to the pair correlation function, allowing an independent determination of the form factor. In addition direct information about the side chain and backbone conformation can be obtained. The critical parameter for lyotropic behavior of bottle-brush polymer solutions is the ratio of brush persistence length to diameter which should be of order 10 or larger. Thus the discussion of the results is focused on the impact of the architectural parameters on the persistence of the bottle-brush polymers. Experimental results on the lyotropic behavior of a bottle-brush polymer are presented.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Hoffmann, Marcin; Eitner, Krystian; von Grotthuss, Marcin; Rychlewski, Leszek; Banachowicz, Ewa; Grabarkiewicz, Tomasz; Szkoda, Tomasz; Kolinski, Andrzej
In: Journal of Computer-Aided Molecular Design, vol. 20, no. 5, pp. 305–319, 2006, ISSN: 0920-654X.
@article{Hoffmann2006,
title = {Three dimensional model of severe acute respiratory syndrome coronavirus helicase ATPase catalytic domain and molecular design of severe acute respiratory syndrome coronavirus helicase inhibitors},
author = {Marcin Hoffmann and Krystian Eitner and Marcin von Grotthuss and Leszek Rychlewski and Ewa Banachowicz and Tomasz Grabarkiewicz and Tomasz Szkoda and Andrzej Kolinski},
url = {http://www.ncbi.nlm.nih.gov/pubmed/16972168 http://link.springer.com/10.1007/s10822-006-9057-z},
doi = {10.1007/s10822-006-9057-z},
issn = {0920-654X},
year = {2006},
date = {2006-05-01},
journal = {Journal of Computer-Aided Molecular Design},
volume = {20},
number = {5},
pages = {305--319},
abstract = {The modeling of the severe acute respiratory syndrome coronavirus helicase ATPase catalytic domain was performed using the protein structure prediction Meta Server and the 3D Jury method for model selection, which resulted in the identification of 1JPR, 1UAA and 1W36 PDB structures as suitable templates for creating a full atom 3D model. This model was further utilized to design small molecules that are expected to block an ATPase catalytic pocket thus inhibit the enzymatic activity. Binding sites for various functional groups were identified in a series of molecular dynamics calculation. Their positions in the catalytic pocket were used as constraints in the Cambridge structural database search for molecules having the pharmacophores that interacted most strongly with the enzyme in a desired position. The subsequent MD simulations followed by calculations of binding energies of the designed molecules were compared to ATP identifying the most successful candidates, for likely inhibitors - molecules possessing two phosphonic acid moieties at distal ends of the molecule.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Szymański, Jȩdrzej; Patkowski, Adam; Gapiński, Jacek; Wilk, Agnieszka; Hołyst, Robert
Movement of Proteins in an Environment Crowded by Surfactant Micelles: Anomalous versus Normal Diffusion Journal Article
In: The Journal of Physical Chemistry B, vol. 110, no. 14, pp. 7367–7373, 2006, ISSN: 1520-6106.
@article{Szymanski2006b,
title = {Movement of Proteins in an Environment Crowded by Surfactant Micelles: Anomalous versus Normal Diffusion},
author = {Jȩdrzej Szymański and Adam Patkowski and Jacek Gapiński and Agnieszka Wilk and Robert Hołyst},
url = {http://www.ncbi.nlm.nih.gov/pubmed/16599511 http://pubs.acs.org/doi/abs/10.1021/jp055626w},
doi = {10.1021/jp055626w},
issn = {1520-6106},
year = {2006},
date = {2006-04-01},
journal = {The Journal of Physical Chemistry B},
volume = {110},
number = {14},
pages = {7367--7373},
abstract = {Small proteins move in crowded cell compartments by anomalous diffusion. In many of them, e.g., the endoplasmic reticulum, the proteins move between lipid membranes in the aqueous lumen. Molecular crowding in vitro offers a systematic way to study anomalous and normal diffusion in a well controlled environment not accessible in vivo. We prepared a crowded environment in vitro consisting of hexaethylene glycol monododecyl ether (C(12)E(6)) nonionic surfactant and water and observed lysozyme diffusion between elongated micelles. We have fitted the data obtained in fluorescence correlation spectroscopy using an anomalous diffusion model and a two-component normal diffusion model. For a small concentration of surfactant (below 4 wt %) the data can be fitted by single-component normal diffusion. For larger concentrations the normal diffusion fit gave two components: one very slow and one fast. The amplitude of the slow component grows with C(12)E(6) concentration. The ratio of diffusion coefficients (slow to fast) is on the order of 0.1 for all concentrations of surfactant in the solution. The fast diffusion is due to free proteins while the slow one is due to the protein-micelle complexes. The protein-micelle interaction is weak since even in a highly concentrated solution (35% of C(12)E(6)) the amplitude of the slow mode is only 10%, despite the fact that the average distance between the micelles is the same as the size of the protein. The anomalous diffusion model gave the anomaly index (r(2)(t) approximately t(alpha)), alpha monotonically decreasing from alpha = 1 (at 4% surfactant) to alpha = 0.88 (at 37% surfactant). The fits for two-component normal diffusion and anomalous diffusion were of equally good quality, but the physical interpretation was only straightforward for the former.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Banchio, Adolfo J; Gapiński, Jacek; Patkowski, Adam; Haeußler, Wolfgang; Fluerasu, Andrei; Sacanna, Stefano; Holmqvist, Peter; Meier, Gerhard; Lettinga, Paul M; Naegele, Gerhard
Many-Body Hydrodynamic Interactions in Charge-Stabilized Suspensions Journal Article
In: Physical Review Letters, vol. 96, no. 13, pp. 138303, 2006, ISSN: 0031-9007.
@article{Banchio2006,
title = {Many-Body Hydrodynamic Interactions in Charge-Stabilized Suspensions},
author = {Adolfo J Banchio and Jacek Gapiński and Adam Patkowski and Wolfgang Haeußler and Andrei Fluerasu and Stefano Sacanna and Peter Holmqvist and Gerhard Meier and Paul M Lettinga and Gerhard Naegele},
url = {http://www.ncbi.nlm.nih.gov/pubmed/16712043 https://link.aps.org/doi/10.1103/PhysRevLett.96.138303},
doi = {10.1103/PhysRevLett.96.138303},
issn = {0031-9007},
year = {2006},
date = {2006-04-01},
journal = {Physical Review Letters},
volume = {96},
number = {13},
pages = {138303},
abstract = {In this joint experimental-theoretical work we study hydrodynamic interaction effects in dense suspensions of charged colloidal spheres. Using x-ray photon correlation spectroscopy we have determined the hydrodynamic function H(q), for a varying range of electrosteric repulsion. We show that H(q) can be quantitatively described by means of a novel Stokesian dynamics simulation method for charged Brownian spheres, and by a modification of a many-body theory developed originally by Beenakker and Mazur. Very importantly, we can explain the behavior of H(q) for strongly correlated particles without resorting to the controversial concept of hydrodynamic screening, as was attempted in earlier work by Riese [Phys. Rev. Lett. 85, 5460 (2000)].},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Banachowicz, Ewa
Light scattering studies of proteins under compression Journal Article
In: Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, vol. 1764, no. 3, pp. 405–413, 2006, ISSN: 15709639.
@article{Banachowicz2006a,
title = {Light scattering studies of proteins under compression},
author = {Ewa Banachowicz},
url = {http://www.ncbi.nlm.nih.gov/pubmed/16510323 http://linkinghub.elsevier.com/retrieve/pii/S157096390600032X},
doi = {10.1016/j.bbapap.2006.01.014},
issn = {15709639},
year = {2006},
date = {2006-03-01},
journal = {Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics},
volume = {1764},
number = {3},
pages = {405--413},
abstract = {The scattering techniques are very convenient and effective in investigation of the shape, size and interactions of biological molecules close to their natural states in solution. However, it seems that from among a wide spectrum of scattering techniques, the light scattering ones have been relatively rarely used for the study of proteins under elevated hydrostatic pressure. This paper gives a brief description of the well developed possibilities of this technique for potential applications in the study of dissociation, aggregation and structural changes in proteins under compression. A short review of the already known applications is also given. Finally, the high-pressure dynamic light scattering results obtained by author on the lysozyme solution are shown and discussed.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kriegs, H; Gapiński, Jacek; Meier, G; Paluch, M; Pawlus, S; Patkowski, Adam
Pressure effects on the $alpha$ and $alpha$′ relaxations in polymethylphenylsiloxane Journal Article
In: The Journal of Chemical Physics, vol. 124, no. 10, pp. 104901, 2006, ISSN: 0021-9606.
@article{Kriegs2006,
title = {Pressure effects on the $alpha$ and $alpha$′ relaxations in polymethylphenylsiloxane},
author = {H Kriegs and Jacek Gapiński and G Meier and M Paluch and S Pawlus and Adam Patkowski},
url = {http://aip.scitation.org/doi/10.1063/1.2177242},
doi = {10.1063/1.2177242},
issn = {0021-9606},
year = {2006},
date = {2006-03-01},
journal = {The Journal of Chemical Physics},
volume = {124},
number = {10},
pages = {104901},
publisher = {American Institute of Physics},
abstract = {In some polymers, in addition to the usual structural $alpha$ relaxation, a slower $alpha$′ relaxation is observed with a non-Arrhenius temperature dependence. In order to understand better the molecular origin of this $alpha$′ relaxation in poly(methylphenylsiloxane) (PMPS) we have studied, for the first time, the pressure dependence of its relaxation time, together with the usual temperature dependence, by means of dynamic light scattering (DLS). For the same material the $alpha$ relaxation was also studied by means of DLS and dielectric spectroscopy (DS) in broad temperature and pressure ranges. We find that the temperature dependence of both $alpha$ and $alpha$′ relaxation times, at all pressures studied, can be described by a double Vogel-Fulcher-Tammann (VFT) law. The pressure dependence of the characteristic temperatures Tg (glass transition temperature) and T0 (Vogel temperature) as well as the activation volumes for both $alpha$ and $alpha$′ processes are very similar, indicating, that both relaxation processes originate from similar local mol...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Banachowicz, Ewa; Danielewicz-Ferchmin, I
Static permittivity of water in electric field higher than 10 8 V m −1 and pressure varying from 0.1 to 600 MPa at room temperature Journal Article
In: Physics and Chemistry of Liquids, vol. 44, no. 1, pp. 95–105, 2006, ISSN: 0031-9104.
@article{Banachowicz2006b,
title = {Static permittivity of water in electric field higher than 10 8 V m −1 and pressure varying from 0.1 to 600 MPa at room temperature},
author = {Ewa Banachowicz and I Danielewicz-Ferchmin},
url = {http://www.tandfonline.com/doi/abs/10.1080/00319100500338912},
doi = {10.1080/00319100500338912},
issn = {0031-9104},
year = {2006},
date = {2006-02-01},
journal = {Physics and Chemistry of Liquids},
volume = {44},
number = {1},
pages = {95--105},
publisher = {Taylor & Francis Group},
abstract = {A recently proposed statistical approach to the permittivity $epsilon$ of water in the high electric field E (I. Danielewicz-Ferchmin, A.R. Ferchmin. Phys. Chem. Chem. Phys., 6, 1332 (2004)) has been applied to water at T = 293 K subjected to external pressure. Results are shown in the form of the set of isobars $epsilon$(E), which reveal abrupt falls at E∼109 V m−1.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Gapiński, Jacek; Meier, G; Kriegs, H; Grand, Le A; Dreyfus, C
Unexpected effect of internal degrees of freedom on transverse phonons in supercooled liquids Journal Article
In: Europhysics Letters (EPL), vol. 73, no. 4, pp. 607–613, 2006, ISSN: 0295-5075.
@article{Patkowski2006b,
title = {Unexpected effect of internal degrees of freedom on transverse phonons in supercooled liquids},
author = {Adam Patkowski and Jacek Gapiński and G Meier and H Kriegs and Le A Grand and C Dreyfus},
url = {http://stacks.iop.org/0295-5075/73/i=4/a=607?key=crossref.8b86e9eb8242607bf9be17b90e358bd2},
doi = {10.1209/epl/i2005-10429-y},
issn = {0295-5075},
year = {2006},
date = {2006-02-01},
journal = {Europhysics Letters (EPL)},
volume = {73},
number = {4},
pages = {607--613},
publisher = {IOP Publishing},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
von Grotthuss, Marcin; Plewczynski, Dariusz; Ginalski, Krzysztof; Rychlewski, Leszek; Shakhnovich, EugeneI
PDB-UF: database of predicted enzymatic functions for unannotated protein structures from structural genomics Journal Article
In: BMC Bioinformatics, vol. 7, no. 1, pp. 53, 2006, ISSN: 14712105.
@article{VonGrotthuss2006,
title = {PDB-UF: database of predicted enzymatic functions for unannotated protein structures from structural genomics},
author = {Marcin von Grotthuss and Dariusz Plewczynski and Krzysztof Ginalski and Leszek Rychlewski and EugeneI Shakhnovich},
url = {http://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-7-53},
doi = {10.1186/1471-2105-7-53},
issn = {14712105},
year = {2006},
date = {2006-02-01},
journal = {BMC Bioinformatics},
volume = {7},
number = {1},
pages = {53},
publisher = {BioMed Central},
abstract = {The number of protein structures from structural genomics centers dramatically increases in the Protein Data Bank (PDB). Many of these structures are functionally unannotated because they have no sequence similarity to proteins of known function. However, it is possible to successfully infer function using only structural similarity. Here we present the PDB-UF database, a web-accessible collection of predictions of enzymatic properties using structure-function relationship. The assignments were conducted for three-dimensional protein structures of unknown function that come from structural genomics initiatives. We show that 4 hypothetical proteins (with PDB accession codes: 1VH0, 1NS5, 1O6D, and 1TO0), for which standard BLAST tools such as PSI-BLAST or RPS-BLAST failed to assign any function, are probably methyltransferase enzymes. We suggest that the structure-based prediction of an EC number should be conducted having the different similarity score cutoff for different protein folds. Moreover, performing the annotation using two different algorithms can reduce the rate of false positive assignments. We believe, that the presented web-based repository will help to decrease the number of protein structures that have functions marked as "unknown" in the PDB file. http://paradox.harvard.edu/PDB-UF and http://bioinfo.pl/PDB-UF},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ślósarek, Genowefa; Kozak, M; Gierszewski, J; Pietraszko, A
Structure of N 6 -furfurylaminopurine (kinetin) dihydrogenphosphate Journal Article
In: Acta Crystallographica Section B Structural Science, vol. 62, no. 1, pp. 102–108, 2006, ISSN: 0108-7681.
@article{Slosarek2006,
title = {Structure of N 6 -furfurylaminopurine (kinetin) dihydrogenphosphate},
author = {Genowefa Ślósarek and M Kozak and J Gierszewski and A Pietraszko},
url = {http://scripts.iucr.org/cgi-bin/paper?S010876810502673X},
doi = {10.1107/S010876810502673X},
issn = {0108-7681},
year = {2006},
date = {2006-02-01},
journal = {Acta Crystallographica Section B Structural Science},
volume = {62},
number = {1},
pages = {102--108},
publisher = {International Union of Crystallography},
abstract = {The crystal structure of kinetin dihydrogenphosphate has been determined at 115 and 293 K. Kinetin dihydrogenphosphate undergoes a polymorphic phase transition at 291.1 K. In both phases the crystal belongs to the triclinic system with the symmetry described by the space group P$backslash$bar 1. In the low-temperature phase, the unit cell is doubled along the a axis. There is a dynamic equilibrium between different tautomeric forms of the adenine residue, determined by the distribution of H atoms within the network of hydrogen bonds.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pochylski, Mikołaj; Aliotta, F; Błaszczak, Z; Gapiński, Jacek
Evidences of Nonideal Mixing in Poly(ethylene Glycol)/Organic Solvent Mixtures by Brillouin Scattering Journal Article
In: The Journal of Physical Chemistry B, vol. 110, no. 1, pp. 485–493, 2006, ISSN: 1520-6106.
@article{Pochylski2006b,
title = {Evidences of Nonideal Mixing in Poly(ethylene Glycol)/Organic Solvent Mixtures by Brillouin Scattering},
author = {Mikołaj Pochylski and F Aliotta and Z Błaszczak and Jacek Gapiński},
url = {http://www.ncbi.nlm.nih.gov/pubmed/16471559 http://pubs.acs.org/doi/abs/10.1021/jp053813o},
doi = {10.1021/jp053813o},
issn = {1520-6106},
year = {2006},
date = {2006-01-01},
journal = {The Journal of Physical Chemistry B},
volume = {110},
number = {1},
pages = {485--493},
abstract = {The concentration dependence of the hypersonic properties of solutions of poly(ethylene glycol) of mean molecular mass 600 g/mol (PEG600) in benzene and toluene has been investigated by Brillouin scattering. The two solvents are very similar in structure and chemical properties, but while benzene is nonpolar, toluene possess a modest dipole. In both solvents a high-frequency relaxation process has been observed at high concentrations which has been assigned to conformational rearrangements of the polymeric chains, triggered by reorientation of the side groups. In both cases, the concentration dependence of the adiabatic compressibility deviates significantly from linearity, indicating the existence of nonideal mixing phenomena driven by aggregation processes taking place in the systems. However, there is no temperature dependence for solutions of PEG600 in benzene; on the contrary, the results obtained for solutions of PEG600 in toluene are noticeably dependent on the temperature. The comparison of the experimental data with the results of previous experiments on similar systems allows a general picture for weakly interacting mixtures of hydrogen-bonded systems and organic solvents to be developed. In particular, in the presence of a nonpolar solvent molecule the local structure of the mixture is dominated by solute self-association processes and any resulting solute-solvent correlation is barely induced by excluded volume effects. At high enough dilution the self-aggregation of solute molecules produces a variety of new local topologies that cannot be observed in bulk solute, and as a consequence, the concentration evolution of the system is too rich to be described in terms of a linear combination of a few components over the whole concentration range. The situation seems to be simpler for the polar toluene solvent molecules, where a three-component model seems able to fit the experimental concentration dependence of the hypersonic velocity. This result is interpreted to imply that the interaction between the solvent dipoles and the active sites of the solute produces a relatively stable heterocoordination, while the relevance of self-association is partially reduced.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kang, Kyongok; Wilk, Agnieszka; Buitenhuis, J; Patkowski, Adam; Dhont, Jan K G
Diffusion of spheres in isotropic and nematic suspensions of rods Journal Article
In: The Journal of Chemical Physics, vol. 124, no. 4, pp. 044907, 2006, ISSN: 0021-9606.
@article{Kang2006,
title = {Diffusion of spheres in isotropic and nematic suspensions of rods},
author = {Kyongok Kang and Agnieszka Wilk and J Buitenhuis and Adam Patkowski and Jan K G Dhont},
url = {http://aip.scitation.org/doi/10.1063/1.2161204},
doi = {10.1063/1.2161204},
issn = {0021-9606},
year = {2006},
date = {2006-01-01},
journal = {The Journal of Chemical Physics},
volume = {124},
number = {4},
pages = {044907},
publisher = {American Institute of Physics},
abstract = {Diffusion of a small tracer sphere (apoferritin) in isotropic and nematic networks [of fd virus] is discussed. For a tracer sphere that is smaller than the mesh size of the network, screened hydrodynamic interactions between the sphere and the network determine its diffusion coefficient. A theory is developed for such interactions as well as their relation to the long-time self-diffusion coefficient. Fluorescence correlation spectroscopy measurements on mixtures of apoferritin and fd virus are presented. The long-time self-diffusion coefficient of apoferritin is measured as a function of the fd-virus concentration, both in the isotropic and nematic state, in directions parallel and perpendicular to the nematic director. The hydrodynamic screening length of the fd-virus network as a function of fd concentration is obtained by combining these experimental data with the theory. Surprisingly, the screening length increases with increasing concentration in nematic networks. This is due to the increase in the d...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2005
Gibasiewicz, Krzysztof; Szrajner, Anna; Ihalainen, Janne A; Germano, Marta; Dekker, Jan P; van Grondelle, Rienk
Characterization of Low-Energy Chlorophylls in the PSI-LHCI Supercomplex from Chlamydomonas r einhardtii . A Site-Selective Fluorescence Study Journal Article
In: The Journal of Physical Chemistry B, vol. 109, no. 44, pp. 21180–21186, 2005, ISSN: 1520-6106.
@article{Gibasiewicz2005a,
title = {Characterization of Low-Energy Chlorophylls in the PSI-LHCI Supercomplex from Chlamydomonas r einhardtii . A Site-Selective Fluorescence Study},
author = {Krzysztof Gibasiewicz and Anna Szrajner and Janne A Ihalainen and Marta Germano and Jan P Dekker and Rienk van Grondelle},
url = {http://www.ncbi.nlm.nih.gov/pubmed/16853744 http://pubs.acs.org/doi/abs/10.1021/jp0530909},
doi = {10.1021/jp0530909},
issn = {1520-6106},
year = {2005},
date = {2005-11-01},
journal = {The Journal of Physical Chemistry B},
volume = {109},
number = {44},
pages = {21180--21186},
abstract = {Almost all photosystem I (PSI) complexes from oxygenic photosynthetic organisms contain chlorophylls that absorb at longer wavelength than that of the primary electron donor P700. We demonstrate here that the low-energy pool of chlorophylls in the PSI-LHCI complex from the green alga Chlamydomonas reinhardtii, containing five to six pigments, is significantly blue-shifted (A(max) at 700 nm at 4 K) compared to that in the PSI core preparations from several species of cyanobacteria and in PSI-LHCI particles from higher plants. This makes them almost isoenergetic with the primary donor. However, they keep the other characteristic features of "red" chlorophylls: clear spectral separation from the bulk chlorophylls, big Stokes shift revealing pronounced electron-phonon coupling, and large homogeneous and inhomogeneous broadening of approximately 170 and approximately 310 cm(-1), respectively.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ziolek, Marcin; Pawlowicz, Natalia; Naskrecki, Ryszard; Dobek, Andrzej
Electron Transfer in the Reaction Center of the Rb. s phaeroides R-26 Studied by Transient Absorption Journal Article
In: The Journal of Physical Chemistry B, vol. 109, no. 38, pp. 18171–18176, 2005, ISSN: 1520-6106.
@article{Ziolek2005,
title = {Electron Transfer in the Reaction Center of the Rb. s phaeroides R-26 Studied by Transient Absorption},
author = {Marcin Ziolek and Natalia Pawlowicz and Ryszard Naskrecki and Andrzej Dobek},
url = {http://www.ncbi.nlm.nih.gov/pubmed/16853333 http://pubs.acs.org/doi/abs/10.1021/jp050682i},
doi = {10.1021/jp050682i},
issn = {1520-6106},
year = {2005},
date = {2005-09-01},
journal = {The Journal of Physical Chemistry B},
volume = {109},
number = {38},
pages = {18171--18176},
abstract = {Electron transfer at the reaction center of the purple photosynthetic bacterium Rb. sphaeroides R-26 was measured at room temperature by the time-resolved transient absorption spectroscopy technique with 200 fs temporal resolution. The absorbance changes characteristic of the excited state of the primary donor and extending over the whole spectral range investigated from 350 nm up to 720 nm appeared after excitation with a laser pulse of about 100 fs duration at 800 nm. The time evolution of the spectra reflected the excitation of bacteriochlorophylls (BChl) M and L and the subsequent transfer of this excitation to the primary electron donor (P), with the time constant shorter than 1 ps. The decay time constant of the excited primary donor P was determined as about 3 ps, and it was faster than the rise of the reduced intermediary acceptor bacteriopheophytin (BPhe(L)). Photoreduction of BPhe(L) and its further reoxidation was clearly observed as an increase in its bleaching band intensity at around 540 nm in about 4 ps and its decrease in about 200 ps. Our findings support the theoretical model assuming the involvement of the intermediate state P(+)BChl- in the so-called "two-step" model. In this model an electron is transferred in a sequence from the excited special pair P* to bacteriochlorophyll, BChl(L), then to bacteriopheophytin, BPhe(L), and further on to quinone, Q(A). The branched charge separation, partially via P and partially via BChl(L), was also observed.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gapiński, Jacek; Wilk, Agnieszka; Patkowski, Adam; Haeußler, W; Banchio, A J; Pecora, R; Naegele, G
Diffusion and microstructural properties of solutions of charged nanosized proteins: Experiment versus theory Journal Article
In: The Journal of Chemical Physics, vol. 123, no. 5, pp. 054708, 2005, ISSN: 0021-9606.
@article{Gapinski2005,
title = {Diffusion and microstructural properties of solutions of charged nanosized proteins: Experiment versus theory},
author = {Jacek Gapiński and Agnieszka Wilk and Adam Patkowski and W Haeußler and A J Banchio and R Pecora and G Naegele},
url = {http://www.ncbi.nlm.nih.gov/pubmed/16108686 http://aip.scitation.org/doi/10.1063/1.1996569},
doi = {10.1063/1.1996569},
issn = {0021-9606},
year = {2005},
date = {2005-08-01},
journal = {The Journal of Chemical Physics},
volume = {123},
number = {5},
pages = {054708},
abstract = {We have reanalyzed our former static small-angle x-ray scattering and photon correlation spectroscopy results on dense solutions of charged spherical apoferritin proteins using theories recently developed for studies of colloids. The static structure factors S(q), and the small-wave-number collective diffusion coefficient D(c) determined from those experiments are interpreted now in terms of a theoretical scheme based on a Derjaguin-Landau-Verwey-Overbeek-type continuum model of charged colloidal spheres. This scheme accounts, in an approximate way, for many-body hydrodynamic interactions. Stokesian dynamics computer simulations of the hydrodynamic function have been performed for the first time for dense charge-stabilized dispersions to assess the accuracy of the theoretical scheme. We show that the continuum model allows for a consistent description of all experimental results, and that the effective particle charge is dependent upon the protein concentration relative to the added salt concentration. In addition, we discuss the consequences of small ions dynamics for the collective protein diffusion within the framework of the coupled-mode theory.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Hołyst, R; Staniszewski, K; Patkowski, Adam; Gapiński, Jacek
Hidden Minima of the Gibbs Free Energy Revealed in a Phase Separation in Polymer/Surfactant/Water Mixture Journal Article
In: The Journal of Physical Chemistry B, vol. 109, no. 18, pp. 8533–8537, 2005, ISSN: 1520-6106.
@article{Hoyst2005,
title = {Hidden Minima of the Gibbs Free Energy Revealed in a Phase Separation in Polymer/Surfactant/Water Mixture},
author = {R Hołyst and K Staniszewski and Adam Patkowski and Jacek Gapiński},
url = {http://www.ncbi.nlm.nih.gov/pubmed/16852004 http://pubs.acs.org/doi/abs/10.1021/jp050634y},
doi = {10.1021/jp050634y},
issn = {1520-6106},
year = {2005},
date = {2005-05-01},
journal = {The Journal of Physical Chemistry B},
volume = {109},
number = {18},
pages = {8533--8537},
abstract = {We observed a very unusual kinetic pathway in a separating C(12)E(6)/PEG/H(2)O ternary mixture. We let the mixture separate above the spinodal temperature (cloud point temperature) for some time and next cool it into a metastable region of a phase diagram, characterized by two minima of the Gibbs potential, one corresponding to the homogeneous mixture and one to the fully separated PEG-rich and C(12)E(6)-rich phases. Despite the fact that in the metastable region the thermodynamic equilibrium corresponds to the separated phases (global minimum of the Gibbs free energy), we observe perfect mixing of the initially separated phase. The homogeneous state, obtained in this way, does not separate, if left undisturbed. However, many cooling-heating cycles or full separation with visible meniscus above the cloud point temperature induce the phase separation in the metastable region. The metastable region can exist tens of degrees below the cloud point temperature. This effect is not observed in the binary mixture of C(12)E(6)/H(2)O.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Croce, R; Morosinotto, T; Ihalainen, J A; van Stokkum, I H M; Dekker, J P; Bassi, R; van Grondelle, R
Excitation Energy Transfer Pathways in Lhca4 Journal Article
In: Biophysical Journal, vol. 88, no. 3, pp. 1959–1969, 2005, ISSN: 00063495.
@article{Gibasiewicz2005b,
title = {Excitation Energy Transfer Pathways in Lhca4},
author = {Krzysztof Gibasiewicz and R Croce and T Morosinotto and J A Ihalainen and I H M van Stokkum and J P Dekker and R Bassi and R van Grondelle},
url = {http://www.ncbi.nlm.nih.gov/pubmed/15653744 http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=PMC1305248 http://linkinghub.elsevier.com/retrieve/pii/S0006349505732586},
doi = {10.1529/biophysj.104.049916},
issn = {00063495},
year = {2005},
date = {2005-03-01},
journal = {Biophysical Journal},
volume = {88},
number = {3},
pages = {1959--1969},
publisher = {The Biophysical Society},
abstract = {EET in reconstituted Lhca4, a peripheral light-harvesting complex from Photosystem I of Arabidopsis thaliana, containing 10 chlorophylls and 2 carotenoids, was studied at room temperature by femtosecond transient absorption spectroscopy. Two spectral forms of Lut were observed in the sites L1 and L2, characterized by significantly different interactions with nearby chlorophyll a molecules. A favorable interpretation of these differences is that the efficiency of EET to Chls is about two times lower from the "blue" Lut in the site L1 than from the "red" Lut in the site L2 due to fast IC in the former case. A major part of the energy absorbed by the "red" Lut, approximately 60%-70%, is transferred to Chls on a sub-100-fs timescale from the state S(2) but, in addition, minor EET from the hot S(1) state within 400-500 fs is also observed. EET from the S(1) state to chlorophylls occurs also within 2-3 ps and is ascribed to Vio and/or "blue" Lut. EET from Chl b to Chl a is biphasic and characterized by time constants of approximately 300 fs and 3.0 ps. These rates are ascribed to EET from Chl b spectral forms absorbing at approximately 644 nm and approximately 650 nm, respectively. About 25% of the excited Chls a decays very fast-within approximately 15 ps. This decay is proposed to be related to the presence of the interacting Chls A5 and B5 located next to the carotenoid in the site L2 and may imply some photoprotective role for Lhca4 in the photosystem I super-complex.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pochylski, Mikołaj; Aliotta, F; Błaszczak, Z; Gapiński, Jacek
Structural Relaxation Processes in Polyethylene Glycol/CCl 4 Solutions by Brillouin Scattering Journal Article
In: The Journal of Physical Chemistry B, vol. 109, no. 9, pp. 4181–4188, 2005, ISSN: 1520-6106.
@article{Pochylski2005,
title = {Structural Relaxation Processes in Polyethylene Glycol/CCl 4 Solutions by Brillouin Scattering},
author = {Mikołaj Pochylski and F Aliotta and Z Błaszczak and Jacek Gapiński},
url = {http://www.ncbi.nlm.nih.gov/pubmed/16851480 http://pubs.acs.org/doi/abs/10.1021/jp045130z},
doi = {10.1021/jp045130z},
issn = {1520-6106},
year = {2005},
date = {2005-03-01},
journal = {The Journal of Physical Chemistry B},
volume = {109},
number = {9},
pages = {4181--4188},
abstract = {We present results of a Brillouin scattering experiment on solutions of poly(ethylene glycol) of mean molecular mass 600 g/mol (PEG600) in CCl4. The relaxation process detected has been assigned to conformational rearrangements of the polymeric chains, triggered by reorientation of the side groups. The concentration dependencies of the hypersound velocity and normalized absorption are compared against the indications from several models proposed in the literature. The concentration evolution of the system is described in terms of two distinct regimes. At high polymer content, the system is dominated by the structure of the dense polymer, where polymer-polymer interactions, together with excluded volume effects, induce the existence of a preferred local arrangement resulting in a narrow distribution of the relaxation times, with the average value of the relaxation time following a simple Arrhenius temperature dependence. As the concentration decreases, the original structure of the hydrogen bonded polymer network is destroyed, and a number of different local configuration coexist, giving rise to a wider distribution of relaxation times or to a multiple relaxation. At low concentrations, the experimental data are well fitted assuming a Vogel-Fulker-Tammon behavior for the average relaxation time. In addition, the observed deviation from the ideal behavior for the refractive index and the density suggests that CCl4 does not behave as an inert solvent, and due to polarization effects, it can develop local hetero-associated structures via electrostatic interaction with the O-H end groups of the polymeric chains. The hypothesis has been successfully tested by fitting the concentration behavior of the hypersonic velocity to a recent three-component model, suitable to describe the concentration dependence of sound velocity in moderately interacting fluids. The indication of the model furnishes a very high value for the association constant of the PEG600, confirming the literature indication that, in polymeric systems capable of developing long liner aggregates via hydrogen bonding interaction, the Brillouin probe is insensitive to the true length of the polymeric chains. The Brillouin scattering experiment just sees an effective hydrogen bonded aggregate that is huge relative to the length of the single polymeric chain and becomes sensitive only to the density fluctuations of the local segmental motions.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Włodarczyk, Agnieszka; Grzybowski, Przemysław; Patkowski, Adam; Dobek, Andrzej
In: The Journal of Physical Chemistry B, vol. 109, no. 8, pp. 3594–3605, 2005, ISSN: 1520-6106.
@article{Wodarczyk2005,
title = {Effect of Ions on the Polymorphism, Effective Charge, and Stability of Human Telomeric DNA. Photon Correlation Spectroscopy and Circular Dichroism Studies},
author = {Agnieszka Włodarczyk and Przemysław Grzybowski and Adam Patkowski and Andrzej Dobek},
url = {http://www.ncbi.nlm.nih.gov/pubmed/16851398 http://pubs.acs.org/doi/abs/10.1021/jp045274d},
doi = {10.1021/jp045274d},
issn = {1520-6106},
year = {2005},
date = {2005-03-01},
journal = {The Journal of Physical Chemistry B},
volume = {109},
number = {8},
pages = {3594--3605},
abstract = {The effect of different ions on the formation and behavior of quadruplex structures of the human telomere sequence d(TTAGGG)(4) has been studied by photon correlation spectroscopy (PCS) and circular dichroism (CD). The saturation and melting curves obtained in the presence of K(+), Na(+), Rb(+), Li(+), Cs(+), and Sr(2+) ions were recorded by CD spectroscopy and indicated the formation of monomeric quadruplexes. Analysis of the saturation curves obtained at 2 degrees C has shown that the presence of a single Sr(2+) ion per oligomer is sufficient for the formation of a monomeric quadruplex of the DNA sequence studied. In the presence of SrCl(2) at a concentration of 50 mM, the formation of tetrameric quadruplexes has been detected. The effect of Sr(2+) ions on the formation of quadruplex structures by the human telomere sequence d(TTAGGG)(4) is stronger and different from that of the other ions tested. The paper also presents results of a study of electrostatic interactions in solution. The translation diffusion coefficients D(T) of the structures present in solution have been determined by photon correlation spectroscopy and the effective charges on the structures have been calculated by combining the experimental data with the results based on the coupled mode theory. Analysis of the melting points monitored by the CD method has permitted a determination of Deltan, the number of ions released in the process of thermal denaturation. All the results are in good agreement with the predictions based on the theory of polyelectrolytes. The effect of ions on the formation and behavior of quadruplex structures of the human telomere sequence d(TTAGGG)(4) has been studied by photon correlation spectroscopy and circular dichroism.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Rathgeber, Silke; Pakula, Tadeusz; Wilk, Agnieszka; Matyjaszewski, Krzysztof; Beers, Kathryn L
On the shape of bottle-brush macromolecules: Systematic variation of architectural parameters Journal Article
In: The Journal of Chemical Physics, vol. 122, no. 12, pp. 124904, 2005, ISSN: 0021-9606.
@article{Rathgeber2005,
title = {On the shape of bottle-brush macromolecules: Systematic variation of architectural parameters},
author = {Silke Rathgeber and Tadeusz Pakula and Agnieszka Wilk and Krzysztof Matyjaszewski and Kathryn L Beers},
url = {http://www.ncbi.nlm.nih.gov/pubmed/15836421 http://aip.scitation.org/doi/10.1063/1.1860531},
doi = {10.1063/1.1860531},
issn = {0021-9606},
year = {2005},
date = {2005-03-01},
journal = {The Journal of Chemical Physics},
volume = {122},
number = {12},
pages = {124904},
abstract = {We measured the form factor of bottle-brush macromolecules under good solvent conditions with small-angle neutron scattering and static light scattering. The systems under investigation are brushes, synthesized via the grafting-from route, built from a poly(alkyl methacrylate) backbone to which poly(n-butyl acrylate) side chains are densely grafted. The aim of our work is to study how the systematic variation of structural parameters such as the side chain length and backbone length change the conformation of the polymer brushes in solution. All spectra can be consistently described by a model, considering the bottle-brush polymers as flexible rods with internal density fluctuations. Parameters discussed are (1) the contour length per main chain monomer l(b), (2) the fractal dimension of the side chains Ds, as well as (3) the fractal dimension D, and (4) the Kuhn length lambdak of the overall brush. l(b)=0.253+/-0.008 nm is found to be independent of the side chain length and equal to the value found for the bare main chain, indicating a strongly stretched conformation for the backbone due to the presence of the side chains. The fractal dimension of the side chains is determined to be Ds=1.75+/-0.07 which is very close to the value of 10.588 approximately 1.70 expected for a three-dimensional self-avoiding random walk (3D-SAW) under good solvent conditions. On larger length scales the overall brush appears to be a 3D-SAW itself (D=1.64+/-0.08) with a Kuhn-step length of lambdak=70+/-4 nm. The value is independent of the side chain length and 46 times larger than the Kuhn length of the bare backbone (lambdak=1.8+/-0.2 nm). The ratio of Kuhn length to brush diameter lambda(k)dtextgreateror=20 determines whether lyotropic behavior can be expected or not. Since longer side chains do not lead to more persistent structures, lambda(k)d decreases from 8 to 4 with increasing side chain length and lyotropic behavior becomes unlikely.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kahle, S; Gapiński, Jacek; Hinze, G; Patkowski, Adam; Meier, G
A comparison of relaxation processes in structurally related van der Waals glass formers: The role of internal degrees of freedom Journal Article
In: The Journal of Chemical Physics, vol. 122, no. 7, pp. 074506, 2005, ISSN: 0021-9606.
@article{Kahle2005,
title = {A comparison of relaxation processes in structurally related van der Waals glass formers: The role of internal degrees of freedom},
author = {S Kahle and Jacek Gapiński and G Hinze and Adam Patkowski and G Meier},
url = {http://www.ncbi.nlm.nih.gov/pubmed/15743253 http://aip.scitation.org/doi/10.1063/1.1846653},
doi = {10.1063/1.1846653},
issn = {0021-9606},
year = {2005},
date = {2005-02-01},
journal = {The Journal of Chemical Physics},
volume = {122},
number = {7},
pages = {074506},
abstract = {Depolarized dynamic light scattering (DLS), dielectric relaxation (DS), and deuterium NMR studies of fragile van der Waals glass forming liquids phenylphthalein-dimethylether (PDE) and cresolphthalein-dimethylether (KDE) are presented. In PDE a new dielectric loss process was found, which can be attributed to the 180 degrees flip of the phenyl rings. The previous finding that the distribution of the structural relaxation times measured for PDE and KDE by DS is substantially narrower than that measured by DLS is explained by partial decoupling of the dynamics of the dipole moment from the structural relaxation of the sample. The dynamics of PDE and KDE is compared with the previous studies of two other structurally similar liquids: 1,1'-di(4-methoxy-5-methylphenyl)cyclohexane (BMMPC) and 1,1'-bis(p-methoxyphenyl)cyclohexane (BMPC) in order to relate dynamical features with the chemical structure of the material. The evidence for the intramolecular character of the secondary relaxations observed in BMPC and PDE is presented.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ihalainen, Janne A; van Stokkum, Ivo H M; Gibasiewicz, Krzysztof; Germano, Marta; van Grondelle, Rienk; Dekker, Jan P
Kinetics of excitation trapping in intact Photosystem I of Chlamydomonas reinhardtii and Arabidopsis thaliana Journal Article
In: Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol. 1706, no. 3, pp. 267–275, 2005, ISSN: 00052728.
@article{Ihalainen2005,
title = {Kinetics of excitation trapping in intact Photosystem I of Chlamydomonas reinhardtii and Arabidopsis thaliana},
author = {Janne A Ihalainen and Ivo H M van Stokkum and Krzysztof Gibasiewicz and Marta Germano and Rienk van Grondelle and Jan P Dekker},
url = {http://www.ncbi.nlm.nih.gov/pubmed/15694355 http://linkinghub.elsevier.com/retrieve/pii/S0005272804003299},
doi = {10.1016/j.bbabio.2004.11.007},
issn = {00052728},
year = {2005},
date = {2005-02-01},
journal = {Biochimica et Biophysica Acta (BBA) - Bioenergetics},
volume = {1706},
number = {3},
pages = {267--275},
abstract = {We measured picosecond time-resolved fluorescence of intact Photosystem I complexes from Chlamydomonas reinhardtii and Arabidopsis thaliana. The antenna system of C. reinhardtii contains about 30-60 chlorophylls more than that of A. thaliana, but lacks the so-called red chlorophylls, chlorophylls that absorb at longer wavelength than the primary electron donor. In C. reinhardtii, the main lifetimes of excitation trapping are about 27 and 68 ps. The overall lifetime of C. reinhardtii is considerably shorter than in A. thaliana. We conclude that the amount and energies of the red chlorophylls have a larger effect on excitation trapping time in Photosystem I than the antenna size.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Błaszczak, Zdzisław; Pochylski, Mikołaj; Iwaszkiewicz-Kostka, Iwona; Ziobrowski, Piotr; Drozdowski, Mirosław
Temperature study of Brillouin light scattering in selected dimethacrylates Journal Article
In: Journal of Molecular Structure, vol. 737, no. 1, pp. 11 - 15, 2005, ISSN: 0022-2860.
@article{Błaszczak2005,
title = {Temperature study of Brillouin light scattering in selected dimethacrylates},
author = {Zdzisław Błaszczak and Mikołaj Pochylski and Iwona Iwaszkiewicz-Kostka and Piotr Ziobrowski and Mirosław Drozdowski},
url = {http://www.sciencedirect.com/science/article/pii/S0022286004007239},
doi = {j.molstruc.2004.09.030},
issn = {0022-2860},
year = {2005},
date = {2005-01-01},
journal = {Journal of Molecular Structure},
volume = {737},
number = {1},
pages = {11 - 15},
abstract = {Selected dimethacrylates forming multifunctional monomers have been studied using Brillouin spectroscopy. The hypersound wave propagation velocity and adiabatic compressibility of the compounds studied have been determined. It has been revealed that these quantities depend on both temperature and the structure of the molecule chain of the monomer. Some characteristic features obtained from the Brillouin study have been discussed in terms of molecular interactions.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Mikusińska-Planner, A; Gągalska, J; Pochylski, Mikołaj; Kaczmarek, M M
X-Ray method of detection of neoplasmic changes Journal Article
In: Physics and Chemistry of Liquids, vol. 43, no. 2, pp. 167-174, 2005.
@article{doi:10.1080/00319100412331333904,
title = {X-Ray method of detection of neoplasmic changes},
author = {A Mikusińska-Planner and J Gągalska and Mikołaj Pochylski and M M Kaczmarek},
url = {https://doi.org/10.1080/00319100412331333904},
doi = {10.1080/00319100412331333904},
year = {2005},
date = {2005-01-01},
journal = {Physics and Chemistry of Liquids},
volume = {43},
number = {2},
pages = {167-174},
publisher = {Taylor & Francis},
abstract = {The article presents an X-ray method of detection of neoplasmic changes in people based on measurements from human blood serum. A new X-ray marker Ωrtg is defined and determined directly from the experimental angular distributions of radiation scattered by human blood serum samples. The numerical values of the marker Ωrtg are related directly to the character of the angular distribution of the scattered radiation intensity. The values of Ωrtg markers obtained for cancer patients were compared with the levels of the PSA marker. Statistical computer analysis of the correlation between the markers Ωrtg and PSA was made with the use of Statistica software by the method of classification trees. The threshold value of the Ωrtg marker, allowing distinction between the healthy and neoplasmically changed blood serum, was determined.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Błaszczak, Zdzisław; Pochylski, Mikołaj; Iwaszkiewicz-Kostka, Iwona; Ziobrowski, Piotr; Drozdowski, Mirosław; Farhoud, Maher
Brillouin scattering study of polyethylene glycol different solutions Journal Article
In: Journal of Molecular Liquids, vol. 121, no. 2, pp. 75 - 79, 2005, ISSN: 0167-7322.
@article{Błaszczak2005b,
title = {Brillouin scattering study of polyethylene glycol different solutions},
author = {Zdzisław Błaszczak and Mikołaj Pochylski and Iwona Iwaszkiewicz-Kostka and Piotr Ziobrowski and Mirosław Drozdowski and Maher Farhoud},
url = {http://www.sciencedirect.com/science/article/pii/S016773220400340X},
doi = {j.molliq.2004.10.034},
issn = {0167-7322},
year = {2005},
date = {2005-01-01},
journal = {Journal of Molecular Liquids},
volume = {121},
number = {2},
pages = {75 - 79},
abstract = {Abstract Brillouin spectroscopy was used to study the elastic properties of polyethylene glycol solutions in water, benzene and toluene. It has been shown that the spectroscopic features, characterizing the elastic properties of polymer solutions being under study, strongly depend on both polymer concentration and the kind of solvent. The non-monotonic character of the concentration dependencies of the hypersound velocity and adiabatic compressibility indicate the occurrence of the polymer–solvent interactions.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kang, Kyongok; Gapiński, Jacek; Lettinga, M P; Buitenhuis, J; Meier, G; Ratajczyk, M; Dhont, Jan K G; Patkowski, Adam
Diffusion of spheres in crowded suspensions of rods Journal Article
In: The Journal of Chemical Physics, vol. 122, no. 4, pp. 044905, 2005, ISSN: 0021-9606.
@article{Kang2005,
title = {Diffusion of spheres in crowded suspensions of rods},
author = {Kyongok Kang and Jacek Gapiński and M P Lettinga and J Buitenhuis and G Meier and M Ratajczyk and Jan K G Dhont and Adam Patkowski},
url = {http://www.ncbi.nlm.nih.gov/pubmed/15740296 http://aip.scitation.org/doi/10.1063/1.1834895},
doi = {10.1063/1.1834895},
issn = {0021-9606},
year = {2005},
date = {2005-01-01},
journal = {The Journal of Chemical Physics},
volume = {122},
number = {4},
pages = {044905},
abstract = {Translational tracer diffusion of spherical macromolecules in crowded suspensions of rodlike colloids is investigated. Experiments are done using several kinds of spherical tracers in fd-virus suspensions. A wide range of size ratios L/2a of the length L of the rods and the diameter 2a of the tracer sphere is covered by combining several experimental methods: fluorescence correlation spectroscopy for small tracer spheres, dynamic light scattering for intermediate sized spheres, and video microscopy for large spheres. Fluorescence correlation spectroscopy is shown to measure long-time diffusion only for relatively small tracer spheres. Scaling of diffusion coefficients with a/xi, predicted for static networks, is not found for our dynamical network of rods (with xi the mesh size of the network). Self-diffusion of tracer spheres in the dynamical network of freely suspended rods is thus fundamentally different as compared to cross-linked networks. A theory is developed for the rod-concentration dependence of the translational diffusion coefficient at low rod concentrations for freely suspended rods. The proposed theory is based on a variational solution of the appropriate Smoluchowski equation without hydrodynamic interactions. The theory can, in principle, be further developed to describe diffusion through dynamical networks at higher rod concentrations with the inclusion of hydrodynamic interactions. Quantitative agreement with the experiments is found for large tracer spheres, and qualitative agreement for smaller spheres. This is probably due to the increasing importance of hydrodynamic interactions as compared to direct interactions as the size of the tracer sphere decreases.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2004
Dreyfus, C; Grand, A Le; Gapiński, Jacek; Steffen, W; Patkowski, Adam
Scaling the $backslashalpha $ -relaxation time of supercooled fragile organic liquids Journal Article
In: The European Physical Journal B - Condensed Matter and Complex Systems, vol. 42, no. 3, pp. 309–319, 2004, ISSN: 1434-6028.
@article{Dreyfus2004,
title = {Scaling the $backslashalpha $ -relaxation time of supercooled fragile organic liquids},
author = {C Dreyfus and A Le Grand and Jacek Gapiński and W Steffen and Adam Patkowski},
url = {http://link.springer.com/10.1140/epjb/e2004-00386-3},
doi = {10.1140/epjb/e2004-00386-3},
issn = {1434-6028},
year = {2004},
date = {2004-12-01},
journal = {The European Physical Journal B - Condensed Matter and Complex Systems},
volume = {42},
number = {3},
pages = {309--319},
publisher = {EDP Sciences},
abstract = {It was shown recently [1] that the structural $alpha$-relaxation time $backslashtau $ of supercooled o-terphenyl depends on a single control parameter $backslashGamma $, which is the product of a function of density $E(backslashrho )$, by the inverse temperature T -1. We extend this finding to other fragile glassforming liquids using light scattering data. Available experimental results do not allow to discriminate between several analytical forms of the function $E(backslashrho )$, the scaling arising from the separation of density and temperature in $backslashGamma $. We also propose a simple form for $backslashtau (backslashGamma )$, which depends only on three material-dependent parameters, reproducing relaxation times over 12 orders of magnitude.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Wilk, Agnieszka; Gapiński, Jacek; Patkowski, Adam; Pecora, R
Self-diffusion in solutions of a 20 base pair oligonucleotide: Effects of concentration and ionic strength Journal Article
In: The Journal of Chemical Physics, vol. 121, no. 21, pp. 10794–10802, 2004, ISSN: 0021-9606.
@article{Wilk2004,
title = {Self-diffusion in solutions of a 20 base pair oligonucleotide: Effects of concentration and ionic strength},
author = {Agnieszka Wilk and Jacek Gapiński and Adam Patkowski and R Pecora},
url = {http://www.ncbi.nlm.nih.gov/pubmed/15549965 http://aip.scitation.org/doi/10.1063/1.1811599},
doi = {10.1063/1.1811599},
issn = {0021-9606},
year = {2004},
date = {2004-12-01},
journal = {The Journal of Chemical Physics},
volume = {121},
number = {21},
pages = {10794--10802},
abstract = {The long-time self-diffusion coefficients of a 20 base pair duplex oligonucleotide are measured as functions of 20-mer and added NaCl salt concentrations. The self-diffusion coefficients decrease monotonically with increasing 20-mer concentrations for the high-added salt sample and display non-monotonically decreasing 20-mer concentration dependences at lower added salt concentrations. The non-monotonic behavior is attributed to the opposing effects of the tendency to increase the interactions between 20-mers as the concentration is increased and to a decrease in the extent of the Coulomb forces as counterions from the 20-mer increasingly screen them. Attempts to account for the effect of the Coulomb forces on the self-diffusion coefficients by using effective dimensions in the hard rod theory give good agreement with experiment at the highest salt concentration studied. For the lower salt concentrations there appear to be two scaling regimes--one at low polyion concentration in which the high salt scaling of the rod dimensions by adding the Debye screening to the length and diameter of the rod is appropriate and one at high polyion concentrations where the scaling of the dimensions is the addition of 1/2 the Debye screening length. Estimates of the "overlap" concentration C*=1/L(eff) indicate that the non-monotonic decrease occurs at concentrations lower than C*. Finally, the fluorescence correlation spectroscopy self-diffusion coefficients measured here are compared with the mutual diffusion coefficients measured by dynamic light scattering.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Gapiński, Jacek; Meier, Gerhard
Dynamics of supercooled van der Waals liquid under pressure. A dynamic light scattering study Journal Article
In: Colloid & Polymer Science, vol. 282, no. 8, pp. 874–881, 2004, ISSN: 0303-402X.
@article{Patkowski2004,
title = {Dynamics of supercooled van der Waals liquid under pressure. A dynamic light scattering study},
author = {Adam Patkowski and Jacek Gapiński and Gerhard Meier},
url = {http://link.springer.com/10.1007/s00396-004-1102-7},
doi = {10.1007/s00396-004-1102-7},
issn = {0303-402X},
year = {2004},
date = {2004-06-01},
journal = {Colloid & Polymer Science},
volume = {282},
number = {8},
pages = {874--881},
publisher = {Springer-Verlag},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Angelini, R; Fioretto, D; Gapiński, Jacek; Monaco, G; Patkowski, Adam
Study of the Rytov dip for liquid o -terphenyl Journal Article
In: Philosophical Magazine, vol. 84, no. 13-16, pp. 1463–1469, 2004, ISSN: 1478-6435.
@article{Angelini2004,
title = {Study of the Rytov dip for liquid o -terphenyl},
author = {R Angelini and D Fioretto and Jacek Gapiński and G Monaco and Adam Patkowski},
url = {http://www.tandfonline.com/doi/abs/10.1080/14786430310001644224},
doi = {10.1080/14786430310001644224},
issn = {1478-6435},
year = {2004},
date = {2004-05-01},
journal = {Philosophical Magazine},
volume = {84},
number = {13-16},
pages = {1463--1469},
publisher = {Taylor & Francis Group},
abstract = {Light scattering spectra in the depolarized configuration are presented for the fragile glass former o-terphenyl in the temperature range between 350 and 421 K. These spectra are characterized by the presence of the Rytov dip and have been analysed in terms of the two-variable model of Andersen and Pecora. This model works well in the whole temperature range explored, that is over a range where the shear viscosity varies by almost one decade. The coupling parameter R is extracted and turns out to be almost temperature independent and very similar to that derived for other studied systems.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Petekidis, G; Gapiński, Jacek; Seymour, P; van Duijneveldt, J S; Vlassopoulos, D; Fytas, G
Dynamics of core-shell particles in concentrated suspensions Journal Article
In: Physical Review E, vol. 69, no. 4, pp. 042401, 2004, ISSN: 1539-3755.
@article{Petekidis2004,
title = {Dynamics of core-shell particles in concentrated suspensions},
author = {G Petekidis and Jacek Gapiński and P Seymour and J S van Duijneveldt and D Vlassopoulos and G Fytas},
url = {http://www.ncbi.nlm.nih.gov/pubmed/15169049 https://link.aps.org/doi/10.1103/PhysRevE.69.042401},
doi = {10.1103/PhysRevE.69.042401},
issn = {1539-3755},
year = {2004},
date = {2004-04-01},
journal = {Physical Review E},
volume = {69},
number = {4},
pages = {042401},
abstract = {The dynamics of soft colloidal particles in a concentrated suspension was studied by two color dynamic light scattering. The short-time diffusion coefficient, D(s)(q), revealed a weak slowing down around the peak of S(q) in contrast to the much stronger dependence observed in hard sphere systems, and the absence of any slowing down in ultrasoft diblock micelles. The low-q limit of the diffusion coefficient, D(s)(q=0), reflecting the cooperative nature of the dynamics was found to decrease from its dilute limit value in contrast to the weak increase observed in hard sphere systems. The behavior of D(s)(q) reflects distinct polymer-layer-induced hydrodynamic effects present in concentrated suspensions of core-shell particles.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Krzaczkowska, J; Gierszewski, J; Ślósarek, Genowefa
Solubility of Adenine and Kinetin in Water–Ethanol Solutions Journal Article
In: Journal of Solution Chemistry, vol. 33, no. 4, pp. 395–406, 2004, ISSN: 0095-9782.
@article{Krzaczkowska2004,
title = {Solubility of Adenine and Kinetin in Water–Ethanol Solutions},
author = {J Krzaczkowska and J Gierszewski and Genowefa Ślósarek},
url = {http://link.springer.com/10.1023/B:JOSL.0000036309.37357.70},
doi = {10.1023/B:JOSL.0000036309.37357.70},
issn = {0095-9782},
year = {2004},
date = {2004-04-01},
journal = {Journal of Solution Chemistry},
volume = {33},
number = {4},
pages = {395--406},
publisher = {Kluwer Academic Publishers-Plenum Publishers},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Skibinska, Lidia; Banachowicz, Ewa; Gapiński, Jacek; Patkowski, Adam; Barciszewski, Jan
Structural similarity ofE. coli 5S rRNA in solution and within the ribosome Journal Article
In: Biopolymers, vol. 73, no. 3, pp. 316–325, 2004, ISSN: 0006-3525.
@article{Skibinska2004,
title = {Structural similarity ofE. coli 5S rRNA in solution and within the ribosome},
author = {Lidia Skibinska and Ewa Banachowicz and Jacek Gapiński and Adam Patkowski and Jan Barciszewski},
url = {http://doi.wiley.com/10.1002/bip.10598},
doi = {10.1002/bip.10598},
issn = {0006-3525},
year = {2004},
date = {2004-02-01},
journal = {Biopolymers},
volume = {73},
number = {3},
pages = {316--325},
publisher = {Wiley Subscription Services, Inc., A Wiley Company},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ramesh, V M; Gibasiewicz, Krzysztof; Lin, Su; Bingham, Scott E; Webber, Andrew N
Bidirectional Electron Transfer in Photosystem I: Accumulation of A 0 - in A-Side or B-Side Mutants of the Axial Ligand to Chlorophyll A 0 † Journal Article
In: Biochemistry, vol. 43, no. 5, pp. 1369–1375, 2004, ISSN: 0006-2960.
@article{Ramesh2004,
title = {Bidirectional Electron Transfer in Photosystem I: Accumulation of A 0 - in A-Side or B-Side Mutants of the Axial Ligand to Chlorophyll A 0 †},
author = {V M Ramesh and Krzysztof Gibasiewicz and Su Lin and Scott E Bingham and Andrew N Webber},
url = {http://www.ncbi.nlm.nih.gov/pubmed/14756574 http://pubs.acs.org/doi/abs/10.1021/bi0354177},
doi = {10.1021/bi0354177},
issn = {0006-2960},
year = {2004},
date = {2004-02-01},
journal = {Biochemistry},
volume = {43},
number = {5},
pages = {1369--1375},
abstract = {Photosystem I contains two potential electron transfer pathways between P(700) and F(X). These branches are made up of the electron transfer chain components A, A(0), and A(1). The primary electron acceptor A(0) is a chlorophyll a monomer that could be one or both of the two chlorophyll molecules, eC-A(3)/eC-B(3), identified in the 2.5 A resolution structure. The eC-A(3)/eC-B(3) chlorophylls are both coordinated by the sulfur atom of a methionine. This coordination is highly unusual, as interactions between the acid Mg(2+) and the soft base sulfur are weak. The eC-A(3)/eC-B(3) chlorophylls also are located close to one of the connecting chlorophylls that may link the antenna and the electron transfer chain chlorophylls. Due to their location in the structure, the eC-A(3)/eC-B(3) chlorophylls may play a role in both excitation energy transfer and electron transfer. To test the role of the eC-A(3)/eC-B(3) chlorophylls in electron transfer, Met-684 of PsaA and Met-664 of PsaB have been changed to His, Ser, and Leu. Replacement of either M(A684) or M(B664) results in a significant alteration in growth phenotype. The His and Leu mutants are very light sensitive in the presence of oxygen. Growth is impaired to a greater extent in the B-side mutants. However, all of the mutants are able to grow anaerobically at comparable rates. The His and Ser mutants all accumulate PSI at a level similar to that of wild type, whereas the Leu mutants have reduced amounts of PSI. Ultrafast transient absorbance measurements show that the (A(0)(-) - A(0)) difference signal accumulates in the MH(A684) and MH(B664) mutants under neutral conditions, demonstrating that electron transfer between A(0)(-) and A(1) is blocked or significantly slowed. The results show that both the A-branch and the B-branch of the ETC are active in PSI from Chlamydomonas reinhardtii.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dobryszycki, Piotr; Kołodziejczyk, Robert; Krowarsch, Daniel; Gapiński, Jacek; Ożyhar, Andrzej; Kochman, Marian
Unfolding and Refolding of Juvenile Hormone Binding Protein Journal Article
In: Biophysical Journal, vol. 86, no. 2, pp. 1138–1148, 2004, ISSN: 00063495.
@article{Dobryszycki2004,
title = {Unfolding and Refolding of Juvenile Hormone Binding Protein},
author = {Piotr Dobryszycki and Robert Kołodziejczyk and Daniel Krowarsch and Jacek Gapiński and Andrzej Ożyhar and Marian Kochman},
url = {http://www.ncbi.nlm.nih.gov/pubmed/14747348 http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=PMC1303906 http://linkinghub.elsevier.com/retrieve/pii/S0006349504741880},
doi = {10.1016/S0006-3495(04)74188-0},
issn = {00063495},
year = {2004},
date = {2004-02-01},
journal = {Biophysical Journal},
volume = {86},
number = {2},
pages = {1138--1148},
abstract = {Juvenile hormone (JH) regulates insect development. JH present in the hemolymph is bound to a specific glycoprotein, juvenile hormone binding protein (JHBP), which serves as a carrier to deploy the hormone to target tissues. In this report structural changes of JHBP from Galleria mellonella induced by guanidine hydrochloride have been investigated by a combination of size-exclusion chromatography, protein activity measurements, and spectroscopic methods. Molecules of JHBP change their conformation from a native state via two unstable intermediates to a denatured state. The first intermediate appears in a compact state, because it slightly changes its molecular size and preserves most of the JHBP secondary structure of the native state. Although the second intermediate also preserves a substantial part of the secondary structure, it undergoes a change into a noncompact state changing its Stokes radius from approximately 30 to 39 A. Refolding experiments showed that JHBP molecules recover their full protein structure, as judged from the CD spectrum, fluorescence experiments, and JH binding activity measurements. The free energy of unfolding in the absence of the denaturant, DeltaG(D-N), is calculated to be 4.1 kcal mol(-1).},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ziółek, Marcin; Wereszczyńska, N; Naskręcki, Ryszard; Dobek, Andrzej
Electron transfer in the reaction center of the Rb. sphaeroides R-26 studied by transient absorption Inproceedings
In: van der Est, A; Bruce, D (Ed.): Photosynthesis: Fundamental Aspects to Global Perspectives. Proceedings of the XIIIth International Congress of Photosynthesis, pp. 289-291, Montreal, 2004.
@inproceedings{Ziółek2004,
title = {Electron transfer in the reaction center of the Rb. sphaeroides R-26 studied by transient absorption},
author = {Marcin Ziółek and N Wereszczyńska and Ryszard Naskręcki and Andrzej Dobek},
editor = {A van der Est and D Bruce},
year = {2004},
date = {2004-01-01},
booktitle = {Photosynthesis: Fundamental Aspects to Global Perspectives. Proceedings of the XIIIth International Congress of Photosynthesis},
volume = {1},
pages = {289-291},
address = {Montreal},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Włodarczyk, Agnieszka; Patkowski, Adam; Grzybowski, Przemysław; Dobek, Andrzej
The effect of mono- and divalent cations on Tetrahymena thermophila telomeric repeat fragment. A photon correlation spectroscopy study. Journal Article
In: Acta Biochimica Polonica, vol. 51, no. 4, pp. 971-981, 2004, ISSN: 0001-527X.
@article{Wodarczyk2004,
title = {The effect of mono- and divalent cations on Tetrahymena thermophila telomeric repeat fragment. A photon correlation spectroscopy study.},
author = {Agnieszka Włodarczyk and Adam Patkowski and Przemysław Grzybowski and Andrzej Dobek},
url = {http://www.actabp.pl/pdf/4_2004/971.pdf http://www.ncbi.nlm.nih.gov/pubmed/15625569},
doi = {045104971},
issn = {0001-527X},
year = {2004},
date = {2004-01-01},
journal = {Acta Biochimica Polonica},
volume = {51},
number = {4},
pages = {971-981},
abstract = {The structure of the Tetrahymena thermophila telomeric sequence d(TGGGGT)(4) was studied by photon correlation spectroscopy (PCS) in aqueous solution in the presence of NaCl, KCl and SrCl(2). The sample studied was polydisperse in all conditions studied. Translational diffusion coefficients D(T) describing the diffusion modes observed were determined. On the basis of a comparison between the experimental D(T) values with those calculated assuming the bead model, two forms were identified as telomeric quadruplex structures: monomer and tetramer. In the presence of SrCl(2) formation of aggregates was observed, with a size that reached several micrometres. The relative weighted concentrations of the structures observed for different concentrations of a salt and DNA were determined. The results obtained in the presence of monovalent ions were qualitatively similar and could be presented in a coherent plot in which the concentration of salt was expressed by the number of ions per DNA molecule. A large number of ions per DNA molecule favoured tetramer formation while a small number favoured the monomer form. A structural phase transition from the monomer to the tetramer induced by a change in the number of ions per DNA molecule was observed. The main difference between the results for Na(+) and K(+) was a greater effectiveness of the K(+) ions in formation of tetramers. The effect of Sr(2+) ions on the structures formed was different than that of the monovalent ions. The results obtained in the presence of Sr(2+) could not be described as a function of the number of ions per DNA molecule.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Jurga-Nowak, Hanna; Banachowicz, Ewa; Dobek, Andrzej; Patkowski, Adam
Supramolecular Guanosine 5 ′-Monophosphate Structures in Solution. Light Scattering Study Journal Article
In: Journal of Physical Chemistry B, vol. 108, pp. 2744–2750, 2004, ISSN: 1520-6106.
@article{Jurga-Nowak2004,
title = {Supramolecular Guanosine 5 ′-Monophosphate Structures in Solution. Light Scattering Study},
author = {Hanna Jurga-Nowak and Ewa Banachowicz and Andrzej Dobek and Adam Patkowski},
url = {http://pubs.acs.org/doi/abs/10.1021/jp030905%2B},
doi = {10.1021/jp030905},
issn = {1520-6106},
year = {2004},
date = {2004-01-01},
journal = {Journal of Physical Chemistry B},
volume = {108},
pages = {2744--2750},
publisher = {American Chemical Society},
abstract = {During the past decade, from the vast evidence it became clear that DNA oligomers rich in guanine stretches can form in solution highly ordered forms called G-quadruplexes and G-wires. G-quadruplexes are present in many sites of the human genome, can inhibit telomerase, and can be used as drug delivery supramolecules. G-wires and related structures seem to be an excellent material of biological origin for nanostructures. Therefore, in this paper we have studied the structures formed by specific association of guanosine 5‘-monophosphate (GMP) nucleotide molecules in water solutions by photon correlation spectroscopy and depolarized Rayleigh light scattering. One relaxation process with distinct amplitude was observed, as a function of temperature and sample concentration. It was attributed to the translational diffusion coefficient of the stacks of G-quartets in a range of high concentration and to the stacks of GMP monomer associates for low concentration (less than 40 mg/mL). From the measurements the hy...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2003
Patkowski, Adam; Paluch, M; Gapiński, Jacek
Relationship between T0, Tg and their pressure dependence for supercooled liquids Journal Article
In: Journal of Non-Crystalline Solids, vol. 330, no. 1-3, pp. 259–263, 2003, ISSN: 00223093.
@article{Patkowski2003,
title = {Relationship between T0, Tg and their pressure dependence for supercooled liquids},
author = {Adam Patkowski and M Paluch and Jacek Gapiński},
url = {https://www.sciencedirect.com/science/article/pii/S0022309303006781 http://linkinghub.elsevier.com/retrieve/pii/S0022309303006781},
doi = {10.1016/j.jnoncrysol.2003.09.002},
issn = {00223093},
year = {2003},
date = {2003-11-01},
journal = {Journal of Non-Crystalline Solids},
volume = {330},
number = {1-3},
pages = {259--263},
publisher = {North-Holland},
abstract = {We show that simple expressions can be derived from the Vogel–Fulcher–Tammann (VFT) law relating the glass transition temperature Tg, the VFT temperature T0, their pressure derivatives, the steepness index of the ‘Angell plot' and the strength parameter D of the VFT equation, in good agreement with experimental data. In the same way one can describe the dependence of the dTg/dP on the relaxation time $tau$g chosen to define the temperature Tg. Thus, this procedure allows a consistent rescaling and comparison of pressure dependent parameters obtained from different experiments and simulations.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Danielewicz-Ferchmin, I; Banachowicz, Ewa; Ferchmin, A R
Protein hydration and the huge electrostriction Journal Article
In: Biophysical chemistry, vol. 106, no. 2, pp. 147–53, 2003, ISSN: 0301-4622.
@article{Danielewicz-Ferchmin2003,
title = {Protein hydration and the huge electrostriction},
author = {I Danielewicz-Ferchmin and Ewa Banachowicz and A R Ferchmin},
url = {http://www.ncbi.nlm.nih.gov/pubmed/14556903},
issn = {0301-4622},
year = {2003},
date = {2003-11-01},
journal = {Biophysical chemistry},
volume = {106},
number = {2},
pages = {147--53},
abstract = {Recent experiments indicated the existence of hydration shells about biomolecules with densities markedly higher than that of bulk water. The compression is due to the pull of the dipoles of H(2)O molecules, necessary to achieve the thermodynamic equilibrium, from bulk water into the high field (approx. 10(9) V/m) region at the surface of the protein molecule. The electric field values at the surfaces of the biomolecules are calculated on the basis of the known densities. The reverse calculation of the limiting density values on the basis of known electric field distributions is performed, too. The results compare favourably with experiment.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Ramesh, V M; Lin, Su; Redding, Kevin; Woodbury, Neal W; Webber, Andrew N
Excitonic Interactions in Wild-Type and Mutant PSI Reaction Centers Journal Article
In: Biophysical Journal, vol. 85, no. 4, pp. 2547–2559, 2003, ISSN: 00063495.
@article{Gibasiewicz2003,
title = {Excitonic Interactions in Wild-Type and Mutant PSI Reaction Centers},
author = {Krzysztof Gibasiewicz and V M Ramesh and Su Lin and Kevin Redding and Neal W Woodbury and Andrew N Webber},
url = {http://www.ncbi.nlm.nih.gov/pubmed/14507717 http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=PMC1303478 http://linkinghub.elsevier.com/retrieve/pii/S0006349503746773},
doi = {10.1016/S0006-3495(03)74677-3},
issn = {00063495},
year = {2003},
date = {2003-10-01},
journal = {Biophysical Journal},
volume = {85},
number = {4},
pages = {2547--2559},
abstract = {Femtosecond excitation of the red edge of the chlorophyll a Q(Y) transition band in photosystem I (PSI), with light of wavelength textgreater or = 700 nm, leads to wide transient (subpicosecond) absorbance changes: positive DeltaA between 635 and 665 nm, and four negative DeltaA bands at 667, 675, 683, and 695 nm. Here we compare the transient absorbance changes after excitation at 700, 705, and 710 nm at 20 K in several PSI preparations of Chlamydomonas reinhardtii where amino acid ligands of the primary donor, primary acceptor, or connecting chlorophylls have been mutated. Most of these mutations influence the spectrum of the absorbance changes. This supports the view that the chlorophylls of the electron transfer chain as well as the connecting chlorophylls are engaged in the observed absorbance changes. The wide absorption spectrum of the electron transfer chain revealed by the transient measurements may contribute to the high efficiency of energy trapping in photosystem 1. Exciton calculations, based on the recent PSI structure, allow an assignment of the DeltaA bands to particular chlorophylls: the bands at 675 and 695 nm to the dimers of primary acceptor and accessory chlorophyll and the band at 683 nm to the connecting chlorophylls. The subpicosecond transient absorption bands decay may reflect rapid charge separation in the PSI reaction center.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Thurn-Albrecht, T; Zontone, F; Grubel, G; Steffen, W; Muller-Buschbaum, P; Patkowski, Adam
Photon correlation spectroscopy with high-energy coherent x rays Journal Article
In: Physical Review E, vol. 68, no. 3, pp. 031407, 2003, ISSN: 1063-651X.
@article{Thurn-Albrecht2003,
title = {Photon correlation spectroscopy with high-energy coherent x rays},
author = {T Thurn-Albrecht and F Zontone and G Grubel and W Steffen and P Muller-Buschbaum and Adam Patkowski},
url = {https://link.aps.org/doi/10.1103/PhysRevE.68.031407},
doi = {10.1103/PhysRevE.68.031407},
issn = {1063-651X},
year = {2003},
date = {2003-09-01},
journal = {Physical Review E},
volume = {68},
number = {3},
pages = {031407},
publisher = {American Physical Society},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Paluch, M; Casalini, R; Patkowski, Adam; Pakula, T; Roland, C M
Effect of volume changes on segmental relaxation in siloxane polymers Journal Article
In: Physical Review E, vol. 68, no. 3, pp. 031802, 2003, ISSN: 1063-651X.
@article{Paluch2003a,
title = {Effect of volume changes on segmental relaxation in siloxane polymers},
author = {M Paluch and R Casalini and Adam Patkowski and T Pakula and C M Roland},
url = {http://www.ncbi.nlm.nih.gov/pubmed/14524793 https://link.aps.org/doi/10.1103/PhysRevE.68.031802},
doi = {10.1103/PhysRevE.68.031802},
issn = {1063-651X},
year = {2003},
date = {2003-09-01},
journal = {Physical Review E},
volume = {68},
number = {3},
pages = {031802},
abstract = {From dielectric relaxation and equation-of-state measurements on polymethylphenylsiloxane and polymethyltolylsiloxane, the relative contributions of volume and thermal energy to the temperature dependence of the segmental relaxation times are quantified. In both polymers, volume exerts a substantial effect, being almost as significant as thermal energy. A possible consequence of this prominent role of volume in governing the segmental dynamics is the finding that the relaxation times, measured for a series of temperature at various (fixed) pressures, can be expressed as a single function of the volume normalized by the volume at the glass transition temperature. A similar result is found for the (isothermal) relaxation times measured at various pressures.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Lopes, M Matos; Fischer, E W
Pressure dependence of the high-frequency light scattering susceptibility of ortho-terphenyl: A mode coupling analysis Journal Article
In: The Journal of Chemical Physics, vol. 119, no. 3, pp. 1579–1585, 2003, ISSN: 0021-9606.
@article{Patkowski2003a,
title = {Pressure dependence of the high-frequency light scattering susceptibility of ortho-terphenyl: A mode coupling analysis},
author = {Adam Patkowski and M Matos Lopes and E W Fischer},
url = {http://aip.scitation.org/doi/10.1063/1.1581847},
doi = {10.1063/1.1581847},
issn = {0021-9606},
year = {2003},
date = {2003-07-01},
journal = {The Journal of Chemical Physics},
volume = {119},
number = {3},
pages = {1579--1585},
publisher = {American Institute of Physics},
abstract = {The high frequency part of the depolarized light scattering susceptibility has been measured for ortho-terphenyl (OTP) in a broad temperature and pressure range and analyzed using the mode-coupling theory (MCT). We found that the time–temperature–pressure superposition does not work for OTP in the frequency range of the susceptibility minimum and both a and b exponents of the MCT are temperature and pressure dependent. The pressure induced shift of the position of the minimum is much weaker than that of the $alpha$-peak resulting in dTc/dP=8.5 K/kbar while dTg/dP=26 K/kbar. Thus any universal scaling of the entire susceptibility including both the $alpha$-peak and the MCT minimum is not possible. These results are in contradiction to the previously reported conclusions obtained from the analysis of incoherent neutron scattering data [A. Toelle et al., Phys. Rev. Lett. 80, 2374 (1998)].},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dreyfus, C; Aouadi, A; Gapiński, Jacek; Matos-Lopes, M; Steffen, W; Patkowski, Adam; Pick, R M
Temperature and pressure study of Brillouin transverse modes in the organic glass-forming liquid orthoterphenyl Journal Article
In: Physical Review E, vol. 68, no. 1, pp. 011204, 2003, ISSN: 1063-651X.
@article{Dreyfus2003,
title = {Temperature and pressure study of Brillouin transverse modes in the organic glass-forming liquid orthoterphenyl},
author = {C Dreyfus and A Aouadi and Jacek Gapiński and M Matos-Lopes and W Steffen and Adam Patkowski and R M Pick},
url = {https://link.aps.org/doi/10.1103/PhysRevE.68.011204},
doi = {10.1103/PhysRevE.68.011204},
issn = {1063-651X},
year = {2003},
date = {2003-07-01},
journal = {Physical Review E},
volume = {68},
number = {1},
pages = {011204},
publisher = {American Physical Society},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Paluch, M; Roland, C M; Casalini, R; Meier, G; Patkowski, Adam
The relative contributions of temperature and volume to structural relaxation of van der Waals molecular liquids Journal Article
In: The Journal of Chemical Physics, vol. 118, no. 10, pp. 4578–4582, 2003, ISSN: 0021-9606.
@article{Paluch2003b,
title = {The relative contributions of temperature and volume to structural relaxation of van der Waals molecular liquids},
author = {M Paluch and C M Roland and R Casalini and G Meier and Adam Patkowski},
url = {http://aip.scitation.org/doi/10.1063/1.1545449},
doi = {10.1063/1.1545449},
issn = {0021-9606},
year = {2003},
date = {2003-03-01},
journal = {The Journal of Chemical Physics},
volume = {118},
number = {10},
pages = {4578--4582},
publisher = {American Institute of Physics},
abstract = {Pressure-volume-temperature measurements were carried out on two van der Waals liquids, 1,1′-bis(p-methoxyphenyl)cyclohexane (BMPC) and 1,1′-di(4-methoxy-5methylphenyl)cyclohexane (BMMPC). In combination with dielectric spectroscopy results, the relative contribution of temperature and density to the structural relaxation times were quantified. We find that the ratio of the isobaric expansion coefficient [−$rho$−1 (∂$rho$/∂T)P, where $rho$ is mass density and T is temperature, evaluated at P=0.1 MPa] to the coefficient of isochronal expansivity [−$rho$−1 (∂$rho$/∂T)$tau$, evaluated at $tau$=1 s] equals 0.58 and 0.72 for BMPC and BMMPC, respectively. This indicates that density exerts more influence on the structural relaxation times than does thermal energy. Corroborating this finding, the ratio of the isochoric activation energy to the activation energy at constant pressure is determined to be ca. 0.4 at ambient pressure for both glass formers. The prevalence of density over thermal energy is contrary to prevailing ideas concerning...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Paluch, M; Roland, C M; Gapiński, Jacek; Patkowski, Adam
Pressure and temperature dependence of structural relaxation in diglycidylether of bisphenol A Journal Article
In: The Journal of Chemical Physics, vol. 118, no. 7, pp. 3177–3186, 2003, ISSN: 0021-9606.
@article{Paluch2003c,
title = {Pressure and temperature dependence of structural relaxation in diglycidylether of bisphenol A},
author = {M Paluch and C M Roland and Jacek Gapiński and Adam Patkowski},
url = {http://aip.scitation.org/doi/10.1063/1.1538597},
doi = {10.1063/1.1538597},
issn = {0021-9606},
year = {2003},
date = {2003-02-01},
journal = {The Journal of Chemical Physics},
volume = {118},
number = {7},
pages = {3177--3186},
publisher = {American Institute of Physics},
abstract = {The structural ($alpha$-) relaxation in diglycidylether of bisphenol A (DGEBA) has been examined using three spectroscopic methods: dielectric spectroscopy (DS), dynamic light scattering–photon correlation spectroscopy (LS), and mechanical spectroscopy. The DS and LS measurements were carried out as a function of both temperature and pressure. Moreover, pressure-volumetemperature measurements were obtained for the DGEBA. These data allow an assessment of the relative contributions of thermal energy and free volume to structural relaxation in DGEBA. The results clearly show a substantial role for both thermal and free volume fluctuations in the dramatic slowing down of the dynamics. The combined temperature- and pressure-dependences of the dielectric and light scattering relaxation times were analyzed using the Avramov equation, implying that the fragility (normalized temperature dependence) is pressure independent over the studied range of pressures. The pressure dependence was the same as measured by the diffe...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Ruths, T; Fischer, E W
Dynamics of supercooled liquids confined to the pores of sol-gel glass: A dynamic light scattering study Journal Article
In: Physical Review E, vol. 67, no. 2, pp. 021501, 2003, ISSN: 1063-651X.
@article{Patkowski2003b,
title = {Dynamics of supercooled liquids confined to the pores of sol-gel glass: A dynamic light scattering study},
author = {Adam Patkowski and T Ruths and E W Fischer},
url = {http://www.ncbi.nlm.nih.gov/pubmed/12636678 https://link.aps.org/doi/10.1103/PhysRevE.67.021501},
doi = {10.1103/PhysRevE.67.021501},
issn = {1063-651X},
year = {2003},
date = {2003-02-01},
journal = {Physical Review E},
volume = {67},
number = {2},
pages = {021501},
abstract = {Dynamics of low molecular weight and polymeric glass forming liquids in confined geometries has been studied by means of depolarized dynamic light scattering: photon correlation spectroscopy and Fabry-Perot interferometry. The pore size of the glassy matrix amounted to 2.5, 5.0, and 7.5 nm. The glass transition temperature T(g) of these liquids in confined geometries has been measured using differential scanning calorimetry. A systematic decrease of T(g) (up to 25 K) with decreasing pore size has been observed. The relaxation times of the alpha process at constant temperature were decreasing with decreasing pore size (up to 6 orders of magnitude at T(g)), while the width of their distribution was increasing. The change of the relaxation times can be assigned to the change of T(g) in confined geometries. After correcting the activation plots for the shift of T(g) a master curve was obtained for all pore sizes and the bulk material. The effect of chemical modification of the surface of the porous matrix on the dynamics of ortho-terphenyl has also been studied. These dramatic changes of the T(g) and the relaxation time of confined liquids can be explained by simple thermodynamic arguments. There is no indication that they are related to the change of the correlation length of cooperative dynamics.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Iwaszkiewicz-Kostka, Iwona; Blaszczak, Zdzislaw; Pochylski, Mikołaj; Ziobrowski, P.; Drozdowski, Miroslaw
Investigation of the local structure of selected dimethacrylates by Brillouin light scattering Journal Article
In: Proc.SPIE, vol. 5229, no. 38, pp. 5229, 2003.
@article{Iwaszkiewicz-Kostka2003,
title = {Investigation of the local structure of selected dimethacrylates by Brillouin light scattering},
author = {Iwona Iwaszkiewicz-Kostka and Zdzislaw Blaszczak and Mikołaj Pochylski and P. Ziobrowski and Miroslaw Drozdowski},
url = {http://dx.doi.org/10.1117/12.520586},
doi = {10.1117/12.520586},
year = {2003},
date = {2003-01-01},
journal = {Proc.SPIE},
volume = {5229},
number = {38},
pages = {5229},
abstract = {Temperature dependence of Brillouin light scattering in selected dimethacrylates has been studied. For the compounds studied, being multifunctional monomers, the values of hypersound speed have been determined. It has been established that with increasing temperature the hypersound speed decreases for all substances studied.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2002
Paluch, Marian; Casalini, Riccardo; Best, Andreas; Patkowski, Adam
Volume effects on the molecular mobility close to glass transition in supercooled phenylphthalein-dimethylether. II Journal Article
In: The Journal of Chemical Physics, vol. 117, no. 16, pp. 7624–7630, 2002, ISSN: 0021-9606.
@article{Paluch2002,
title = {Volume effects on the molecular mobility close to glass transition in supercooled phenylphthalein-dimethylether. II},
author = {Marian Paluch and Riccardo Casalini and Andreas Best and Adam Patkowski},
url = {http://aip.scitation.org/doi/10.1063/1.1510115},
doi = {10.1063/1.1510115},
issn = {0021-9606},
year = {2002},
date = {2002-10-01},
journal = {The Journal of Chemical Physics},
volume = {117},
number = {16},
pages = {7624--7630},
publisher = {American Institute of Physics},
abstract = {Pressure–volume–temperature measurements in phenylphthalein-dimethylether (PDE) are reported, in combination with recently published dynamic light scattering data obtained under high pressure. We discuss the role that volume and thermal effects play in controlling the dynamics in the vicinity of the glass transition. Although volume is not the unique thermodynamical parameter characterizing the relaxation dynamics in PDE, its contribution to the super-Arrhenius behavior of the relaxation times in the vicinity of the glass transition is remarkable. The contribution of volume to the temperature dependence of the relaxation times has been characterized by means of the ratio of the activation energy at constant volume to the enthalpy of activation at constant pressure, EV/HP. We point out that this quantity is correlated with the temperature behavior of the nonexponentiallity parameter, $beta$KWW. Moreover, the $tau$(T,P) values were analyzed in terms of an extension of the Adam–Gibbs model. It was shown that this mod...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Fischer, E W; Bakai, A; Patkowski, Adam; Steffen, W; Reinhardt, L
Heterophase fluctuations in supercooled liquids and polymers Journal Article
In: Journal of Non-Crystalline Solids, vol. 307-310, pp. 584–601, 2002, ISSN: 00223093.
@article{Fischer2002,
title = {Heterophase fluctuations in supercooled liquids and polymers},
author = {E W Fischer and A Bakai and Adam Patkowski and W Steffen and L Reinhardt},
url = {https://www.sciencedirect.com/science/article/pii/S0022309302015107 http://linkinghub.elsevier.com/retrieve/pii/S0022309302015107},
doi = {10.1016/S0022-3093(02)01510-7},
issn = {00223093},
year = {2002},
date = {2002-09-01},
journal = {Journal of Non-Crystalline Solids},
volume = {307-310},
pages = {584--601},
publisher = {North-Holland},
abstract = {Glass-forming liquids and polymers consist of `solid-like' and `fluid-like' clusters of a finite lifetime in a dynamic equilibrium. The experimental observations leading to the heterophase fluctuation model are reviewed. They are: (i) long range density fluctuations as measured by static light scattering and ultra small angle X-ray scattering, (ii) ultra-slow hydrodynamic modes of density fluctuations as observed by photon correlation spectroscopy, (iii) temperature depending structural changes as studied by wide angle X-ray scattering. In order to explain these observations a new order parameter ns(x,t) is proposed, which describes the local mass fraction of energetically preferred structures (`aperiodic solid states'). The thermodynamic potentials can be analyzed in terms of the temperature dependence of 〈ns(T)〉. The $alpha$-relaxation process of supercooled liquids is directly related to the local fluctuations of ns (x,t).},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dobek, Andrzej; Pankowska, M; Gapiński, Jacek
Magneto-optics of Ferritin Journal Article
In: Journal of Colloid and Interface Science, vol. 253, no. 2, pp. 265–272, 2002, ISSN: 00219797.
@article{Dobek2002,
title = {Magneto-optics of Ferritin},
author = {Andrzej Dobek and M Pankowska and Jacek Gapiński},
url = {http://www.ncbi.nlm.nih.gov/pubmed/16290858 http://linkinghub.elsevier.com/retrieve/pii/S0021979702985632},
doi = {10.1006/jcis.2002.8563},
issn = {00219797},
year = {2002},
date = {2002-09-01},
journal = {Journal of Colloid and Interface Science},
volume = {253},
number = {2},
pages = {265--272},
abstract = {Measurements of Rayleigh light scattering, nonlinear light scattering in DC magnetic fields, and the Cotton-Mouton effect were carried out for 15 mM NaCl and water solutions of ferritin at room temperature. The spherical geometry of the molecule implies that it is optically isotropic. Such a macromolecule should not manifest magnetic anisotropy; however, in solution it shows induced magnetic birefringence (Cotton-Mouton effect) and changes in the intensity of the scattered light components. The analysis of the obtained results indicates the deformation of linear optical polarizability induced in the ferritin by a magnetic field as the main source of the magneto-optical phenomena observed. Light scattering and the CM effects theoretically depend on the linear magneto-optical polarizability, chi, and the nonlinear magneto-optical polarizability, eta. Using the theory describing the phenomena as well as the experimental data, the values of the anisotropy of linear magneto-optical polarizability components, chi(parallel) - chi(perpendicular) = -(1.3 +/- 0.7) x 10(-22) [cm3] (in SI units chi(parallel) - chi(perpendicular) = -(2.0 +/- 1.2) x 10(-33) [m3]), the linear optical polarizability},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Paluch, Marian; Kriegs, Hartmut
Dynamic light scattering studies of supercooled phenylphthalein–dimethylether dynamics under high pressure Journal Article
In: The Journal of Chemical Physics, vol. 117, no. 5, pp. 2192–2198, 2002, ISSN: 0021-9606.
@article{Patkowski2002a,
title = {Dynamic light scattering studies of supercooled phenylphthalein–dimethylether dynamics under high pressure},
author = {Adam Patkowski and Marian Paluch and Hartmut Kriegs},
url = {http://aip.scitation.org/doi/10.1063/1.1489902},
doi = {10.1063/1.1489902},
issn = {0021-9606},
year = {2002},
date = {2002-08-01},
journal = {The Journal of Chemical Physics},
volume = {117},
number = {5},
pages = {2192--2198},
publisher = {American Institute of Physics},
abstract = {The behavior of the $alpha$-relaxation process in phenylphthalein–dimethylether (PDE) under high pressure was studied by means of dynamic light scattering–photon correlation spectroscopy (DLS-PCS). The temperature dependence of the relaxation time of the $alpha$-process at ambient pressure was found to resemble that obtained from dielectric relaxation (DR) measurements. On the basis of the DLS measurements one can conclude that PDE satisfies the correlation between nonexponentiality and fragility established for low-molecular weight glass forming liquids and polymers. On the other hand, dielectric relaxation studies indicate that PDE is an exception from this correlation. These differences between the DLS and DR studies do not result from the overlap of the $alpha$- and $beta$-processes in the DLS experiments but might be due to the different coupling of the probes seen in these experiments (optical anisotropy and dipole moment) to the dynamics of the entire PDE molecule. We also studied the effect of pressure on fragility and ...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gapiński, Jacek; Paluch, Marian; Patkowski, Adam
Correlation between nonexponential relaxation and non-Arrhenius behavior under conditions of high compression Journal Article
In: Physical Review E, vol. 66, no. 1, pp. 011501, 2002, ISSN: 1063-651X.
@article{Gapinski2002,
title = {Correlation between nonexponential relaxation and non-Arrhenius behavior under conditions of high compression},
author = {Jacek Gapiński and Marian Paluch and Adam Patkowski},
url = {http://www.ncbi.nlm.nih.gov/pubmed/12241364 https://link.aps.org/doi/10.1103/PhysRevE.66.011501},
doi = {10.1103/PhysRevE.66.011501},
issn = {1063-651X},
year = {2002},
date = {2002-07-01},
journal = {Physical Review E},
volume = {66},
number = {1},
pages = {011501},
abstract = {Photon correlation spectroscopy was used to investigate the behavior of the dynamical properties of 1,1'-di(4-methoxy-5-methyl-phenyl)cyclohexane (BMMPC) at elevated pressures. The fragility of BMMPC measured by the steepness index m(T) is decreasing and the nonexponentiality parameter beta(KWW) is increasing with increasing pressure. This result strongly suggests that the phenomenological correlation between the steepness index and nonexponentionality is also preserved under high compression. The pressure dependence of the structural relaxation times is well characterized by a simple activation volume form. The activation volume continuously increases with decreasing temperature, which is probably due to the increase of cooperativity of the structural relaxation process. Moreover, we found that the glass-transition temperature exhibits a significant dependence on pressure.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Haeußler, W; Wilk, Agnieszka; Gapiński, Jacek; Patkowski, Adam
Interparticle correlations due to electrostatic interactions: A small angle x-ray and dynamic light scattering study. I. Apoferritin Journal Article
In: The Journal of Chemical Physics, vol. 117, no. 1, pp. 413–426, 2002, ISSN: 0021-9606.
@article{Haußler2002,
title = {Interparticle correlations due to electrostatic interactions: A small angle x-ray and dynamic light scattering study. I. Apoferritin},
author = {W Haeußler and Agnieszka Wilk and Jacek Gapiński and Adam Patkowski},
url = {http://aip.scitation.org/doi/10.1063/1.1481383},
doi = {10.1063/1.1481383},
issn = {0021-9606},
year = {2002},
date = {2002-07-01},
journal = {The Journal of Chemical Physics},
volume = {117},
number = {1},
pages = {413--426},
publisher = {American Institute of Physics},
abstract = {The structure and dynamics of the spherical protein Apoferritin in aqueous solution are studied over a wide range of protein concentrations and ionic strengths. At high ionic strength and low protein concentration, the intermolecular forces are screened and, therefore, the proteins behave like uncharged molecules. Under these conditions, the form factor of Apoferritin was measured by means of small angle x-ray scattering (SAXS) and the hydrodynamic radius was determined by means of dynamic light scattering (DLS). The sample was found to be highly monodisperse. By decreasing the content of salt added, interactions between the Apoferritin particles were initiated. These intermolecular forces lead to a pronounced maximum in the SAXS intensity. At the same time, a slow mode appears in the relaxation time distribution, additionally to the diffusive mode. The relative amplitudes and correlation times of the diffusive and the slow mode were investigated and compared with predictions of the coupled mode theory. B...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Ramesh, V M; Lin, Su; Woodbury, Neal W; Webber, Andrew N
Excitation Dynamics in Eukaryotic PS I from Chlamydomonas r einhardtii CC 2696 at 10 K. Direct Detection of the Reaction Center Exciton States Journal Article
In: The Journal of Physical Chemistry B, vol. 106, no. 24, pp. 6322–6330, 2002, ISSN: 1520-6106.
@article{Gibasiewicz2002,
title = {Excitation Dynamics in Eukaryotic PS I from Chlamydomonas r einhardtii CC 2696 at 10 K. Direct Detection of the Reaction Center Exciton States},
author = {Krzysztof Gibasiewicz and V M Ramesh and Su Lin and Neal W Woodbury and Andrew N Webber},
url = {http://pubs.acs.org/doi/abs/10.1021/jp014608l},
doi = {10.1021/jp014608l},
issn = {1520-6106},
year = {2002},
date = {2002-06-01},
journal = {The Journal of Physical Chemistry B},
volume = {106},
number = {24},
pages = {6322--6330},
publisher = {American Chemical Society},
abstract = {Excitation energy transfer in PS I particles from the green alga Chlamydomonas reinhardtii CC 2696 was studied at 10 K by femtosecond transient absorption spectroscopy. Five-nm wide excitation pulses at 670, 680, 695, and 700 nm were applied to selectively excite different spectral forms contributing to the wide QY transition band of chlorophyll a. Absorbance changes between 630 and 770 nm, up to 100 ps after excitation, were collected with a time step of 54 fs during the first 5 ps. Excitation at 700 nm leads to a structured initial absorbance difference spectra with four positive bands clearly resolved at 634, 645, 652, and 661 nm, and four negative bands at 667, 675, 684, and 695 nm. These spectra are interpreted in terms of excitonic coupling between the six electron-transfer chlorophyll a molecules: a special pair, two accessory and two A0 chlorophylls. The negative bands were ascribed to photobleaching of the four one-exciton states in line with theoretical predictions (Beddard, G. S. J. Phys. Chem...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam
Struktura i dynamika materiałow szkłopodobnych Journal Article
In: Postępy Fizyki, vol. 53D, pp. 146–151, 2002.
@article{Patkowski2002b,
title = {Struktura i dynamika materiałow szkłopodobnych},
author = {Adam Patkowski},
year = {2002},
date = {2002-01-01},
journal = {Postępy Fizyki},
volume = {53D},
pages = {146--151},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kaszyńska, Katarzyna; Banachowicz, Ewa; Ślósarek, Genowefa; Morawiec, Adrian; Gawrońska, Iwona; Barciszewski, Jan
Dynamic Light Scattering and NMR Studies of Napin Journal Article
In: Journal of Solution Chemistry, vol. 31, no. 12, pp. 987–993, 2002, ISSN: 00959782.
@article{Kaszynska2002,
title = {Dynamic Light Scattering and NMR Studies of Napin},
author = {Katarzyna Kaszyńska and Ewa Banachowicz and Genowefa Ślósarek and Adrian Morawiec and Iwona Gawrońska and Jan Barciszewski},
url = {http://link.springer.com/10.1023/A:1021877526536},
doi = {10.1023/A:1021877526536},
issn = {00959782},
year = {2002},
date = {2002-01-01},
journal = {Journal of Solution Chemistry},
volume = {31},
number = {12},
pages = {987--993},
publisher = {Kluwer Academic Publishers-Plenum Publishers},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2001
Gibasiewicz, Krzysztof; Ramesh, V M; Melkozernov, Alexander N; Lin, Su; Woodbury, Neal W; Blankenship, Robert E; Webber, Andrew N
Excitation Dynamics in the Core Antenna of PS I from Chlamydomonas r einhardtii CC 2696 at Room Temperature Journal Article
In: The Journal of Physical Chemistry B, vol. 105, no. 46, pp. 11498–11506, 2001, ISSN: 1520-6106.
@article{Gibasiewicz2001a,
title = {Excitation Dynamics in the Core Antenna of PS I from Chlamydomonas r einhardtii CC 2696 at Room Temperature},
author = {Krzysztof Gibasiewicz and V M Ramesh and Alexander N Melkozernov and Su Lin and Neal W Woodbury and Robert E Blankenship and Andrew N Webber},
url = {http://pubs.acs.org/doi/abs/10.1021/jp012089g},
doi = {10.1021/jp012089g},
issn = {1520-6106},
year = {2001},
date = {2001-11-01},
journal = {The Journal of Physical Chemistry B},
volume = {105},
number = {46},
pages = {11498--11506},
publisher = {American Chemical Society},
abstract = {Photosystem I particles from a eukaryotic organism, the green alga Chlamydomonas reinhardtii CC 2696, were studied by transient hole-burning spectroscopy at room temperature. Global analysis of the spectra recorded after excitation of chlorophyll a molecules in Photosystem I at selected wavelengths between 670 and 710 nm reveals excitation dynamics with subpicosecond, 2−3 ps, and 20−23 ps components. The subpicosecond and 2−3 ps components are ascribed to energy equilibration within the core antenna, whereas the 20−23 ps component is ascribed to energy trapping by the reaction center. Energy equilibration components describe both uphill and downhill energy transfer depending of the excitation wavelength. The initial transient absorbance bands after direct excitation of the red tail of the Qy transition band of chlorophyll a (at 700, 705, and 710 nm) are 25 nm wide and structured, revealing strongly coupled excited states among a group of molecules, most likely reaction center chlorophyll molecules. Excita...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Benmouna, Farida; Peng, Bin; Gapiński, Jacek; Patkowski, Adam; Ruhe, Jurgen; Johannsmann, Diethelm
Dynamic light scattering from liquid crystal polymer brushes swollen in a nematic solvent Journal Article
In: Liquid Crystals, vol. 28, no. 9, pp. 1353–1360, 2001, ISSN: 0267-8292.
@article{Benmouna2001,
title = {Dynamic light scattering from liquid crystal polymer brushes swollen in a nematic solvent},
author = {Farida Benmouna and Bin Peng and Jacek Gapiński and Adam Patkowski and Jurgen Ruhe and Diethelm Johannsmann},
url = {http://www.tandfonline.com/doi/abs/10.1080/02678290110061395},
doi = {10.1080/02678290110061395},
issn = {0267-8292},
year = {2001},
date = {2001-09-01},
journal = {Liquid Crystals},
volume = {28},
number = {9},
pages = {1353--1360},
publisher = {Taylor & Francis Group},
abstract = {Surface-attached side group liquid crystal polymer monolayers ('brushes') swollen in a nematic solvent were studied by means of dynamic light scattering. In the temperature range 47.5-66°C, the swollen brush is nematic while the bulk liquid crystal is isotropic. Under these conditions the light scattering is dominated by the brush. The fluctuations in the brush are 1-2 orders of magnitude slower than the fluctuations in the bulk nematic. The autocorrelation functions are well fitted by Kohlrausch-Williams-Watts stretched exponentials of the form exp[(-t/$tau$)$beta$] with a dynamic exponent $beta$ in the range 0.6-0.8.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Glaeser, H; Kanaya, T; Fischer, E W
Apparent nonergodic behavior of supercooled liquids above the glass transition temperature Journal Article
In: Physical Review E, vol. 64, no. 3, pp. 031503, 2001, ISSN: 1063-651X.
@article{Patkowski2001,
title = {Apparent nonergodic behavior of supercooled liquids above the glass transition temperature},
author = {Adam Patkowski and H Glaeser and T Kanaya and E W Fischer},
url = {http://www.ncbi.nlm.nih.gov/pubmed/11580338 https://link.aps.org/doi/10.1103/PhysRevE.64.031503},
doi = {10.1103/PhysRevE.64.031503},
issn = {1063-651X},
year = {2001},
date = {2001-08-01},
journal = {Physical Review E},
volume = {64},
number = {3},
pages = {031503},
abstract = {A speckle pattern can be observed in the polarized component of light scattered from glass forming liquids far above their glass transition temperature. This speckle pattern fluctuates with characteristic time that corresponds to the relaxation time of the additional ultraslow component in the correlation function and is about seven orders of magnitude longer than the relaxation time of the alpha-process. This slow process is out of the experimental time window when the alpha-process is measured by means of the photon correlation spectroscopy and results in an apparent nonergodicity which can be seen as a baseline offset in the ensemble-averaged correlation function. In contrast, the time-averaged field correlation functions which have been measured in practically all light scattering studies always decay to zero. The slow process contributes a q-dependent excess intensity to the polarized component of scattered light. The values of the nonergodicity parameters obtained from the static and dynamic light scattering experiments are equal. Both the slow component and the excess intensity result from denser regions of fractal character which develop in glass-forming liquids on approaching the glass transition.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Fischer, E W; Steffen, W; Glaeser, H; Baumann, M; Ruths, T; Meier, G
Unusual features of long-range density fluctuations in glass-forming organic liquids: A Rayleigh and Rayleigh-Brillouin light scattering study Journal Article
In: Physical Review E, vol. 63, no. 6, pp. 061503, 2001, ISSN: 1063-651X.
@article{Patkowski2001a,
title = {Unusual features of long-range density fluctuations in glass-forming organic liquids: A Rayleigh and Rayleigh-Brillouin light scattering study},
author = {Adam Patkowski and E W Fischer and W Steffen and H Glaeser and M Baumann and T Ruths and G Meier},
url = {http://www.ncbi.nlm.nih.gov/pubmed/11415106 https://link.aps.org/doi/10.1103/PhysRevE.63.061503},
doi = {10.1103/PhysRevE.63.061503},
issn = {1063-651X},
year = {2001},
date = {2001-05-01},
journal = {Physical Review E},
volume = {63},
number = {6},
pages = {061503},
abstract = {A new feature of glass-forming liquids, i.e., long-range density fluctuations of the order of 100 nm, has been extensively characterized by means of static light scattering, photon correlation spectroscopy and Rayleigh-Brillouin spectroscopy in orthoterphenyl (OTP) and 1,1-di(4(')-methoxy-5(')methyl-phenyl)-cyclohexane (BMMPC). These long-range density fluctuations result in the following unusual features observed in a light scattering experiment, which are not described by the existing theories: (i) strong q-dependent isotropic excess Rayleigh intensity, (ii) additional slow component in the polarized photon correlation function, and (iii) high Landau-Placzek ratio. These unusual features are equilibrium properties of the glass-forming liquids and depend only on temperature, provided that the sample has been equilibrated long enough. The temperature-dependent equilibration times were measured for BMMPC and are about 11 orders of magnitude longer than the alpha process. It was found that the glass-forming liquid OTP may occur in two states: with and without long-range density fluctuations ("clusters"). We have characterized the two states by static and dynamic light scattering in the temperature range from T(g) to T(g)+200 K. The relaxation times of the alpha process as well as the parameters of the Brillouin line are identical in both OTP with and without clusters. The alpha process (density fluctuations) in OTP was characterized by measuring either the polarized (VV) or depolarized (VH) correlation function, which are practically identical and q-independent. This feature, which is commonly observed in glass-forming liquids, is not fully explained by the existing theories.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Paluch, Marian; Gapiński, Jacek; Patkowski, Adam; Fischer, Erhard W
Does fragility depend on pressure? A dynamic light scattering study of a fragile glass-former Journal Article
In: The Journal of Chemical Physics, vol. 114, no. 18, pp. 8048–8055, 2001, ISSN: 0021-9606.
@article{Paluch2001,
title = {Does fragility depend on pressure? A dynamic light scattering study of a fragile glass-former},
author = {Marian Paluch and Jacek Gapiński and Adam Patkowski and Erhard W Fischer},
url = {http://aip.scitation.org/doi/10.1063/1.1362293},
doi = {10.1063/1.1362293},
issn = {0021-9606},
year = {2001},
date = {2001-05-01},
journal = {The Journal of Chemical Physics},
volume = {114},
number = {18},
pages = {8048--8055},
publisher = {American Institute of Physics},
abstract = {Relaxation times of the $alpha$-process in the fragile glass-forming liquid diglycidyl ether of bisphenol-A (EPON 828) were measured in a broad pressure (1–1500 bar) and temperature (264–293 K) ranges by means of the depolarized dynamic light scattering—photon correlation spectroscopy. Based on this experimental data the fragility of the supercooled liquid was calculated in two ways: as a steepness index m of the “Angell plot” and as the DT-parameter from the Vogel–Fulcher–Tammann Law, and was studied as a function of pressure. It was found, that while the steepness index depends on pressure, the DT parameter is pressure independent. The pressure dependence of the glass transition temperature Tg in EPON 828 was found to be nonlinear. Additionally, we established a relationship between the steepness index mT, the activation volume $Delta$V#, and the coefficient ∂Tg/∂Pg. In this pressure dependent study we found that also for EPON 828 the nonexponentiality of the correlation function of the $alpha$-process correlates well wi...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Dobek, Andrzej; Breton, Jacques; Leibl, Winfried
Modulation of Primary Radical Pair Kinetics and Energetics in Photosystem II by the Redox State of the Quinone Electron Acceptor QA Journal Article
In: Biophysical Journal, vol. 80, no. 4, pp. 1617–1630, 2001, ISSN: 00063495.
@article{Gibasiewicz2001b,
title = {Modulation of Primary Radical Pair Kinetics and Energetics in Photosystem II by the Redox State of the Quinone Electron Acceptor QA},
author = {Krzysztof Gibasiewicz and Andrzej Dobek and Jacques Breton and Winfried Leibl},
url = {https://www.sciencedirect.com/science/article/pii/S0006349501761346 http://linkinghub.elsevier.com/retrieve/pii/S0006349501761346},
doi = {10.1016/S0006-3495(01)76134-6},
issn = {00063495},
year = {2001},
date = {2001-04-01},
journal = {Biophysical Journal},
volume = {80},
number = {4},
pages = {1617--1630},
publisher = {Cell Press},
abstract = {Time-resolved photovoltage measurements on destacked photosystem II membranes from spinach with the primary quinone electron acceptor QA either singly or doubly reduced have been performed to monitor the time evolution of the primary radical pair P680+Pheo−. The maximum transient concentration of the primary radical pair is about five times larger and its decay is about seven times slower with doubly reduced compared with singly reduced QA. The possible biological significance of these differences is discussed. On the basis of a simple reversible reaction scheme, the measured apparent rate constants and relative amplitudes allow determination of sets of molecular rate constants and energetic parameters for primary reactions in the reaction centers with doubly reduced QA as well as with oxidized or singly reduced QA. The standard free energy difference $Delta$G° between the charge-separated state P680+Pheo− and the equilibrated excited state (ChlNP680)* was found to be similar when QA was oxidized or doubly reduced before the flash (∼−50 meV). In contrast, single reduction of QA led to a large change in $Delta$G° (∼+40 meV), demonstrating the importance of electrostatic interaction between the charge on QA and the primary radical pair, and providing direct evidence that the doubly reduced QA is an electrically neutral species, i.e., is doubly protonated. A comparison of the molecular rate constants shows that the rate of charge recombination is much more sensitive to the change in $Delta$G° than the rate of primary charge separation.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dubiel, M; Dobek, Andrzej; Breborowicz, G; Marsal, K; Gudmundsson, S
Comparison of power Doppler and velocimetry in predicting outcome of high-risk pregnancy. Journal Article
In: European Journal of Ultrasound, vol. 12, no. 3, pp. 197–202, 2001, ISSN: 0929-8266.
@article{Dubiel2001,
title = {Comparison of power Doppler and velocimetry in predicting outcome of high-risk pregnancy.},
author = {M Dubiel and Andrzej Dobek and G Breborowicz and K Marsal and S Gudmundsson},
url = {http://www.ncbi.nlm.nih.gov/pubmed/11423243},
issn = {0929-8266},
year = {2001},
date = {2001-03-01},
journal = {European Journal of Ultrasound},
volume = {12},
number = {3},
pages = {197--202},
abstract = {OBJECTIVE Prospectively evaluate semi-quantitative computer analysis of power Doppler (PD) signals in the placenta, tetal brain, lung, liver, kidney and spleen in high-risk pregnancies in relationship to perinatal outcome and also to compare tissue blood flow in the fetal brain and placenta with Doppler velocimetry. METHODS PD signals were recorded in 180 high-risk pregnancies between 27 and 41 weeks of gestation. Images from PD angiographic scans were transmitted for computer analysis of pixel intensity. Mean flow signal intensity was recorded for each organ. The PD brain/lung ratio was calculated. The PD results were plotted on reference values and related to perinatal outcome. Middle cerebral (MCA), umbilical (UA) and uterine artery (Ut. A) velocimetry was also performed. RESULTS High-risk pregnancies displayed lower PD signal intensity from the placenta, fetal lung, liver and kidney as compared to normals. However, the brain and spleen signals showed higher intensities suggesting increased tissue perfusion. PD signals from the fetal brain, lung, placenta and PD brain/lung ratio were correlated with perinatal outcome. The PD signal intensity from the fetal liver, kidney and spleen showed poor correlation with perinatal outcome. Fetal brain tissue blood flow showed better correlation with the outcome than MCA velocimetry. Placental tissue blood flow results were similar in predicting outcome to those obtained by means of UA and Ut. A velocimetry. CONCLUSION In comparison with conventional Doppler velocimetry, computer analysis of PD signals, give similar results in the prediction of adverse perinatal outcome.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Porzucek, Iwona; Dubiel, Mariusz; Bręborowicz, Grzegorz H; Dobek, Andrzej; Gadzinowski, Janusz; Gudmundsson, Saemundur
Brain power Doppler in healthy and hypoxic neonates Journal Article
In: Archives of Perinatal Medicine, vol. 7, no. 2, pp. 44–46, 2001.
@article{Porzucek2001,
title = {Brain power Doppler in healthy and hypoxic neonates},
author = {Iwona Porzucek and Mariusz Dubiel and Grzegorz H Bręborowicz and Andrzej Dobek and Janusz Gadzinowski and Saemundur Gudmundsson},
url = {http://www.ptmp.com.pl/archives/apm/7-2/apm72_9.htm},
year = {2001},
date = {2001-01-01},
journal = {Archives of Perinatal Medicine},
volume = {7},
number = {2},
pages = {44--46},
abstract = {The aim: was to investigate cerebral tissue blood flow in healthy term-born neonates and in neonates born with signs of asphyxia by means of power Doppler (PD) technique in early stage of life. 38 healthy neonates were enrolled, born between 38 and 42 week of gestation (median 39 week). Examinations were also performed in 22 neonates born with signs of intra-uterine asphyxia. The median gestational age at delivery was 35 weeks (range 34-38). During longitudinal study each patient was examined 5 times: one hour after delivery and than after 12, 24, 48, 72 hours during stable periods without vigorous movements. Each ultrasound examination included PD recordings and Doppler velocimetry. PD recordings were performed in 6 planes. The PD signal in hypoxic neonates shown significantly higher signal values as compared to control group. The PD signal in hypoxic neonates shown significantly higher signal values as compared to control group. This indicates the brain-sparing effect, which lasts at least 72 hours after birth and might be the continuation of the brain-sparing effect in utero.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dobek, Andrzej; Gibasiewicz, Krzysztof; Naskrecki, Ryszard; Lorenc, Maciej; Ziolek, Marcin; Kubicki, Jacek; Karolczak, Jerzy; Goc, Jacek; Miyake, J
In: 12th International Congress on Photosynthesis, CSIRO PUBLISHING, Brisbane, 2001.
@inproceedings{Dobek2001,
title = {Transient absorption studies of the reaction center of the photosynthetic bacterium Rb. sphaeroides R-26 in the blue spectral range},
author = {Andrzej Dobek and Krzysztof Gibasiewicz and Ryszard Naskrecki and Maciej Lorenc and Marcin Ziolek and Jacek Kubicki and Jerzy Karolczak and Jacek Goc and J Miyake},
url = {http://www.publish.csiro.au/SA/SA0403351},
doi = {10.1071/SA0403351},
year = {2001},
date = {2001-01-01},
booktitle = {12th International Congress on Photosynthesis},
publisher = {CSIRO PUBLISHING},
address = {Brisbane},
abstract = {Transient absorption spectroscopy (with 120 fs time resolution) was applied to measure at room temperature the electron transfer in the reaction center of the purple photosynthetic bacterium Rb. sphaeroides R-26. Absorption changes were measured in the range from 400 nm up to 680 nm, after excitation with a laser pulse of 80 fs duration at 800 nm. The absorbance changes characteristic of the excited state of the primary donor and extending over the whole spectral range investigated, appeared within 120 fs. They gave rise to the bleaching of the Qx absorption band of bacteriochlorophyll at 600 nm, increased further by electron transfer to bacteriopheophytin in ~ 3 ps. Photoreduction of the bacteriopheophytin acceptor detected at 546 nm and 670 nm proceeded with the same time constant. Relatively the largest were multiphase absorbance changes in the blue spectral range between 415 nm and 450 nm. Apart from the immediate absorbance increase due to excitation of the primary donor, another fast increasing phase was detected, characterized by a wavelength dependent time constant ¿ from ~ 5.5 ps at 415 nm to ~ 1.9 ps at 450 nm. Both the photooxidized primary donor and photoreduced bacteriopheophytin contributed to the amplitude of this phase. The electron transfer from the reduced bacteriopheophytin to a quinone acceptor was observed as a decrease in the intensity of the transient absorption bands at about 422 nm and at 670 nm, with disappearance of the bleaching at 546 nm and increase of the bleaching at 600 nm, all in ~ 200 ps.},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Hołderna-Natkaniec, Krystyna; Kasperkowiak, W; Natkaniec, I; Ślósarek, Genowefa
Spectroscopy of Kinetin Journal Article
In: Molecular Physics Reports, vol. 34, no. 2, pp. 61–64, 2001.
@article{Hoderna-Natkaniec2001,
title = {Spectroscopy of Kinetin},
author = {Krystyna Hołderna-Natkaniec and W Kasperkowiak and I Natkaniec and Genowefa Ślósarek},
year = {2001},
date = {2001-01-01},
journal = {Molecular Physics Reports},
volume = {34},
number = {2},
pages = {61--64},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
ł Popenda,; Utrecht, R; Ślósarek, Genowefa; Hołderna-Natkaniec, Krystyna; Wąsicki, J
1H NMR Relaxation and Spectroscopy of Kinetin Journal Article
In: Molecular Physics Reports, vol. 33, pp. 114–117, 2001.
@article{Popenda2001,
title = {1H NMR Relaxation and Spectroscopy of Kinetin},
author = {ł Popenda and R Utrecht and Genowefa Ślósarek and Krystyna Hołderna-Natkaniec and J Wąsicki},
year = {2001},
date = {2001-01-01},
journal = {Molecular Physics Reports},
volume = {33},
pages = {114--117},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ślósarek, Genowefa
NMR of peptides Journal Article
In: Molecular Physics Reports, vol. 34, no. 2, pp. 48–54, 2001.
@article{Slosarek2001,
title = {NMR of peptides},
author = {Genowefa Ślósarek},
year = {2001},
date = {2001-01-01},
journal = {Molecular Physics Reports},
volume = {34},
number = {2},
pages = {48--54},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gibasiewicz, Krzysztof; Naskrecki, R; Ziółek, M; Lorenc, M; Karolczak, J; Kubicki, J; Goc, J; Miyake, J; Dobek, Andrzej
In: Journal of Fluorescence, vol. 11, no. 1, pp. 33–40, 2001, ISSN: 10530509.
@article{Gibasiewicz2001bb,
title = {Electron Transfer in the Reaction Center of the Photosynthetic Bacterium Rb. sphaeroides R-26 Measured by Transient Absorption in the Blue Spectral Range},
author = {Krzysztof Gibasiewicz and R Naskrecki and M Ziółek and M Lorenc and J Karolczak and J Kubicki and J Goc and J Miyake and Andrzej Dobek},
url = {http://link.springer.com/10.1023/A:1016695515341},
doi = {10.1023/A:1016695515341},
issn = {10530509},
year = {2001},
date = {2001-01-01},
journal = {Journal of Fluorescence},
volume = {11},
number = {1},
pages = {33--40},
publisher = {Kluwer Academic Publishers-Plenum Publishers},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2000
Liu, Hui; Gapiński, Jacek; Skibinska, Lidia; Patkowski, Adam; Pecora, R
Effect of electrostatic interactions on the dynamics of semiflexible monodisperse DNA fragments Journal Article
In: The Journal of Chemical Physics, vol. 113, no. 14, pp. 6001–6010, 2000, ISSN: 0021-9606.
@article{Liu2000,
title = {Effect of electrostatic interactions on the dynamics of semiflexible monodisperse DNA fragments},
author = {Hui Liu and Jacek Gapiński and Lidia Skibinska and Adam Patkowski and R Pecora},
url = {http://aip.scitation.org/doi/abs/10.1063/1.1290477 http://aip.scitation.org/doi/10.1063/1.1290477},
doi = {10.1063/1.1290477},
issn = {0021-9606},
year = {2000},
date = {2000-10-01},
journal = {The Journal of Chemical Physics},
volume = {113},
number = {14},
pages = {6001--6010},
publisher = {American Institute of Physics},
abstract = {The dynamics of three monodisperse linear duplex DNA fragments—a 2311 base pair restriction fragment and 1500 and 1100 base pair polymerase chain reaction fragments—in dilute solution are studied as functions of added salt (NaCl) concentration by dynamic light scattering-photon correlation spectroscopy. Translational diffusion coefficients and intramolecular relaxation times are extracted from the measured light scattering intensity time autocorrelation functions as the added salt concentration is reduced from 100 mM to approximately 0.1 mM. The relaxation times of the first intramolecular mode increase as the added salt concentration is lowered. The dependence of the translational diffusion coefficient D on the added salt concentration is not very large, although it exhibits a maximum for all three fragments. The maximum is interpreted as the consequence of two opposing effects—the stiffening of the molecule that produces an increase of the size (decrease of D) as the added salt concentration is lowered,...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Paluch, Marian; Patkowski, Adam; Fischer, Erhard W
Temperature and Pressure Scaling of the alpha Relaxation Process in Fragile Glass Formers: A Dynamic Light Scattering Study Journal Article
In: Physical Review Letters, vol. 85, no. 10, pp. 2140–2143, 2000, ISSN: 0031-9007.
@article{Paluch2000,
title = {Temperature and Pressure Scaling of the alpha Relaxation Process in Fragile Glass Formers: A Dynamic Light Scattering Study},
author = {Marian Paluch and Adam Patkowski and Erhard W Fischer},
url = {http://www.ncbi.nlm.nih.gov/pubmed/10970482 https://link.aps.org/doi/10.1103/PhysRevLett.85.2140},
doi = {10.1103/PhysRevLett.85.2140},
issn = {0031-9007},
year = {2000},
date = {2000-09-01},
journal = {Physical Review Letters},
volume = {85},
number = {10},
pages = {2140--2143},
abstract = {The dynamics of two fragile glass forming liquids was studied as a function of temperature and pressure using dynamic light scattering. On the basis of measured data we evaluated the pressure and temperature scaling of the alpha relaxation. All the isotherms can be superimposed and form a master curve when the reduced relaxation times are plotted versus reduced pressure. The Kohlrausch-Williams-Watts stretching parameter beta(KWW) is increasing with increasing temperature and decreasing pressure and plotted versus logtextlesstau(KWW)textgreater follows a master curve at all temperatures and pressures studied.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Aouadi, A; Dreyfus, C; Massot, M; Pick, R M; Berger, T; Steffen, W; Patkowski, Adam; Alba-Simionesco, C
Light scattering study of the liquid–glass transition of meta-toluidine Journal Article
In: The Journal of Chemical Physics, vol. 112, no. 22, pp. 9860–9873, 2000, ISSN: 0021-9606.
@article{Aouadi2000,
title = {Light scattering study of the liquid–glass transition of meta-toluidine},
author = {A Aouadi and C Dreyfus and M Massot and R M Pick and T Berger and W Steffen and Adam Patkowski and C Alba-Simionesco},
url = {http://aip.scitation.org/doi/abs/10.1063/1.481642 http://aip.scitation.org/doi/10.1063/1.481642},
doi = {10.1063/1.481642},
issn = {0021-9606},
year = {2000},
date = {2000-06-01},
journal = {The Journal of Chemical Physics},
volume = {112},
number = {22},
pages = {9860--9873},
publisher = {American Institute of Physics},
abstract = {An experimental study of the glass transition of meta-toluidine combining several light scattering techniques was performed. The structural relaxation time is measured in depolarized geometry from the glass transition temperature up to well above the melting point and found to vary over 13 time decades. An analysis by means of the idealized Mode Coupling Theory shows that, as found in other aromatic liquids, experimental results obtained in depolarized light scattering can be described by this theory above Tc in a two-decade frequency range. The polarized Brillouin doublet, measured in the backscattering geometry between 176 K and 300 K, is also analyzed. None of the sets of parameters we obtained in fitting those spectra could fulfil all the requirements of this Mode Coupling Theory.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Thurn-Albrecht, T; Banachowicz, Ewa; Steffen, W; Boesecke, P; Narayanan, T; Fischer, E W
Long-range density fluctuations in orthoterphenyl as studied by means of ultrasmall-angle x-ray scattering. Journal Article
In: Physical review E, vol. 61, no. 6 Pt B, pp. 6909–13, 2000, ISSN: 1063-651X.
@article{Patkowski2000,
title = {Long-range density fluctuations in orthoterphenyl as studied by means of ultrasmall-angle x-ray scattering.},
author = {Adam Patkowski and T Thurn-Albrecht and Ewa Banachowicz and W Steffen and P Boesecke and T Narayanan and E W Fischer},
url = {http://www.ncbi.nlm.nih.gov/pubmed/11088383},
issn = {1063-651X},
year = {2000},
date = {2000-06-01},
journal = {Physical review E},
volume = {61},
number = {6 Pt B},
pages = {6909--13},
abstract = {The structure factor of a fragile glass-forming liquid orthoterphenyl was measured in the previously inaccessible intermediate q range between the conventional light scattering (LS) and small-angle x-ray scattering (SAXS) q ranges using the low-angle scattering beam line at the European Synchrotron Radiation Facility. At low q the structure factor exhibits an excess scattering and matches well the LS data. This excess scattering is due to long-range density fluctuations also observed in the isotropic component of scattered light. At high q the structure factor decays to a plateau corresponding to the isothermal compressibility in agreement with the conventional SAXS data. In the intermediate q range, the structure factor exhibits a power law q dependence which indicates that the excess scattering is due to fractal aggregates of denser domains.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Chesne, Alexander Du; Bojkova, Albena; Gapiński, Jacek; Seip, Detlef; Fischer, Paul
Film Formation and Redispersion of Waterborne Latex Coatings Journal Article
In: Journal of Colloid and Interface Science, vol. 224, no. 1, pp. 91–98, 2000, ISSN: 00219797.
@article{DuChesne2000,
title = {Film Formation and Redispersion of Waterborne Latex Coatings},
author = {Alexander Du Chesne and Albena Bojkova and Jacek Gapiński and Detlef Seip and Paul Fischer},
url = {http://www.ncbi.nlm.nih.gov/pubmed/10708497 http://linkinghub.elsevier.com/retrieve/pii/S0021979799966456},
doi = {10.1006/jcis.1999.6645},
issn = {00219797},
year = {2000},
date = {2000-04-01},
journal = {Journal of Colloid and Interface Science},
volume = {224},
number = {1},
pages = {91--98},
abstract = {Poly(vinyl acetate-co-ethylene) latex dispersions are prepared and their films investigated with a focus on the effect of composition upon redispersion. Films of dispersions containing sufficient amounts of poly(vinyl alcohol) (PVA) can be redispersed in water. This property is lost in the presence of surfactant, a fact which suggests a procedure to control film formation. It is demonstrated that redispersion is due to a PVA-membrane which separates the particles. Loss of redispersibility in the presence of surfactant proceeds with the breakup of the membranes and a corresponding change of film properties. Experimental data is provided by light microscopy, mechanical testing, and TEM in conjunction with a staining method new to the field. The hypothesis is developed that interaction with surfactant leads to imperfect PVA-membranes that are no longer able to prevent latex polymer interdiffusion. Fluorescence correlation spectroscopy demonstrates the formation of surfactant micelles, as well as the simultaneous adsorption and aggregation of PVA onto the micelles. It is concluded that the competing surface of the surfactant micelles traps enough PVA to cause thinning and fragmentation of the membranes surrounding the particles, which enables interdiffusion of latex polymer. This effect can be used to convert the system from one forming a redispersible coating to one forming a nonredispersible (permanent) film. Copyright 2000 Academic Press.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dubiel, Mariusz; Bręborowicz, Grzegorz H; Dobek, Andrzej; Marsal, Karel; Gudmundsson, Saemundur
Placental power Doppler imaging and velocimetry in high-risk pregnancy - a prospective study Journal Article
In: Archives of Perinatal Medicine, vol. 6, no. 1, 2000.
@article{Dubiel2000,
title = {Placental power Doppler imaging and velocimetry in high-risk pregnancy - a prospective study},
author = {Mariusz Dubiel and Grzegorz H Bręborowicz and Andrzej Dobek and Karel Marsal and Saemundur Gudmundsson},
year = {2000},
date = {2000-01-01},
journal = {Archives of Perinatal Medicine},
volume = {6},
number = {1},
abstract = {Objective: The aim of the study was to prospectively evaluate semiquantitative computer analysis of power Doppler (PD) signals in placenta in high-risk pregnancies in relationship with perinatal outcome and also to compare placental tissue blood flow with umbilical and uterine arteries velocimetry. Study design: PD signals were recorded in 107 high-risk pregnancies between 27 and 41 weeks of gestation. Images from PD scans were transmitted for computer analysis. Mean flow signal intensity was recorded for placental flow. The PD results were plotted on reference values and related to perinatal outcome. Umbilical (UA) and uterine artery (Ut. A) velocimetry were also performed. Results: High-risk pregnancies had less placental PD signal intensity as compared to normals. Placental PD had similar prediction for adverse perinatal outcome as did conventional Doppler velocimetry findings. Conclusion: The results from the present study indicate a decreased placental perfusion in high-risk pregnancies, which is concordant with conventional Doppler velocimetry findings.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Banachowicz, Ewa; Gapiński, Jacek; Patkowski, Adam
Solution Structure of Biopolymers: A New Method of Constructing a Bead Model Journal Article
In: Biophysical Journal, vol. 78, no. 1, pp. 70–78, 2000, ISSN: 00063495.
@article{Banachowicz2000,
title = {Solution Structure of Biopolymers: A New Method of Constructing a Bead Model},
author = {Ewa Banachowicz and Jacek Gapiński and Adam Patkowski},
url = {http://www.ncbi.nlm.nih.gov/pubmed/10620274 http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=PMC1300618 http://linkinghub.elsevier.com/retrieve/pii/S0006349500765738},
doi = {10.1016/S0006-3495(00)76573-8},
issn = {00063495},
year = {2000},
date = {2000-01-01},
journal = {Biophysical Journal},
volume = {78},
number = {1},
pages = {70--78},
publisher = {The Biophysical Society},
abstract = {We propose a new, automated method of converting crystallographic data into a bead model used for the calculations of hydrodynamic properties of rigid macromolecules. Two types of molecules are considered: nucleic acids and small proteins. A bead model of short DNA fragments has been constructed in which each nucleotide is represented by two identical, partially overlapping spheres: one for the base and one for the sugar and phosphate group. The optimum radius sigma = 5.0 A was chosen on the basis of a comparison of the calculated translational diffusion coefficients (D(T)) and the rotational relaxation times (tau(R)) with the corresponding experimental data for B-DNA fragments of 8, 12, and 20 basepairs. This value was assumed for the calculation D(T) and tau(R) of tRNA(Phe). Better agreement with the experimental data was achieved for slightly larger sigma = 5.7 A. A similar procedure was applied to small proteins. Bead models were constructed such that each amino acid was represented by a single sphere or a pair of identical, partially overlapping spheres, depending on the amino acid's size. Experimental data of D(T) of small proteins were used to establish the optimum value of sigma = 4.5 A for amino acids. The lack of experimental data on tau(R) for proteins restricted the tests to the translational diffusion properties.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
1999
Gibasiewicz, Krzysztof; Brettel, K; Dobek, Andrzej; Leibl, W
Re-examination of primary radical pair recombination in Rp. viridis with QA reduced Journal Article
In: Chemical Physics Letters, vol. 315, no. 1-2, pp. 95–102, 1999, ISSN: 00092614.
@article{Gibasiewicz1999,
title = {Re-examination of primary radical pair recombination in Rp. viridis with QA reduced},
author = {Krzysztof Gibasiewicz and K Brettel and Andrzej Dobek and W Leibl},
url = {https://www.sciencedirect.com/science/article/pii/S0009261499011586 http://linkinghub.elsevier.com/retrieve/pii/S0009261499011586},
doi = {10.1016/S0009-2614(99)01158-6},
issn = {00092614},
year = {1999},
date = {1999-12-01},
journal = {Chemical Physics Letters},
volume = {315},
number = {1-2},
pages = {95--102},
publisher = {North-Holland},
abstract = {Charge recombination in the primary radical pair P+H− of the purple photosynthetic bacterium Rp. viridis with pre-reduced secondary acceptor QA, has been studied by time-resolved photovoltage measurements and transient absorption spectroscopy with a time resolution of 1 ns. The lifetime of P+H− was found to be 2.4–3 ns in intact membranes and ∼5 ns in isolated reaction centers, in contrast to a lifetime of ∼15 ns which has been widely accepted in the literature for reaction centers. The origin of the difference between lifetimes of P+H− in membranes and isolated reaction centers is discussed.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Comez, L; Fioretto, Daniele; Palmieri, L; Verdini, L; Corezzi, Silvia; Gapiński, Jacek; Patkowski, Adam; Steffen, W; Fischer, Edgar W
Dielectric and light scattering analysis of the alpha-relaxation of an epoxy system Inproceedings
In: Wlochowicz, Andrzej (Ed.): pp. 120–124, International Society for Optics and Photonics, 1999.
@inproceedings{Comez1999,
title = {Dielectric and light scattering analysis of the alpha-relaxation of an epoxy system},
author = {L Comez and Daniele Fioretto and L Palmieri and L Verdini and Silvia Corezzi and Jacek Gapiński and Adam Patkowski and W Steffen and Edgar W Fischer},
editor = {Andrzej Wlochowicz},
url = {http://proceedings.spiedigitallibrary.org/proceeding.aspx?articleid=901388},
doi = {10.1117/12.373694},
year = {1999},
date = {1999-12-01},
volume = {4017},
pages = {120--124},
publisher = {International Society for Optics and Photonics},
abstract = {The dynamics of an epoxy compound has been studied by wideband dielectric spectroscopy and light scattering above the glass transition temperature, Tg. A change of diffusion mechanism in the supercooled liquids has been recognized some tens of degrees above the glass transition, where a change in the temperature behavior of the main relaxation time occurs, together with the splitting of the structural and secondary relaxations and deviation from the Stokes-Einstein-Debye diffusion law. The light scattering results can be interpreted in terms of a correlation length for the structural relaxation which increases for decreasing temperature.},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Comez, L; Fioretto, D; Palmieri, L; Verdini, L; Rolla, P A; Gapiński, Jacek; Pakula, T; Patkowski, Adam; Steffen, W; Fischer, E W
Light-scattering study of a supercooled epoxy resin Journal Article
In: Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics, vol. 60, no. 3, pp. 3086–96, 1999, ISSN: 1063-651X.
@article{Comez1999a,
title = {Light-scattering study of a supercooled epoxy resin},
author = {L Comez and D Fioretto and L Palmieri and L Verdini and P A Rolla and Jacek Gapiński and T Pakula and Adam Patkowski and W Steffen and E W Fischer},
url = {http://www.ncbi.nlm.nih.gov/pubmed/11970116},
issn = {1063-651X},
year = {1999},
date = {1999-09-01},
journal = {Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics},
volume = {60},
number = {3},
pages = {3086--96},
abstract = {The dynamics of the fragile glass-forming liquid diglycidyl ether of bisphenol-A was studied by depolarized Rayleigh-Brillouin light-scattering and photon correlation spectroscopy above the glass transition, in the temperature range from 261 to 473 K and in the frequency range from 1 Hz to 300 GHz. The structural (alpha-) relaxation process was revealed and no signature of the secondary relaxation previously evidenced by dielectric spectroscopy at about 0.1 GHz was observed. The characteristic time of the alpha process differs from that determined by dielectric spectroscopy of an amount, which increases with increasing temperature. The relaxation times were compared with viscosity data to test the predictions of the classic Stokes-Einstein-Debye model. The tau proportional, variant eta behavior was verified for dielectric data, while a fractional power law of viscosity tau proportional, variant eta(0.89) was obtained for light-scattering relaxation times, extending over more than seven decades in viscosity and time. This deviation of light scattering from viscosity data could be interpreted in terms of cooperative motion in the supercooled liquid with a characteristic length xi(a) proportional, variant(T-T0)(-v) where T(0)=229 K is the Vogel temperature and v is close to 2 / 3 which is consistent with the prediction of the fluctuation theory of glass transition.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Vass, Sz; Patkowski, Adam; Fischer, E W; Suvegh, K; Vertes, A
Positron annihilation study of a low-molecular-weight organic glass-forming liquid (BMMPC) Journal Article
In: Europhysics Letters (EPL), vol. 46, no. 6, pp. 815–820, 1999, ISSN: 0295-5075.
@article{Vass1999,
title = {Positron annihilation study of a low-molecular-weight organic glass-forming liquid (BMMPC)},
author = {Sz Vass and Adam Patkowski and E W Fischer and K Suvegh and A Vertes},
url = {http://stacks.iop.org/0295-5075/46/i=6/a=815?key=crossref.98a693291d44d9ebe7550d7a50a4db8e},
doi = {10.1209/epl/i1999-00337-8},
issn = {0295-5075},
year = {1999},
date = {1999-06-01},
journal = {Europhysics Letters (EPL)},
volume = {46},
number = {6},
pages = {815--820},
publisher = {IOP Publishing},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dreyfus, C; Aouadi, A; Pick, R M; Berger, T; Patkowski, Adam; Steffen, W
Light scattering by transverse waves in supercooled liquids and application to metatoluidine Journal Article
In: The European Physical Journal B, vol. 9, no. 3, pp. 401–419, 1999, ISSN: 1434-6028.
@article{Dreyfus1999,
title = {Light scattering by transverse waves in supercooled liquids and application to metatoluidine},
author = {C Dreyfus and A Aouadi and R M Pick and T Berger and Adam Patkowski and W Steffen},
url = {http://link.springer.com/10.1007/s100510050783},
doi = {10.1007/s100510050783},
issn = {1434-6028},
year = {1999},
date = {1999-06-01},
journal = {The European Physical Journal B},
volume = {9},
number = {3},
pages = {401--419},
publisher = {EDP Sciences},
abstract = {We discuss the hydrodynamic equations which describe the shear dynamics of a liquid composed of anisotropic molecules, both in its normal and its supercooled phases. We use these equations to analyze 90° depolarized light scattering experiments performed in the supercooled phase of a glass forming liquid, metatoluidine, and show that the information extracted from this analysis is consistent with independent shear viscosity measurements performed on that liquid in the same temperature range.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dobryszycki, P; Rymarczuk, M; Gapiński, Jacek; Kochman, M
Effect of acrylamide on aldolase structure. II. Characterization of aldolase unfolding intermediates. Journal Article
In: Biochimica et biophysica acta, vol. 1431, no. 2, pp. 351–62, 1999, ISSN: 0006-3002.
@article{Dobryszycki1999,
title = {Effect of acrylamide on aldolase structure. II. Characterization of aldolase unfolding intermediates.},
author = {P Dobryszycki and M Rymarczuk and Jacek Gapiński and M Kochman},
url = {http://www.ncbi.nlm.nih.gov/pubmed/10350611},
issn = {0006-3002},
year = {1999},
date = {1999-05-01},
journal = {Biochimica et biophysica acta},
volume = {1431},
number = {2},
pages = {351--62},
abstract = {Molecules of muscle aldolase A exposed to acrylamide change their conformation via I1, T, I2, D intermediates [1] and undergo a slow irreversible chemical modification of thiol groups. There is no direct correlation between activity loss and thiol groups modification. In the native enzyme two classes of Trp residues of 1. 8 ns and 4.9 ns fluorescence lifetime have been found. Acrylamide (0. 2-0.5 M) increases lifetime of longer-lived component, yet the transfer of aldolase molecules even from higher (1.0 M) perturbant concentration to a buffer, allows regain original Trp fluorescence lifetime. I1, detected at about 0.2 M acrylamide, represents low populated tetramers of preserved enzyme activity. T, of maximum population at about 0.7-1.0 M acrylamide, consists of meta-stable tetramers of partial enzymatic activity. These molecules are able to exchange their subunits with aldolase C in opposition to the native molecules. At transition point for I2 appearance (1.8 M acrylamide), aldolase becomes highly unstable: part of molecules dissociate into subunits which in the absence of perturbant are able to reassociate into active tetramers, the remaining part undergoes irreversible denaturation and aggregation. Some expansion of aldolase tetramers takes place prior to dissociation. D, observed above 3.0 M acrylamide, consists of irreversibly denatured enzyme molecules.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gapiński, Jacek; Steffen, W; Patkowski, Adam; Sokolov, A P; Kisliuk, A; Buchenau, U; Russina, M; Mezei, F; Schober, H
Spectrum of fast dynamics in glass forming liquids: Does the “knee” exist? Journal Article
In: The Journal of Chemical Physics, vol. 110, no. 5, pp. 2312–2315, 1999, ISSN: 0021-9606.
@article{Gapinski1999,
title = {Spectrum of fast dynamics in glass forming liquids: Does the “knee” exist?},
author = {Jacek Gapiński and W Steffen and Adam Patkowski and A P Sokolov and A Kisliuk and U Buchenau and M Russina and F Mezei and H Schober},
url = {http://aip.scitation.org/doi/abs/10.1063/1.477966 http://aip.scitation.org/doi/10.1063/1.477966},
doi = {10.1063/1.477966},
issn = {0021-9606},
year = {1999},
date = {1999-02-01},
journal = {The Journal of Chemical Physics},
volume = {110},
number = {5},
pages = {2312--2315},
publisher = {American Institute of Physics},
abstract = {A knee-shaped feature observed earlier in light scattering spectra of Ca0.4K0.3(NO3)1.4 (CKN) below Tc is used as a strong argument in favor of mode-coupling theory of the glass transition (MCT). Our careful measurements reveal no “knee” in the spectra of two glass forming liquids, CKN and ortho-terphenyl. Instead of the knee the spectra show nontrivial broadening and an increase of the intensity with a temperature increase. Both variations are confirmed by neutron scattering measurements on CKN and are neither expected in the asymptotic MCT predictions nor in any other model.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ślósarek, Genowefa
Aktyna Incollection
In: Koroniak, H; Barciszewski, Jan (Ed.): Na pograniczu Chemii i Biologii, pp. 249–276, Wydawnictwo Naukowe Uniwersytetu im. Adama Mickiewicza, Poznań○, 1999.
@incollection{Slosarek1999,
title = {Aktyna},
author = {Genowefa Ślósarek},
editor = {H Koroniak and Jan Barciszewski},
year = {1999},
date = {1999-01-01},
booktitle = {Na pograniczu Chemii i Biologii},
pages = {249--276},
publisher = {Wydawnictwo Naukowe Uniwersytetu im. Adama Mickiewicza},
address = {Poznań○},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
Mucha, Piotr; Szyk, Agnieszka; Rekowski, Piotr; Kupryszewski, Gotfryd; Ślósarek, Genowefa; Barciszewski, Jan
Conformation of Systemin, a Polypeptide Activator of Proteinase Inhibitor Synthesis in Plants Journal Article
In: Collection of Czechoslovak Chemical Communications, vol. 64, no. 3, pp. 553–558, 1999, ISSN: 0010-0765.
@article{Mucha1999,
title = {Conformation of Systemin, a Polypeptide Activator of Proteinase Inhibitor Synthesis in Plants},
author = {Piotr Mucha and Agnieszka Szyk and Piotr Rekowski and Gotfryd Kupryszewski and Genowefa Ślósarek and Jan Barciszewski},
url = {http://cccc.uochb.cas.cz/64/3/0553/},
doi = {10.1135/cccc19990553},
issn = {0010-0765},
year = {1999},
date = {1999-01-01},
journal = {Collection of Czechoslovak Chemical Communications},
volume = {64},
number = {3},
pages = {553--558},
publisher = {Institute of Organic Chemistry and Biochemistry AS CR, v.v.i.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Włodarczyk, Agnieszka; Gapiński, Jacek; Patkowski, Adam; Dobek, Andrzej
Structural polymorphism of telomeres studied by photon correlation spectroscopy. Journal Article
In: Acta Biochimica Polonica, vol. 46, no. 3, pp. 609-613, 1999, ISSN: 0001-527X.
@article{Wodarczyk1999,
title = {Structural polymorphism of telomeres studied by photon correlation spectroscopy.},
author = {Agnieszka Włodarczyk and Jacek Gapiński and Adam Patkowski and Andrzej Dobek},
url = {http://www.ncbi.nlm.nih.gov/pubmed/10698269},
issn = {0001-527X},
year = {1999},
date = {1999-01-01},
journal = {Acta Biochimica Polonica},
volume = {46},
number = {3},
pages = {609-613},
abstract = {Photon Correlation Spectroscopy (PCS) was used to study the dynamics and structure of Tetrahymena telomeric sequence d(5'-TGGGGT-3')4. Two different modes were observed, corresponding to the following structures: intermolecular (tetramolecular) G-quadruplex and intramolecular (monomeric) G-quartet. Experimental values of translational diffusion coefficients DT were obtained for each structural form. The value of DT for the monomer equals to 1.4 x 10(6) (cm2/s), while for the tetramolecular structure, to 0.8 x 10(6) (cm2/s). The relative weight concentrations of these two forms were analyzed versus the concentration of NaCl varied from 10 mM to 500 mM. The values of experimentally determined diffusion coefficients were compared with those calculated assuming the "bead model" and with the atomic coordinates from the NMR and X-ray crystallographic data. For both structures the experimental and calculated values of DT were in reasonable agreement. In the entire NaCl concentration range studied, the contribution of the relative weight concentration of the monomeric telomere form changed from 85% for 10 mM NaCl to 60% for 500 mM NaCl.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Skibinska, Lidia; Gapiński, Jacek; Liu, Hui; Patkowski, Adam; Fischer, Erhard W; Pecora, R
Effect of electrostatic interactions on the structure and dynamics of a model polyelectrolyte. II. Intermolecular correlations Journal Article
In: The Journal of Chemical Physics, vol. 110, no. 3, pp. 1794–1800, 1999, ISSN: 0021-9606.
@article{Skibinska1999,
title = {Effect of electrostatic interactions on the structure and dynamics of a model polyelectrolyte. II. Intermolecular correlations},
author = {Lidia Skibinska and Jacek Gapiński and Hui Liu and Adam Patkowski and Erhard W Fischer and R Pecora},
url = {http://aip.scitation.org/doi/abs/10.1063/1.477887 http://aip.scitation.org/doi/10.1063/1.477887},
doi = {10.1063/1.477887},
issn = {0021-9606},
year = {1999},
date = {1999-01-01},
journal = {The Journal of Chemical Physics},
volume = {110},
number = {3},
pages = {1794--1800},
publisher = {American Institute of Physics},
abstract = {The peak in the small angle x-ray scattering and the dynamic light-scattering slow mode for a 20 base-pair duplex oligonucleotide (“B-DNA”) are studied as functions of oligonucleotide and added-salt (NaCl) concentrations. Both the x-ray peak intensity and the relative intensity of the slow mode decrease as the added-salt concentration is increased. The hydrodynamic radius of the slow mode increases as the added-salt concentration is decreased. The x-ray peak gradually disappears with increasing salt while the slow mode decreases in intensity, but still has some residual intensity at the highest added-salt concentration studied. There is no abrupt change in either the peak or the slow mode with increasing salt. The existence and behavior of both the x-ray peak and the slow mode indicate local ordering in the solution due to electrostatic forces. The x-ray peak position for the oligonucleotide is correlated with the static light-scattering peak seen by other workers for dilute solutions of larger polyions. ...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
1998
Liu, Hui; Skibinska, Lidia; Gapiński, Jacek; Patkowski, Adam; Fischer, Erhard W; Pecora, R
Effect of electrostatic interactions on the structure and dynamics of a model polyelectrolyte. I. Diffusion Journal Article
In: The Journal of Chemical Physics, vol. 109, no. 17, pp. 7556–7566, 1998, ISSN: 0021-9606.
@article{Liu1998,
title = {Effect of electrostatic interactions on the structure and dynamics of a model polyelectrolyte. I. Diffusion},
author = {Hui Liu and Lidia Skibinska and Jacek Gapiński and Adam Patkowski and Erhard W Fischer and R Pecora},
url = {http://aip.scitation.org/doi/10.1063/1.477377},
doi = {10.1063/1.477377},
issn = {0021-9606},
year = {1998},
date = {1998-11-01},
journal = {The Journal of Chemical Physics},
volume = {109},
number = {17},
pages = {7556--7566},
publisher = {American Institute of Physics},
abstract = {The dynamics of a 20 base pair oligonucleotide is studied by dynamic light scattering-photon correlation spectroscopy and depolarized Fabry–Perot interferometry. The 20 base pair oligonucleotide is a well-defined, albeit short, rigid rod molecule that serves as a model for polyelectrolyte solution dynamics. The effects of added salt on the solution rotational and translational dynamics are examined in detail as functions of the 20-mer concentration. Coupled mode theory together with counterion condensation theory gives good predictions for the effects of salt on the translational diffusion of the 20-mer at the relatively low oligonucleotide concentrations studied. Comparison of the experimental results with these theories shows that the effective charge density of the polyion in solution is approximately equal to the reciprocal of the product of the Bjerrum length and the counterion charge, $nu$eff≅1/N$łambda$B. Calculation shows that the numerical solution of the coupled mode theory matrix gives a better fit of ou...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Steffen, W; Fischer, E W.
Comments on `Relaxation dynamics in orthoterphenyl: comparing $beta$K from extended mode coupling theory and phenomenological analyses' Journal Article
In: Journal of Non-Crystalline Solids, vol. 235-237, pp. 268–270, 1998, ISSN: 00223093.
@article{Patkowski1998a,
title = {Comments on `Relaxation dynamics in orthoterphenyl: comparing $beta$K from extended mode coupling theory and phenomenological analyses'},
author = {Adam Patkowski and W Steffen and E W. Fischer},
url = {https://www.sciencedirect.com/science/article/pii/S0022309398006474 http://linkinghub.elsevier.com/retrieve/pii/S0022309398006474},
doi = {10.1016/S0022-3093(98)00647-4},
issn = {00223093},
year = {1998},
date = {1998-08-01},
journal = {Journal of Non-Crystalline Solids},
volume = {235-237},
pages = {268--270},
publisher = {North-Holland},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Paillotin, G; Leibl, W; Gapiński, Jacek; Breton, J; Dobek, Andrzej
Light Gradients in Spherical Photosynthetic Vesicles Journal Article
In: Biophysical Journal, vol. 75, no. 1, pp. 124–133, 1998, ISSN: 00063495.
@article{Paillotin1998,
title = {Light Gradients in Spherical Photosynthetic Vesicles},
author = {G Paillotin and W Leibl and Jacek Gapiński and J Breton and Andrzej Dobek},
url = {https://www.sciencedirect.com/science/article/pii/S0006349598775009 http://linkinghub.elsevier.com/retrieve/pii/S0006349598775009},
doi = {10.1016/S0006-3495(98)77500-9},
issn = {00063495},
year = {1998},
date = {1998-07-01},
journal = {Biophysical Journal},
volume = {75},
number = {1},
pages = {124--133},
publisher = {Cell Press},
abstract = {Light-gradient photovoltage measurements were performed on EDTA-treated thylakoids and on osmotically swollen thylakoids (blebs), both of spherical symmetry but of different sizes. In the case of EDTA vesicles, a negative polarity (due to the normal light gradient) was observed in the blue range of the absorption spectrum, and a positive polarity, corresponding to an inverse light gradient, was observed at $łambda$=530 and $łambda$=682nm. The sign of the photovoltage polarity measured in large blebs (swollen thylakoids) is the same as that obtained for whole chloroplasts, although differences in the amplitudes are observed. An approach based on the use of polar coordinates was adapted for a theoretical description of these membrane systems of spherical symmetry. The light intensity distribution and the photovoltage in such systems were calculated. Fits to the photovoltage amplitudes, measured as a function of light wavelength, made it possible to derive the values of the dielectric constant of the protein, ϵs=3, and the refractive index of the photosynthetic membrane for light propagating perpendicular and parallel to the membrane surface},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dreyfus, C; Aouadi, A; Pick, R M; Berger, T; Patkowski, Adam; Steffen, W
Light scattering measurement of shear viscosity in a fragile glass-forming liquid, metatoluidine Journal Article
In: Europhysics Letters (EPL), vol. 42, no. 1, pp. 55–60, 1998, ISSN: 0295-5075.
@article{Dreyfus1998,
title = {Light scattering measurement of shear viscosity in a fragile glass-forming liquid, metatoluidine},
author = {C Dreyfus and A Aouadi and R M Pick and T Berger and Adam Patkowski and W Steffen},
url = {http://stacks.iop.org/0295-5075/42/i=1/a=055?key=crossref.6fe7960e1ae53646913cca0cd4f82873},
doi = {10.1209/epl/i1998-00551-4},
issn = {0295-5075},
year = {1998},
date = {1998-04-01},
journal = {Europhysics Letters (EPL)},
volume = {42},
number = {1},
pages = {55--60},
publisher = {IOP Publishing},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dobek, Andrzej; Leibl, W; Gapiński, Jacek; Breton, J; Paillotin, G
Light gradient photovoltage in spherical photosynthetic vesicles Inproceedings
In: Gyozo, Garab (Ed.): Photosynthesis: Mechanisms and Effects. Proceeding of the XIth International Congress on Photosynthesis, pp. 309-312, Kluver Academic Publishers, Dordrecht/Boston/London, 1998.
@inproceedings{Dobek1998d,
title = {Light gradient photovoltage in spherical photosynthetic vesicles},
author = {Andrzej Dobek and W Leibl and Jacek Gapiński and J Breton and G Paillotin},
editor = {Garab Gyozo},
doi = {10.1007/978-94-011-3953-3},
year = {1998},
date = {1998-01-01},
booktitle = {Photosynthesis: Mechanisms and Effects. Proceeding of the XIth International Congress on Photosynthesis},
volume = {1},
pages = {309-312},
publisher = {Kluver Academic Publishers},
address = {Dordrecht/Boston/London},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Ślósarek, Genowefa
Własności sprężyste aktyny F Journal Article
In: Current Topics in Biophysics, vol. 22C, pp. 13–25, 1998.
@article{Slosarek1998,
title = {Własności sprężyste aktyny F},
author = {Genowefa Ślósarek},
year = {1998},
date = {1998-01-01},
journal = {Current Topics in Biophysics},
volume = {22C},
pages = {13--25},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ślósarek, Genowefa
Analiza strukturalna białek o dużej masie cząsteczkowej Journal Article
In: Current Topics in Biophysics, vol. 22A, pp. 40–43, 1998.
@article{Slosarek1998a,
title = {Analiza strukturalna białek o dużej masie cząsteczkowej},
author = {Genowefa Ślósarek},
year = {1998},
date = {1998-01-01},
journal = {Current Topics in Biophysics},
volume = {22A},
pages = {40--43},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Sadlik, E; Ślósarek, Genowefa
Metody optyczne w zastosowaniu do analizy strukturalnej białek Incollection
In: Koroniak, H; Barciszewski, Jan; Markiewicz, W; Ziemnicki, K (Ed.): Na pograniczu Chemii i Biologii, pp. 305–324, Wydawnictwo Naukowe Uniwersytetu im. Adama Mickiewicza, 1998.
@incollection{Sadlik1998,
title = {Metody optyczne w zastosowaniu do analizy strukturalnej białek},
author = {E Sadlik and Genowefa Ślósarek},
editor = {H Koroniak and Jan Barciszewski and W Markiewicz and K Ziemnicki},
year = {1998},
date = {1998-01-01},
booktitle = {Na pograniczu Chemii i Biologii},
pages = {305--324},
publisher = {Wydawnictwo Naukowe Uniwersytetu im. Adama Mickiewicza},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
Dobek, Andrzej
Dynamika pierwotnych procesów w fotosytnezie tlenowej Incollection
In: Koroniak, H; Barciszewski, J; Markiewicz, W; Ziemnicki, K (Ed.): Na Pograniczu Chemii i Biologii, pp. 283–304, Wydawnictwo Naukowe Uniwersytetu im. Adama Mickiewicza, 1998.
@incollection{Dobek1998b,
title = {Dynamika pierwotnych procesów w fotosytnezie tlenowej},
author = {Andrzej Dobek},
editor = {H Koroniak and J Barciszewski and W Markiewicz and K Ziemnicki},
year = {1998},
date = {1998-01-01},
booktitle = {Na Pograniczu Chemii i Biologii},
pages = {283--304},
publisher = {Wydawnictwo Naukowe Uniwersytetu im. Adama Mickiewicza},
chapter = {II},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
Dobek, Andrzej; Paillotin, G; Breton, Jacques; Leibl, Winfried
Light Gradients in Photosynthetic Systems of Spherical Symmetry: Theory and Experiment Journal Article
In: Current Topics in Biophysics, vol. 22, no. 1, pp. 3–20, 1998.
@article{Dobek1998a,
title = {Light Gradients in Photosynthetic Systems of Spherical Symmetry: Theory and Experiment},
author = {Andrzej Dobek and G Paillotin and Jacques Breton and Winfried Leibl},
year = {1998},
date = {1998-01-01},
journal = {Current Topics in Biophysics},
volume = {22},
number = {1},
pages = {3--20},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dobek, Andrzej
Pierwotne zjawiska fotosyntezy w świetle ultraszybkich badań fotonapięciowych Journal Article
In: Current Topics in Biophysics, vol. 22, no. Suplement, pp. 8–17, 1998.
@article{Dobek1998bb,
title = {Pierwotne zjawiska fotosyntezy w świetle ultraszybkich badań fotonapięciowych},
author = {Andrzej Dobek},
year = {1998},
date = {1998-01-01},
journal = {Current Topics in Biophysics},
volume = {22},
number = {Suplement},
pages = {8--17},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Specht, T; Ślósarek, Genowefa; Kalbitzer, H R; Erdmann, V A; Giel-Pietraszuk, M; Szymanski, M; Mucha, P; Rekowski, P; Kupryszewski, G; Barciszewski, J
The Tertiary Structure of Plant Peptide Hormone Systemin and the Mechanism of its Action Incollection
In: Plant Proteins from European Crops, pp. 41–47, Springer Berlin Heidelberg, Berlin, Heidelberg, 1998.
@incollection{Specht1998,
title = {The Tertiary Structure of Plant Peptide Hormone Systemin and the Mechanism of its Action},
author = {T Specht and Genowefa Ślósarek and H R Kalbitzer and V A Erdmann and M Giel-Pietraszuk and M Szymanski and P Mucha and P Rekowski and G Kupryszewski and J Barciszewski},
url = {http://link.springer.com/10.1007/978-3-662-03720-1_7},
doi = {10.1007/978-3-662-03720-1_7},
year = {1998},
date = {1998-01-01},
booktitle = {Plant Proteins from European Crops},
pages = {41--47},
publisher = {Springer Berlin Heidelberg},
address = {Berlin, Heidelberg},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
Gibasiewicz, Krzysztof; Brettel, K; Dobek, Andrzej; Leibl, W
Reexamination of Primary Pair Recombination Kinetics in Purple Bacteria With QA Reduced Incollection
In: Photosynthesis: Mechanisms and Effects, pp. 841–844, Springer Netherlands, Dordrecht, 1998.
@incollection{Gibasiewicz1998,
title = {Reexamination of Primary Pair Recombination Kinetics in Purple Bacteria With QA Reduced},
author = {Krzysztof Gibasiewicz and K Brettel and Andrzej Dobek and W Leibl},
url = {http://link.springer.com/10.1007/978-94-011-3953-3_198},
doi = {10.1007/978-94-011-3953-3_198},
year = {1998},
date = {1998-01-01},
booktitle = {Photosynthesis: Mechanisms and Effects},
pages = {841--844},
publisher = {Springer Netherlands},
address = {Dordrecht},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
1997
Patkowski, Adam; Steffen, W; Nilgens, H; Fischer, E W; Pecora, R
Depolarized dynamic light scattering from three low molecular weight glass forming liquids: A test of the scattering mechanism Journal Article
In: The Journal of Chemical Physics, vol. 106, no. 20, pp. 8401–8408, 1997, ISSN: 0021-9606.
@article{Patkowski1997,
title = {Depolarized dynamic light scattering from three low molecular weight glass forming liquids: A test of the scattering mechanism},
author = {Adam Patkowski and W Steffen and H Nilgens and E W Fischer and R Pecora},
url = {http://aip.scitation.org/doi/abs/10.1063/1.474117 http://aip.scitation.org/doi/10.1063/1.474117},
doi = {10.1063/1.474117},
issn = {0021-9606},
year = {1997},
date = {1997-05-01},
journal = {The Journal of Chemical Physics},
volume = {106},
number = {20},
pages = {8401--8408},
publisher = {American Institute of Physics},
abstract = {Depolarized dynamic light scattering (DDLS) experiments are performed on the glass forming materials ortho terphenyl (OTP), bis-methyl-methoxy-phenyl-cyclohexane (BMMPC), and bis-methyl-phenyl-cyclohexane (BMPC). Depolarized spectra are obtained for the bulk liquids and for solutions of varying concentration in CCl4 . Effective optical anisotropies of the molecules are obtained from the solution spectra. A detailed analysis of the DDLS spectra, as well as a comparison with the results of quasielastic neutron scattering (QENS) experiments, indicates that the DDLS spectra in the bulk liquids result from at least two physical mechanisms: (i) The low frequency part of the spectrum, in the frequency range of the $alpha$ peak, arises mainly from the molecular reorientation mechanism. The integrated intensity of this contribution is proportional to the square of the effective molecular anisotropy. (ii) At higher frequencies (but still below the Boson peak), the predominant contribution to the DDLS spectrum arises from...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Aouadi, A; Lebon, M J; Dreyfus, C; Strube, B; Steffen, W; Patkowski, Adam; Pick, R M
A light-scattering study of 1-4 cis - trans polybutadiene Journal Article
In: Journal of Physics: Condensed Matter, vol. 9, no. 18, pp. 3803–3820, 1997, ISSN: 0953-8984.
@article{Aouadi1997,
title = {A light-scattering study of 1-4 cis - trans polybutadiene},
author = {A Aouadi and M J Lebon and C Dreyfus and B Strube and W Steffen and Adam Patkowski and R M Pick},
url = {http://stacks.iop.org/0953-8984/9/i=18/a=018?key=crossref.dff5bf1a2ee8339982daa7110313ce39},
doi = {10.1088/0953-8984/9/18/018},
issn = {0953-8984},
year = {1997},
date = {1997-05-01},
journal = {Journal of Physics: Condensed Matter},
volume = {9},
number = {18},
pages = {3803--3820},
publisher = {IOP Publishing},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Bieniecki, Albert; Wilk, Kazimiera A; Gapiński, Jacek
Micellar Aggregation Behavior at Low Ionic Strength of Cyclic Acetal-Type Cationic Surfactants Containing the 1,3-Dioxolane Moiety Journal Article
In: The Journal of Physical Chemistry B, vol. 101, no. 6, pp. 871–875, 1997, ISSN: 1520-6106.
@article{Bieniecki1997,
title = {Micellar Aggregation Behavior at Low Ionic Strength of Cyclic Acetal-Type Cationic Surfactants Containing the 1,3-Dioxolane Moiety},
author = {Albert Bieniecki and Kazimiera A Wilk and Jacek Gapiński},
url = {http://pubs.acs.org/doi/abs/10.1021/jp9606319},
doi = {10.1021/jp9606319},
issn = {1520-6106},
year = {1997},
date = {1997-02-01},
journal = {The Journal of Physical Chemistry B},
volume = {101},
number = {6},
pages = {871--875},
publisher = {American Chemical Society},
abstract = {Aggregation studies in water of several cationic acetal-type surfactants having varied hydrophobic chains, [(2-alkyl-1,3-dioxolan-4-yl)methyl]trimethylammonium bromides (Cn-D-TAB; where Cn = C9H19, C11H23, C13H27), have been performed by means of dynamic light scattering in the 0.015−0.32 M NaBr concentration range over the temperature limits of 25−45 °C. The aggregation parameters (translational diffusion coefficient of micelle (D0), hydrodynamic radius (Rh), ionization fraction ($alpha$), and aggregation number (n)) have been determined and discussed with respect to the parameters of the “classical” alkyltrimethylammonium bromides (Cn-TAB). Additionally, the effect of diastereoisomerism upon surfactant aggregation has been characterized for the trans- and cis-[(2-tridecyl-1,3-dioxolan-4-yl)methyl]trimethylammonium (C13-D-TAB), (2-hydroxyethyl)dimethylammonium (C13-D-HEAB), and triethylammonium (C13-D-TEAB) bromides. Accordingly, the 1,3-dioxolane ring configurations and the size of the head groups do not invo...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ślósarek, Genowefa
Analiza strukturalna białek za pomocą spektroskopii NMR Book
Wydawnictwo Naukowe Uniwersytetu im. Adama Mickiewicza, Poznań, 1997.
@book{Slosarek1997,
title = {Analiza strukturalna białek za pomocą spektroskopii NMR},
author = {Genowefa Ślósarek},
year = {1997},
date = {1997-01-01},
pages = {86},
publisher = {Wydawnictwo Naukowe Uniwersytetu im. Adama Mickiewicza},
address = {Poznań},
keywords = {},
pubstate = {published},
tppubtype = {book}
}
Bienicki, A; Wilk, K A; Gapiński, Jacek
Microenvironment characteristics of microemulsions stabilized by cyclic acetal-type cationic surfactants Incollection
In: Trends in Colloid and Interface Science XI, pp. 311–316, Steinkopff, Darmstadt, 1997.
@incollection{Bienicki1997,
title = {Microenvironment characteristics of microemulsions stabilized by cyclic acetal-type cationic surfactants},
author = {A Bienicki and K A Wilk and Jacek Gapiński},
url = {http://www.springerlink.com/index/10.1007/BFb0111007},
doi = {10.1007/BFb0111007},
year = {1997},
date = {1997-01-01},
booktitle = {Trends in Colloid and Interface Science XI},
pages = {311--316},
publisher = {Steinkopff},
address = {Darmstadt},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
1996
Thurn-Albrecht, T; Steffen, W; Patkowski, Adam; Meier, G; Fischer, E W; Grubel, G; Abernathy, D L
Photon Correlation Spectroscopy of Colloidal Palladium Using a Coherent X-Ray Beam Journal Article
In: Physical Review Letters, vol. 77, no. 27, pp. 5437–5440, 1996, ISSN: 0031-9007.
@article{Thurn-Albrecht1996,
title = {Photon Correlation Spectroscopy of Colloidal Palladium Using a Coherent X-Ray Beam},
author = {T Thurn-Albrecht and W Steffen and Adam Patkowski and G Meier and E W Fischer and G Grubel and D L Abernathy},
url = {http://www.ncbi.nlm.nih.gov/pubmed/10062803 https://link.aps.org/doi/10.1103/PhysRevLett.77.5437},
doi = {10.1103/PhysRevLett.77.5437},
issn = {0031-9007},
year = {1996},
date = {1996-12-01},
journal = {Physical Review Letters},
volume = {77},
number = {27},
pages = {5437--5440},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ślósarek, Genowefa; Barciszewski, Jan
Struktura i funkcja systeminy - peptydu o własnościach hormonu roślinnego Journal Article
In: Postępy Biologii Komórki, vol. 23, no. 3, pp. 477–489, 1996.
@article{Slosarek1996,
title = {Struktura i funkcja systeminy - peptydu o własnościach hormonu roślinnego},
author = {Genowefa Ślósarek and Jan Barciszewski},
year = {1996},
date = {1996-01-01},
journal = {Postępy Biologii Komórki},
volume = {23},
number = {3},
pages = {477--489},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ślósarek, Genowefa
Spektroskopia magnetycznego rezonansu jądrowego w badaniach strukturalnych nad aktyną Journal Article
In: Wiadomości Chemiczne, vol. 50, pp. 125–141, 1996.
@article{Slosarek1996a,
title = {Spektroskopia magnetycznego rezonansu jądrowego w badaniach strukturalnych nad aktyną},
author = {Genowefa Ślósarek},
year = {1996},
date = {1996-01-01},
journal = {Wiadomości Chemiczne},
volume = {50},
pages = {125--141},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gapiński, Jacek
Static and dynamic light scattering study of oil in water microemulsions Journal Article
In: Current Topics in Biophysics, vol. 20, no. 2, pp. 167–171, 1996.
@article{Gapinski1996,
title = {Static and dynamic light scattering study of oil in water microemulsions},
author = {Jacek Gapiński},
year = {1996},
date = {1996-01-01},
journal = {Current Topics in Biophysics},
volume = {20},
number = {2},
pages = {167--171},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Steffen, W; Fischer, E W; Patkowski, Adam
Static and dymanic light scattering of supercooled fluids Incollection
In: Giordano, M; Leporini, D; Tosi, M P (Ed.): Non-equilibrium Phenomena in Supercooled Fluids, Glasses and Amorphous Materials, pp. 159, Wordl Scientific, Singapore, 1996.
@incollection{Steffen1996,
title = {Static and dymanic light scattering of supercooled fluids},
author = {W Steffen and E W Fischer and Adam Patkowski},
editor = {M Giordano and D Leporini and M P Tosi},
year = {1996},
date = {1996-01-01},
booktitle = {Non-equilibrium Phenomena in Supercooled Fluids, Glasses and Amorphous Materials},
pages = {159},
publisher = {Wordl Scientific},
address = {Singapore},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
Ślósarek, Genowefa
Analiza strukturalna białek przy wykorzystaniu wielowymiarowej spektroskopii magnetycznego rezonansu jądrowego Incollection
In: Nowe tendencje w biologii molekularnej i inżynierii genetycznej oraz medycynie, pp. 567–589, Sorus, Poznań, 1996.
@incollection{Slosarek1996b,
title = {Analiza strukturalna białek przy wykorzystaniu wielowymiarowej spektroskopii magnetycznego rezonansu jądrowego},
author = {Genowefa Ślósarek},
year = {1996},
date = {1996-01-01},
booktitle = {Nowe tendencje w biologii molekularnej i inżynierii genetycznej oraz medycynie},
pages = {567--589},
publisher = {Sorus},
address = {Poznań},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
Ślósarek, Genowefa (Ed.)
Wstęp do pracowni biofizyki molekularnej Book
Wydawnictwo Naukowe Uniwersytetu im. Adama Mickiewicza, 1996.
@book{Slosarek1996c,
title = {Wstęp do pracowni biofizyki molekularnej},
editor = {Genowefa Ślósarek},
year = {1996},
date = {1996-01-01},
publisher = {Wydawnictwo Naukowe Uniwersytetu im. Adama Mickiewicza},
keywords = {},
pubstate = {published},
tppubtype = {book}
}
1995
Kanaya, T; Patkowski, Adam; Fischer, E W; Seils, J; Glaeser, H; Kaji, K
Light-Scattering Studies of Short- and Long-Range Density and Anisotropy Fluctuations in a Bulk Polysiloxane Journal Article
In: Macromolecules, vol. 28, no. 23, pp. 7831–7836, 1995, ISSN: 0024-9297.
@article{Kanaya1995,
title = {Light-Scattering Studies of Short- and Long-Range Density and Anisotropy Fluctuations in a Bulk Polysiloxane},
author = {T Kanaya and Adam Patkowski and E W Fischer and J Seils and H Glaeser and K Kaji},
url = {http://pubs.acs.org/doi/abs/10.1021/ma00127a033 http://doi.wiley.com/10.1002/actp.1994.010450302},
doi = {10.1021/ma00127a033},
issn = {0024-9297},
year = {1995},
date = {1995-11-01},
journal = {Macromolecules},
volume = {28},
number = {23},
pages = {7831--7836},
publisher = {American Chemical Society},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ślósarek, Genowefa; Kalbitzer, Hans Robert; Mucha, Piotr; Rekowski, Piotr; Kupryszewski, Gotfryd; Giel-Pietraszuk, Malgorzata; Szymański, Maciej; Barciszewski, Jan
Mechanism of the Activation of Proteinase Inhibitor Synthesis by Systemin Involves $beta$-Sheet Structure, a Specific DNA-Binding Protein Domain Journal Article
In: Journal of Structural Biology, vol. 115, no. 1, pp. 30–36, 1995, ISSN: 10478477.
@article{Slosarek1995a,
title = {Mechanism of the Activation of Proteinase Inhibitor Synthesis by Systemin Involves $beta$-Sheet Structure, a Specific DNA-Binding Protein Domain},
author = {Genowefa Ślósarek and Hans Robert Kalbitzer and Piotr Mucha and Piotr Rekowski and Gotfryd Kupryszewski and Malgorzata Giel-Pietraszuk and Maciej Szymański and Jan Barciszewski},
url = {https://www.sciencedirect.com/science/article/pii/S104784778571026X http://linkinghub.elsevier.com/retrieve/pii/S104784778571026X},
doi = {10.1006/jsbi.1995.1026},
issn = {10478477},
year = {1995},
date = {1995-07-01},
journal = {Journal of Structural Biology},
volume = {115},
number = {1},
pages = {30--36},
publisher = {Academic Press},
abstract = {We analyzed a tertiary structure of systemin, the first identified polypeptide plant hormone, using two-dimensional NMR spectroscopy. From these data and molecular dynamics calculations we concluded that the peptide can adopt a Z-like-$beta$-sheet structure, which has previously been found in many specific DNA-binding proteins. Using DNA-cellulose affinity chromatography, we showed that systemin binds strongly to DNA. We suggest that the specific systemin-DNA interaction, particularly in a promoter region of the proteinase inhibitors, could effect gone expression and thus explain the biological activity of systemin.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Chu, B; Ying, Q -C; Yeh, F -J; Patkowski, Adam; Steffen, W; Fischer, E W
An X-ray Photon Correlation Experiment Journal Article
In: Langmuir, vol. 11, no. 5, pp. 1419–1421, 1995, ISSN: 0743-7463.
@article{Chu1995,
title = {An X-ray Photon Correlation Experiment},
author = {B Chu and Q -C Ying and F -J Yeh and Adam Patkowski and W Steffen and E W Fischer},
url = {http://pubs.acs.org/doi/abs/10.1021/la00005a001},
doi = {10.1021/la00005a001},
issn = {0743-7463},
year = {1995},
date = {1995-05-01},
journal = {Langmuir},
volume = {11},
number = {5},
pages = {1419--1421},
publisher = {American Chemical Society},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ślósarek, Genowefa
1H NMR spectra of G- and F-actin Journal Article
In: Current Topics in Biophysics, vol. 19, no. 1, pp. 13–19, 1995.
@article{Slosarek1995b,
title = {1H NMR spectra of G- and F-actin},
author = {Genowefa Ślósarek},
year = {1995},
date = {1995-01-01},
journal = {Current Topics in Biophysics},
volume = {19},
number = {1},
pages = {13--19},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gapiński, Jacek; Paillotin, G; Leibl, Winfried; Gibasiewicz, Krzysztof; Breton, Jacques; Dobek, Andrzej
Penetration of Light in Photosynthetic Membranes of Spherical Symmetry Incollection
In: Mathis, P (Ed.): Photosynthesis: From Light to Biosphere, Vol.3, pp. 421–425, Kluwer Academic Publishers, Dordrecht/Boston/London, 1995, ISBN: 978-0-7923-3862-8.
@incollection{Gapinski1995,
title = {Penetration of Light in Photosynthetic Membranes of Spherical Symmetry},
author = {Jacek Gapiński and G Paillotin and Winfried Leibl and Krzysztof Gibasiewicz and Jacques Breton and Andrzej Dobek},
editor = {P Mathis},
isbn = {978-0-7923-3862-8},
year = {1995},
date = {1995-01-01},
booktitle = {Photosynthesis: From Light to Biosphere, Vol.3},
pages = {421--425},
publisher = {Kluwer Academic Publishers},
address = {Dordrecht/Boston/London},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
1994
Patkowski, Adam; Steffen, W; Meier, G; Fischer, E W
Mode-coupling and phenomonological analysis of the depolarized light scattering spectra of ortho-terphenyl Journal Article
In: Journal of Non-Crystalline Solids, vol. 172-174, pp. 52–60, 1994, ISSN: 00223093.
@article{Patkowski1994,
title = {Mode-coupling and phenomonological analysis of the depolarized light scattering spectra of ortho-terphenyl},
author = {Adam Patkowski and W Steffen and G Meier and E W Fischer},
url = {https://www.sciencedirect.com/science/article/pii/0022309394904162?via%3Dihub http://linkinghub.elsevier.com/retrieve/pii/0022309394904162},
doi = {10.1016/0022-3093(94)90416-2},
issn = {00223093},
year = {1994},
date = {1994-09-01},
journal = {Journal of Non-Crystalline Solids},
volume = {172-174},
pages = {52--60},
publisher = {North-Holland},
abstract = {The depolarized dynamic light scattering spectra of ortho-terphenyl covering a broad frequency range from 10−2 to 6 × 1012 Hz have been analyzed using both the mode coupling theory (MCT) and the phenomenological approach. Similarities and differences of these two approaches as well as the frequency range and the quality of the fits to the experimental data are discussed. The main differences between these two models occur only in the intermediate frequency range (0.1–100 GHz) where either the MCT $beta$-relaxation with a scaling time diverging on both sides of Tc or a ‘fast' process of a constant relaxation time can be used to fit the data.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Steffen, W; Zimmer, B; Patkowski, Adam; Meier, G; Fischer, E W
Depolarized light scattering studies of the boson peak and the transversal phonons in a glass-forming liquid: OTP Journal Article
In: Journal of Non-Crystalline Solids, vol. 172-174, pp. 37–42, 1994, ISSN: 00223093.
@article{Steffen1994a,
title = {Depolarized light scattering studies of the boson peak and the transversal phonons in a glass-forming liquid: OTP},
author = {W Steffen and B Zimmer and Adam Patkowski and G Meier and E W Fischer},
url = {https://www.sciencedirect.com/science/article/pii/0022309394904146 http://linkinghub.elsevier.com/retrieve/pii/0022309394904146},
doi = {10.1016/0022-3093(94)90414-6},
issn = {00223093},
year = {1994},
date = {1994-09-01},
journal = {Journal of Non-Crystalline Solids},
volume = {172-174},
pages = {37--42},
publisher = {North-Holland},
abstract = {A lineshape analysis of the Rayleigh wing of ortho-terphenyl obtained by low frequency Raman spectroscopy has been performed. The so-called boson peak was studied from 100 to 300 K, from far below to above the glass transition at Tg = 244 K. A model of disorder-induced scattering was used to interpret the features of the boson peak. A complementary measurement of the transversal phonons of OTP was done in the temperature range from 250 to 360 K. It was found that the shear waves are only present up to 320 K.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ślósarek, Genowefa; Heintz, D; Kalbitzer, H R
Mobile segments in rabbit skeletal muscle F-actin detected by 1H nuclear magnetic resonance spectroscopy. Journal Article
In: FEBS letters, vol. 351, no. 3, pp. 405–10, 1994, ISSN: 0014-5793.
@article{Slosarek1994,
title = {Mobile segments in rabbit skeletal muscle F-actin detected by 1H nuclear magnetic resonance spectroscopy.},
author = {Genowefa Ślósarek and D Heintz and H R Kalbitzer},
url = {http://www.ncbi.nlm.nih.gov/pubmed/8082804},
issn = {0014-5793},
year = {1994},
date = {1994-09-01},
journal = {FEBS letters},
volume = {351},
number = {3},
pages = {405--10},
abstract = {Polymerization of actin by increasing the ionic strength leads to a quenching of almost all 1H NMR signals. Surprisingly, distinct signals with relatively small line widths can still be observed in actin filaments (F-actin) indicating the existence of mobile, NMR visible residues in the macromolecular structure. The intensity of the F-actin spectrum is much reduced if one replaces Mg2+ with Ca2+, and a moderate reduction of the signal intensity can also be obtained by increasing the ionic strength. These results can be explained in a two-state model of the actin promoters with a M- (mobile) state and a I- (immobile) state in equilibrium. In the M-state a number of residues in the actin promoter are mobile and give rise to observable NMR signals. This equilibrium is shifted towards the I-state specifically by replacing Mg2+ with Ca(2+)-ions and unspecifically by addition of monovalent ions such as K+. The binding of phalloidin to its high-affinity site in the filaments does not influence the equilibrium between M- and I-state. Phalloidin itself is completely immobilized in F-actin, its exchange with the solvent being slow on the NMR time scale.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dobek, Andrzej; Paillotin, G; Gapiński, Jacek; Breton, J; Leibl, W; Trissl, H -W
Amplitude and Polarity of the Light Gradient Photovoltage from Chloroplasts Journal Article
In: Journal of Theoretical Biology, vol. 170, no. 2, pp. 129–143, 1994, ISSN: 00225193.
@article{Dobek1994,
title = {Amplitude and Polarity of the Light Gradient Photovoltage from Chloroplasts},
author = {Andrzej Dobek and G Paillotin and Jacek Gapiński and J Breton and W Leibl and H -W Trissl},
url = {https://www.sciencedirect.com/science/article/pii/S0022519384711738 http://linkinghub.elsevier.com/retrieve/pii/S0022519384711738},
doi = {10.1006/jtbi.1994.1173},
issn = {00225193},
year = {1994},
date = {1994-09-01},
journal = {Journal of Theoretical Biology},
volume = {170},
number = {2},
pages = {129--143},
publisher = {Academic Press},
abstract = {The primary charge separation in reaction centers embedded in the photosynthetic membranes induces an electric polarization in chloroplast suspensions. Photovoltages elicited by short non-saturating flashes, were observed almost 20 years ago by Witt & Zickler (1973, FEBS Lett,37, 307-310) and Fowler & Kok (1974, Progress in Photobiology, Frankfurt: Deutsche Gesellschaft). The photovoltage was interpreted as the result of the so-called "light-gradient" effect, in which the stronger excitation of the membrane facing the light source compared to the shadowed one creates a difference of dipole density in these two membranes. Owing to the anti-parallel orientation of reaction centers in opposite thylakoid membranes, a small potential difference results. It was thought that the polarity of this potential difference could be deduced from the known position of electron carriers in the photosynthetic reaction center. However, the observed polarity was often opposite to that predicted by this model. Also, the measured photovoltage amplitudes could not be quantitatively related to experimental parameters. In the present paper, we show that the "classical" explanation of the light-gradient effect does not hold true and we give an alternative explanation that is based on light propagation and interference in pigmented multilayers. A model calculation is carried out for a pair of membranes simulating stroma lamellae of chloroplasts. It predicts a wavelength-dependent light distribution as well as the polarity of the photovoltage. For low intensities, the amplitude is found to be proportional to the intensity of the incoming light, to the optical density, and to the reciprocal of the dielectric constant of the sample. When the membranes contain no chromophores or when the absorption coefficient is low, the predicted polarity is opposite to that expected from the classical picture. The model is tested with a set of experimental photovoltage data obtained at different wavelengths.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Seils, J; Benmouna, M; Patkowski, Adam; Fischer, E W
Static and Dynamic Light Scattering from Polystyrene/Poly(methyl methacrylate)/Bromobenzene: Temperature Effects Journal Article
In: Macromolecules, vol. 27, no. 18, pp. 5043–5051, 1994, ISSN: 0024-9297.
@article{Seils1994,
title = {Static and Dynamic Light Scattering from Polystyrene/Poly(methyl methacrylate)/Bromobenzene: Temperature Effects},
author = {J Seils and M Benmouna and Adam Patkowski and E W Fischer},
url = {http://pubs.acs.org/doi/abs/10.1021/ma00096a029},
doi = {10.1021/ma00096a029},
issn = {0024-9297},
year = {1994},
date = {1994-08-01},
journal = {Macromolecules},
volume = {27},
number = {18},
pages = {5043--5051},
publisher = {American Chemical Society},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Kanaya, T; Patkowski, Adam; Fischer, E W; Seils, J; Glaeser, H; Kaji, K
Light scattering studies on long-range density fluctuations in a glass-forming polymer Journal Article
In: Acta Polymerica, vol. 45, no. 3, pp. 137–142, 1994, ISSN: 03237648.
@article{Kanaya1994,
title = {Light scattering studies on long-range density fluctuations in a glass-forming polymer},
author = {T Kanaya and Adam Patkowski and E W Fischer and J Seils and H Glaeser and K Kaji},
url = {http://doi.wiley.com/10.1002/actp.1994.010450302},
doi = {10.1002/actp.1994.010450302},
issn = {03237648},
year = {1994},
date = {1994-05-01},
journal = {Acta Polymerica},
volume = {45},
number = {3},
pages = {137--142},
publisher = {Akademie Verlag GmbH},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Steffen, W; Patkowski, Adam; Glaeser, H; Meier, G; Fischer, E W
Depolarized-light-scattering study of orthoterphenyl and comparison with the mode-coupling model Journal Article
In: Physical Review E, vol. 49, no. 4, pp. 2992–3002, 1994, ISSN: 1063-651X.
@article{Steffen1994b,
title = {Depolarized-light-scattering study of orthoterphenyl and comparison with the mode-coupling model},
author = {W Steffen and Adam Patkowski and H Glaeser and G Meier and E W Fischer},
url = {https://link.aps.org/doi/10.1103/PhysRevE.49.2992},
doi = {10.1103/PhysRevE.49.2992},
issn = {1063-651X},
year = {1994},
date = {1994-04-01},
journal = {Physical Review E},
volume = {49},
number = {4},
pages = {2992--3002},
publisher = {American Physical Society},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gapiński, Jacek; Dobek, Andrzej; Paillotin, G; Breton, J; Leibl, W; Trissl, H -W
Light Gradient in Photosynthetic Systems: Theory and Experiment Journal Article
In: Laser Physics, vol. 4, no. 1, pp. 191-198, 1994.
@article{Gapinski1994,
title = {Light Gradient in Photosynthetic Systems: Theory and Experiment},
author = {Jacek Gapiński and Andrzej Dobek and G Paillotin and J Breton and W Leibl and H -W Trissl},
year = {1994},
date = {1994-01-01},
journal = {Laser Physics},
volume = {4},
number = {1},
pages = {191-198},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
1993
Paillotin, G; Dobek, Andrzej; Breton, J; Leibl, W; Trissl, H W
Why does the light-gradient photovoltage from photosynthetic organelles show a wavelength-dependent polarity? Journal Article
In: Biophysical Journal, vol. 65, no. 1, pp. 379–385, 1993, ISSN: 00063495.
@article{Paillotin1993,
title = {Why does the light-gradient photovoltage from photosynthetic organelles show a wavelength-dependent polarity?},
author = {G Paillotin and Andrzej Dobek and J Breton and W Leibl and H W Trissl},
url = {http://www.ncbi.nlm.nih.gov/pubmed/8369444 http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=PMC1225732 http://linkinghub.elsevier.com/retrieve/pii/S000634959381066X},
doi = {10.1016/S0006-3495(93)81066-X},
issn = {00063495},
year = {1993},
date = {1993-07-01},
journal = {Biophysical Journal},
volume = {65},
number = {1},
pages = {379--385},
publisher = {The Biophysical Society},
abstract = {The light-gradient photovoltage from photosynthetic organisms and organelles is thought to arise from the primary charge separation in the reaction centers. The current explanation of the effect is the stronger excitation of the membrane side of a vesicle facing the light source than the one on the opposite side. Together with the known orientation of reaction centers, this explanation predicts unequivocally the polarity of the photovoltage. However, a polarity opposite to the one expected has often been reported. A dependence of the polarity on the wavelength has been published but no explanation was given (Graeber, P., and H.-W. Trissl. 1981. FEBS Lett. 123:95-99). Here we report on a theoretical treatment of light propagation and interference in pigmented and nonpigmented multilayers. A model calculation is carried out for a pair of membranes, demonstrating the wavelength-dependent light distribution as well as the relative photovoltage and its polarity. When the membranes contain no chromophores or when the absorption coefficient is low, the predicted polarity to that expected from a simple macroscopic absorption behavior. The model is tested by comparing new photovoltage data obtained at 532 nm as well as in the blue and red absorption bands of chlorophyll in chloroplasts. It is concluded that outside the main absorption bands the amplitude and polarity of the photovoltage is determined by the ratio of the refractive indices of the membrane and the medium.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Benmouna, M; Seils, J; Meier, G; Patkowski, Adam; Fischer, E W
Critical fluctuations in ternary polymer solutions Journal Article
In: Macromolecules, vol. 26, no. 4, pp. 668–678, 1993, ISSN: 0024-9297.
@article{Benmouna1993,
title = {Critical fluctuations in ternary polymer solutions},
author = {M Benmouna and J Seils and G Meier and Adam Patkowski and E W Fischer},
url = {http://pubs.acs.org/doi/abs/10.1021/ma00056a018},
doi = {10.1021/ma00056a018},
issn = {0024-9297},
year = {1993},
date = {1993-07-01},
journal = {Macromolecules},
volume = {26},
number = {4},
pages = {668--678},
publisher = {American Chemical Society},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Fytas, G; Patkowski, Adam
Dynamic Light Scattering from Polymers in Solution and in Bulk Incollection
In: Brown, W (Ed.): Dynamic Light Scattering. The Method and Some Applications, pp. 440–470, Oxford University Press, Oxford, 1993.
@incollection{Fytas1993,
title = {Dynamic Light Scattering from Polymers in Solution and in Bulk},
author = {G Fytas and Adam Patkowski},
editor = {W Brown},
year = {1993},
date = {1993-01-01},
booktitle = {Dynamic Light Scattering. The Method and Some Applications},
pages = {440--470},
publisher = {Oxford University Press},
address = {Oxford},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
Patkowski, Adam; Fischer, E W; Glaeser, H; Meier, G; Nilgens, H; Steffen, W
Light scattering studies of a glass forming liquid near T g Incollection
In: Application of Scattering Methods to the Dynamics of Polymer Systems, pp. 35–38, Steinkopff, Darmstadt, 1993.
@incollection{Patkowski1993,
title = {Light scattering studies of a glass forming liquid near T g},
author = {Adam Patkowski and E W Fischer and H Glaeser and G Meier and H Nilgens and W Steffen},
url = {http://www.springerlink.com/index/10.1007/BFb0116451},
doi = {10.1007/BFb0116451},
year = {1993},
date = {1993-01-01},
booktitle = {Application of Scattering Methods to the Dynamics of Polymer Systems},
pages = {35--38},
publisher = {Steinkopff},
address = {Darmstadt},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
1992
Gapiński, Jacek; Fytas, G; Floudas, G
Evidence of fast diffusive process in a mixed polymeric glass Journal Article
In: The Journal of Chemical Physics, vol. 96, no. 8, pp. 6311–6313, 1992, ISSN: 0021-9606.
@article{Gapinski1992,
title = {Evidence of fast diffusive process in a mixed polymeric glass},
author = {Jacek Gapiński and G Fytas and G Floudas},
url = {http://aip.scitation.org/doi/10.1063/1.462622},
doi = {10.1063/1.462622},
issn = {0021-9606},
year = {1992},
date = {1992-04-01},
journal = {The Journal of Chemical Physics},
volume = {96},
number = {8},
pages = {6311--6313},
publisher = {American Institute of Physics},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Steffen, W; Patkowski, Adam; Meier, G; Fischer, E W
Depolarized dynamic light scattering studies of ortho‐terphenyl dynamics above T g Journal Article
In: The Journal of Chemical Physics, vol. 96, no. 6, pp. 4171–4179, 1992, ISSN: 0021-9606.
@article{Steffen1992,
title = {Depolarized dynamic light scattering studies of ortho‐terphenyl dynamics above T g},
author = {W Steffen and Adam Patkowski and G Meier and E W Fischer},
url = {http://aip.scitation.org/doi/10.1063/1.461873},
doi = {10.1063/1.461873},
issn = {0021-9606},
year = {1992},
date = {1992-03-01},
journal = {The Journal of Chemical Physics},
volume = {96},
number = {6},
pages = {4171--4179},
publisher = {American Institute of Physics},
abstract = {Depolarized Rayleigh spectra of ortho‐terphenyl (OTP) were measured in the temperature range from Tg to Tg+190 K. Two samples prepared with and without ‘‘clusters'' were used for the measurement. Four different Fabry–Perot interferometers covering the time range from about 0.5 ps to 100 ns were employed. Two relaxation modes were observed: a slow mode with all its characteristics of the $alpha$ process, and a fast mode with a constant, temperature independent relaxation time of about 3 ps. The fast mode has not been reported heretofore. The intensity of the fast mode vanishes at about the Vogel–Fulcher–Tamman temperature T0. The relaxation times of these two processes are found to be identical for both OTP with and without clusters. The temperature dependence of the relaxation time of the $alpha$ process is Arrhenius at high temperatures, but shows a Williams–Landel–Ferry (WLF) behavior in the range from Tg to Tg+80 K for both samples with and without the long‐range density fluctuations (i.e., cluster).},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Leibl, Winfried; Paillotin, Guy; Dobek, Andrzej; Gapiński, Jacek; Trissl, Hans-W.; Breton, Jacques
Theory on the Wavelength Dependent Polarity of the Light-gradient Photovoltage Inproceedings
In: Murata, N (Ed.): Research in Photosynthesis, Vol. 1, pp. 633–636, Kluwer Academic Publishers, 1992.
@inproceedings{Leibl1992,
title = {Theory on the Wavelength Dependent Polarity of the Light-gradient Photovoltage},
author = {Winfried Leibl and Guy Paillotin and Andrzej Dobek and Jacek Gapiński and Hans-W. Trissl and Jacques Breton},
editor = {N Murata},
year = {1992},
date = {1992-01-01},
booktitle = {Research in Photosynthesis, Vol. 1},
pages = {633--636},
publisher = {Kluwer Academic Publishers},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Florek, Andrzej; Kozlowski, Krzysztof; Wróblewski, Waldemar; Gapiński, Jacek
Computer-controlled digital correlator and its application in experimental physics Journal Article
In: Microprocessors and Microsystems, vol. 16, no. 4, pp. 171–176, 1992, ISSN: 01419331.
@article{Florek1992,
title = {Computer-controlled digital correlator and its application in experimental physics},
author = {Andrzej Florek and Krzysztof Kozlowski and Waldemar Wróblewski and Jacek Gapiński},
url = {https://www.sciencedirect.com/science/article/pii/014193319290019P http://linkinghub.elsevier.com/retrieve/pii/014193319290019P},
doi = {10.1016/0141-9331(92)90019-P},
issn = {01419331},
year = {1992},
date = {1992-01-01},
journal = {Microprocessors and Microsystems},
volume = {16},
number = {4},
pages = {171--176},
publisher = {Elsevier},
abstract = {The design, operation, supporting software and application of a microprocessor-based digital correlator is described. The device has 128 channels and can measure auto- or cross-correlation functions in the range of 100 ns to 10 s. The device operates in either the single clipping or scaling mode and is especially appropriate for applications where cost is a major consideration. Experimental results measuring correlation functions are shown.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
1991
Kivelson, Daniel; Steffen, Werner; Meier, Gerhard; Patkowski, Adam
A possible molecular structural indicator of the liquid–glass transition Journal Article
In: The Journal of Chemical Physics, vol. 95, no. 3, pp. 1943–1949, 1991, ISSN: 0021-9606.
@article{Kivelson1991,
title = {A possible molecular structural indicator of the liquid–glass transition},
author = {Daniel Kivelson and Werner Steffen and Gerhard Meier and Adam Patkowski},
url = {http://aip.scitation.org/doi/10.1063/1.460990},
doi = {10.1063/1.460990},
issn = {0021-9606},
year = {1991},
date = {1991-08-01},
journal = {The Journal of Chemical Physics},
volume = {95},
number = {3},
pages = {1943--1949},
publisher = {American Institute of Physics},
abstract = {In studying the VH depolarized Rayleigh light‐scattering spectrum of orthoterphenyl we have separated an ‘‘intermediate'' line with almost temperature‐independent halfwidth of 50 GHz from both the narrower rotational line with strongly temperature‐dependent halfwidth and the broader base line associated with short‐range overlap interactions. The integrated intensity IVH of the intermediate line decreases by a factor of 25 as the temperature decreases over a range for which the viscosity increases by 11 orders of magnitude. It appears that the extrapolated value of (IVH/$rho$2)1/2 for this line vanishes as T→T0, where $rho$ is the density and T0 is the ideal liquid–glass transition temperature established by fitting a Vogel–Fulcher relation to the viscosity. We associate this intermediate line with dipole–induced‐dipole interactions; its intensity is then given by an equal‐time correlation function involving two‐, three‐, and four‐body interactions. Because dipole interactions are quite long range, this correlatio...},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Fischer, E W; Meier, G; Rabenau, T; Patkowski, Adam; Steffen, W; Thoennes, W
Density fluctuations around the glass-transition of low molecular weight glass-forming liquids Journal Article
In: Journal of Non-Crystalline Solids, vol. 131-133, pp. 134–138, 1991, ISSN: 00223093.
@article{Fischer1991,
title = {Density fluctuations around the glass-transition of low molecular weight glass-forming liquids},
author = {E W Fischer and G Meier and T Rabenau and Adam Patkowski and W Steffen and W Thoennes},
url = {https://www.sciencedirect.com/science/article/pii/002230939190288H http://linkinghub.elsevier.com/retrieve/pii/002230939190288H},
doi = {10.1016/0022-3093(91)90288-H},
issn = {00223093},
year = {1991},
date = {1991-06-01},
journal = {Journal of Non-Crystalline Solids},
volume = {131-133},
pages = {134--138},
publisher = {North-Holland},
abstract = {The Rayleigh-Brillouin spectra of ortho-terphenyl (OTP) samples with and without ‘clusters' were measured in the temperature range from Tg to Tg + 200 K. The values of the Landau-Placzek ratio for cluster-free OTP were low, in agreement with the theoretical predictions, while for OTP with clusters much higher values were obtained. The isotropic part of the Rayleigh intensity for OTP with clusters contained an additional angular-dependent component that could be reversibly reduced after annealing the samples at temperatures textgreater Tm. Rotational relaxation times of OTP samples with and without clusters were measured by means of depolarized Rayleigh spectroscopy. In addition to the usual rotational relaxation time, an additional fast component was found. The relaxation time of the fast process was practically constant in the entire temperature range amounting to 3 ps and the intensity decreased to zero around TO. The temperature dependence of the rotational relaxation time cannot be described by the Wohlrausch-Landel-Ferry formula over the entire relaxation time range from 4 × 10−11 to 10 s, but only down to 10−10 s.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Seils, Joachim; Eimer, Wolfgang; Dorfmuller, Thomas
Conformation of muscle proteins: a laser light-scattering study Journal Article
In: Biochemical Society Transactions, vol. 19, no. 2, pp. 507–508, 1991, ISSN: 0300-5127.
@article{Patkowski1991,
title = {Conformation of muscle proteins: a laser light-scattering study},
author = {Adam Patkowski and Joachim Seils and Wolfgang Eimer and Thomas Dorfmuller},
url = {http://www.ncbi.nlm.nih.gov/pubmed/1653739 http://biochemsoctrans.org/lookup/doi/10.1042/bst0190507},
doi = {10.1042/bst0190507},
issn = {0300-5127},
year = {1991},
date = {1991-04-01},
journal = {Biochemical Society Transactions},
volume = {19},
number = {2},
pages = {507--508},
publisher = {Portland Press Limited},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Deprez, Jean; Dobek, Andrzej; Paillotin, Guy; Trissl, Hans-W.; Breton, Jacques
Excitation trapping and annihilations in the photosynthetic membrane in the picosecond time scale Journal Article
In: Zagadnienia Biofizyki Współczesnej, vol. 15, no. 1, pp. 60-70, 1991.
@article{Depres1991,
title = {Excitation trapping and annihilations in the photosynthetic membrane in the picosecond time scale},
author = {Jean Deprez and Andrzej Dobek and Guy Paillotin and Hans-W. Trissl and Jacques Breton},
year = {1991},
date = {1991-01-01},
journal = {Zagadnienia Biofizyki Współczesnej},
volume = {15},
number = {1},
pages = {60-70},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dobek, Andrzej; Deprez, J; Paillotin, G; Leibl, Winfried; Trissl, H -W; Breton, Jacques
Migration and trapping of the energy in the photosynthetic membrane of Rhodobacter sphaeroides R26.1 probed by photovoltage measurements Incollection
In: Douglas, R H; Moan, J; Ronto, G (Ed.): Light in Biology and Medicine, Vol. 2, pp. 33–43, Plenum Press, New York/London, 1991.
@incollection{Dobek1991,
title = {Migration and trapping of the energy in the photosynthetic membrane of Rhodobacter sphaeroides R26.1 probed by photovoltage measurements},
author = {Andrzej Dobek and J Deprez and G Paillotin and Winfried Leibl and H -W Trissl and Jacques Breton},
editor = {R H Douglas and J Moan and G Ronto},
year = {1991},
date = {1991-01-01},
booktitle = {Light in Biology and Medicine, Vol. 2},
pages = {33--43},
publisher = {Plenum Press},
address = {New York/London},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
1990
Floudas, G; Patkowski, Adam; Fytas, George.; Ballauff, M
Optical anisotropies of nematogens from the depolarized Rayleigh spectra Journal Article
In: The Journal of Physical Chemistry, vol. 94, no. 7, pp. 3215–3219, 1990, ISSN: 0022-3654.
@article{Floudas1990,
title = {Optical anisotropies of nematogens from the depolarized Rayleigh spectra},
author = {G Floudas and Adam Patkowski and George. Fytas and M Ballauff},
url = {http://pubs.acs.org/doi/abs/10.1021/j100370a085},
doi = {10.1021/j100370a085},
issn = {0022-3654},
year = {1990},
date = {1990-04-01},
journal = {The Journal of Physical Chemistry},
volume = {94},
number = {7},
pages = {3215--3219},
publisher = {American Chemical Society},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dobek, Andrzej; Deprez, J; Paillotin, Guy; Leibl, W; Trissl, H -W; Breton, J
In: Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol. 1015, no. 2, pp. 313–321, 1990, ISSN: 00052728.
@article{Dobek1990,
title = {Excitation trapping efficiency and kinetics in Rb. sphaeroides R26.1 whole cells probed by photovoltage measurements on the picosecond time-scale},
author = {Andrzej Dobek and J Deprez and Guy Paillotin and W Leibl and H -W Trissl and J Breton},
url = {https://www.sciencedirect.com/science/article/pii/0005272890900364 http://linkinghub.elsevier.com/retrieve/pii/0005272890900364},
doi = {10.1016/0005-2728(90)90036-4},
issn = {00052728},
year = {1990},
date = {1990-02-01},
journal = {Biochimica et Biophysica Acta (BBA) - Bioenergetics},
volume = {1015},
number = {2},
pages = {313--321},
publisher = {Elsevier},
abstract = {Light-gradient photovoltage measurements in whole cells of the purple bacterium Rb. sphaeroides R26.1 were used to probe the trapping kinetics and the trapping efficiency resulting from 30 ps excitation at 532 nm. The time-course of the photovoltage is described by two distinct phases. The slower phase is characterized by a time constant of 190 ± 10 ps, contributing to about 60% of the total amplitude. It is independent of the excitation energy and of the initial fraction of reaction centers (RC) in the open state (primary donor reduced). This phase is assigned to the forward electron transfer from the bacteriopheophytin intermediary acceptor to the quinone. The fast phase is assigned to the appearance of the primary charge separated state (i.e., trapping). If all the RCs were in the open state before excitation, the time constant of the fast phase decreased from 55 ± 10 ps to less than 40 ps upon increasing the energy of the flash from less than 0.5 to more than 3 photons absorbed per RC. At the latter energy, 90 ± 5% of the RCs are closed by the flash. If the initial concentration of RCs in the closed state was increased from 0 to about 100%, either by background illumination or by preexcitation with another picosecond flash delivered 20 ns before the measuring flash, the mean trapping time increased from 55 ± 10 to 90 ± 15 ps for a probe flash energy corresponding to 0.5 photon absorbed per RC. The data are analyzed and described in terms of the competition between trapping and exciton-exciton annihilation in the lake model of the photosynthetic membrane of purple bacteria (Deprez, J., Paillotin, G., Dobek, A., Leibl, W., Trissl, H.-W. and Breton, J. (1990) Biochim. Biophys. Acta 1015, 295-303). textcopyright 1990.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Deprez, J; Paillotin, G; Dobek, Andrzej; Leibl, W; Trissl, H -W; Breton, J
Competition between energy trapping and exciton annihilation in the lake model of the photosynthetic membrane of purple bacteria Journal Article
In: Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol. 1015, no. 2, pp. 295–303, 1990, ISSN: 00052728.
@article{Deprez1990,
title = {Competition between energy trapping and exciton annihilation in the lake model of the photosynthetic membrane of purple bacteria},
author = {J Deprez and G Paillotin and Andrzej Dobek and W Leibl and H -W Trissl and J Breton},
url = {https://www.sciencedirect.com/science/article/pii/0005272890900342 http://linkinghub.elsevier.com/retrieve/pii/0005272890900342},
doi = {10.1016/0005-2728(90)90034-2},
issn = {00052728},
year = {1990},
date = {1990-02-01},
journal = {Biochimica et Biophysica Acta (BBA) - Bioenergetics},
volume = {1015},
number = {2},
pages = {295--303},
publisher = {Elsevier},
abstract = {General equations are formulated to describe the competition between primary photochemistry (trapping) by photosynthetic reaction centers (RCs) and bimolecular singlet-singlet annihilation which occur upon excitation with picosecond laser flashes. These equations are solved under the assumption of fast equilibration and free energy migration between photosynthetic units (lake model) with homogeneous antenna and of irreversible trapping (the initial charge separation does not repopulate an excited state). The yield and the kinetics of fluorescence and of trapping are calculated as a function of the energy of the picosecond flash and of the fraction of RCs closed before excitation. Theoretical curves are adjusted to fluorescence yield measurements in the purple bacterium Rhodospirillum rubrum (Bakker, J.C.G., Van Grondelle, R. and Den Hollander, W.T.F. (1983) Biochim. Biophys. Acta 725, 508–518) and are used to analyse time-resolved photovoltage measured on Rhodobacter sphaeroides R26.1 whole cells. From these analyses, a parameter that relates the competition between trapping and annihilation as well as the ratio of the quenching efficiency for open and closed RCs are determined.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Trissl, H -W; Breton, J; Deprez, J; Dobek, Andrzej; Leibl, W
In: Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol. 1015, no. 2, pp. 322–333, 1990, ISSN: 00052728.
@article{Trissl1990a,
title = {Trapping kinetics, annihilation, and quantum yield in the photosynthetic purple bacterium Rps. viridis as revealed by electric measurement of the primary charge separation},
author = {H -W Trissl and J Breton and J Deprez and Andrzej Dobek and W Leibl},
url = {https://www.sciencedirect.com/science/article/pii/0005272890900375 http://linkinghub.elsevier.com/retrieve/pii/0005272890900375},
doi = {10.1016/0005-2728(90)90037-5},
issn = {00052728},
year = {1990},
date = {1990-02-01},
journal = {Biochimica et Biophysica Acta (BBA) - Bioenergetics},
volume = {1015},
number = {2},
pages = {322--333},
publisher = {Elsevier},
abstract = {The kinetics and the yield of the primary charge separation in whole cells of Rps. viridis was studied with the light-gradient technique using 30 ps and 12 ns flashes at 532 nm and 1064 nm. When the menaquinone acceptor, QA, of the reaction centers (RCs) is oxidized the primary charge separation occurs with two electrogenic phases. The faster phase with a time constant of 45 ± 20 ps contributed with 40% and the slower phase with a time constant of 140 ± 15 ps contributed with 60% to the total electrogenicity. We interpret the fast phase as the trapping time, monitored by the charge separation between the primary donor P-965 and the intermediary pheophytin acceptor, H. The second phase is ascribed to the electron transfer from H to QA. The reduction of QA, either chemically or photochemically, prior to the flash leaves only the fast rising phase. This signal decays with a time constant of 2.3–2.8 ns. At the excitation wavelength of 1064 nm the quantum yield of primary photochemistry is 0.97 ± 0.07. The reduction of QA does not change the quantum yield. The recombination of the state P+H− when QA is reduced can repopulate the excited state (ant.textperiodcenteredP)∗ as demonstrated by a fluorescence phase with the same time constant. The fast phase of fluorescence was not affected by the reduction of QA, indicating an unaffected primary photochemistry. Fluorescence measurements with double flashes delayed by nanoseconds showed that the quenching power of P+ is approx. 1.4-times smaller than that of P. A comparison of the photovoltage amplitude evoked by 12 ns flashes and 30 ps flashes at 1064 nm revealed marked competition between annihilation and trapping. At 532 nm the competition was less pronounced. The influence of the fraction of closed RCs (as defined by the state P+Q−A on the trapping efficiency was studied by excitation with trains of 30 ps flashes. These data and the data resulting from the nanosecond versus picosecond measurements are analyzed with a theory for the light-gradient photovoltage (Leibl and Trissl (1990) Biochim. Biophys. Acta 1015, 304–312) and a theory of exciton dynamics in the lake model (Deprez et al. (1990) Biochim. Biophys. Acta 1015, 295–303).},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Seils, J; Dorfmuller, Th.; Hinssen, H
Size, shape parameters, and Ca 2+ -induced conformational change of the gelsolin molecule: A dynamic light scattering study Journal Article
In: Biopolymers, vol. 30, no. 3-4, pp. 427–435, 1990, ISSN: 00063525.
@article{Patkowski1990b,
title = {Size, shape parameters, and Ca 2+ -induced conformational change of the gelsolin molecule: A dynamic light scattering study},
author = {Adam Patkowski and J Seils and Th. Dorfmuller and H Hinssen},
url = {http://doi.wiley.com/10.1002/bip.360300320},
doi = {10.1002/bip.360300320},
issn = {00063525},
year = {1990},
date = {1990-01-01},
journal = {Biopolymers},
volume = {30},
number = {3-4},
pages = {427--435},
publisher = {Wiley Subscription Services, Inc., A Wiley Company},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Eimer, W; Dorfmuller, Th.
Internal dynamics of tRNA Phe studied by depolarized dynamic light scattering Journal Article
In: Biopolymers, vol. 30, no. 9-10, pp. 975–983, 1990, ISSN: 00063525.
@article{Patkowski1990c,
title = {Internal dynamics of tRNA Phe studied by depolarized dynamic light scattering},
author = {Adam Patkowski and W Eimer and Th. Dorfmuller},
url = {http://www.ncbi.nlm.nih.gov/pubmed/2092826 http://doi.wiley.com/10.1002/bip.360300912},
doi = {10.1002/bip.360300912},
issn = {00063525},
year = {1990},
date = {1990-01-01},
journal = {Biopolymers},
volume = {30},
number = {9-10},
pages = {975--983},
abstract = {The collective internal dynamics of transfer RNA(Phe) from brewer's yeast in solution was studied by depolarized dynamic light scattering (DDLS). Within the melting region of tRNA the depolarized spectra consist of two Lorentzian, where the narrow (slow) component describes the overall rotation of the macromolecule. The broad component is attributed to the collective reorientation of the bases within the biopolymer. At high temperature only this relaxation process is observed in the spectrum. The viscosity dependence of the collective internal relaxation process is described by the Stokes-Einstein-Debye equation for rotational diffusion. Estimates of the internal orientational pair correlation factor from the integral depolarized intensities of tRNA(Phe) solutions indicates that the observed dynamics correspond to the collective reorientation of approximately 5 bases. A comparison of the results presented with DDLS studies on the aggregation of the mononucleotide guanosine-5'-monophosphate confirms this result. For a further characterization of the relaxation process we studied the effect of hydrostatic pressure (1-1000 bar) on the depolarized spectra of tRNA. While other spectroscopic methods like nmr, fluorescence polarization anisotropy decay, or ESR give information about the very local motion of a single base within the DNA or RNA, this study shows that by DDLS one can characterize collective internal motions of macromolecules.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Eimer, W; Dorfmuller, Th.
A polarized and depolarized dynamic light scattering study of the tRNA phe conformation in solution Journal Article
In: Biopolymers, vol. 30, no. 1-2, pp. 93–105, 1990, ISSN: 00063525.
@article{Patkowski1990d,
title = {A polarized and depolarized dynamic light scattering study of the tRNA phe conformation in solution},
author = {Adam Patkowski and W Eimer and Th. Dorfmuller},
url = {http://doi.wiley.com/10.1002/bip.360300111},
doi = {10.1002/bip.360300111},
issn = {00063525},
year = {1990},
date = {1990-01-01},
journal = {Biopolymers},
volume = {30},
number = {1-2},
pages = {93--105},
publisher = {Wiley Subscription Services, Inc., A Wiley Company},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Patkowski, Adam; Eimer, W; Seils, J; Schneider, G; Jockusch, B M; Dorfmuller, Th.
The molecular dimensions of G-actin in solution as studied by dynamic light scattering Journal Article
In: Biopolymers, vol. 30, no. 13-14, pp. 1281–1287, 1990, ISSN: 00063525.
@article{Patkowski1990,
title = {The molecular dimensions of G-actin in solution as studied by dynamic light scattering},
author = {Adam Patkowski and W Eimer and J Seils and G Schneider and B M Jockusch and Th. Dorfmuller},
url = {http://doi.wiley.com/10.1002/bip.360301312},
doi = {10.1002/bip.360301312},
issn = {00063525},
year = {1990},
date = {1990-01-01},
journal = {Biopolymers},
volume = {30},
number = {13-14},
pages = {1281--1287},
publisher = {Wiley Subscription Services, Inc., A Wiley Company},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Trissl, H -W; Deprez, J; Dobek, Andrzej; Leibl, W; Paillotin, G; Breton, J
Competition between Trapping and Annihilation in Rps. Viridis Probed by Fast Photovoltage Measurements Incollection
In: Drews, G; Daves, E A (Ed.): Molecular Biology of Membrane-Bound Complexes in Phototrophic Bacteria, pp. 337-344, Plenum Press, New York, 1990.
@incollection{Trissl1990b,
title = {Competition between Trapping and Annihilation in Rps. Viridis Probed by Fast Photovoltage Measurements},
author = {H -W Trissl and J Deprez and Andrzej Dobek and W Leibl and G Paillotin and J Breton},
editor = {G Drews and E A Daves},
url = {http://link.springer.com/10.1007/978-1-4757-0893-6_40},
doi = {10.1007/978-1-4757-0893-6_40},
year = {1990},
date = {1990-01-01},
booktitle = {Molecular Biology of Membrane-Bound Complexes in Phototrophic Bacteria},
pages = {337-344},
publisher = {Plenum Press},
address = {New York},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
Trissl, H -W; Breton, J; Deprez, J; Dobek, Andrzej; Paillotin, G; Leibl, W
Competition between trapping and annihilation in photosystem I Incollection
In: Baltscheffsky, M (Ed.): Current Research in Photosynthesis, vol. 2, pp. 329-332, Kluver Academic Publishers, Dordrecht, 1990.
@incollection{Trissl1990bb,
title = {Competition between trapping and annihilation in photosystem I},
author = {H -W Trissl and J Breton and J Deprez and Andrzej Dobek and G Paillotin and W Leibl},
editor = {M Baltscheffsky},
url = {http://link.springer.com/10.1007/978-94-009-0511-5_299},
doi = {10.1007/978-94-009-0511-5_299},
year = {1990},
date = {1990-01-01},
booktitle = {Current Research in Photosynthesis},
volume = {2},
pages = {329-332},
publisher = {Kluver Academic Publishers},
address = {Dordrecht},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
Patkowski, Adam; Seils, J; Buß, F; Jockusch, B M; Dorfmuller, Th.
Size and shape parameter of the actin-binding protein profilin in solution: A depolarized and polarized dynamic light scattering study Journal Article
In: Biopolymers, vol. 30, no. 1-2, pp. 219–222, 1990, ISSN: 00063525.
@article{Patkowski1990a,
title = {Size and shape parameter of the actin-binding protein profilin in solution: A depolarized and polarized dynamic light scattering study},
author = {Adam Patkowski and J Seils and F Buß and B M Jockusch and Th. Dorfmuller},
url = {http://doi.wiley.com/10.1002/bip.360300123},
doi = {10.1002/bip.360300123},
issn = {00063525},
year = {1990},
date = {1990-01-01},
journal = {Biopolymers},
volume = {30},
number = {1-2},
pages = {219--222},
publisher = {Wiley Subscription Services, Inc., A Wiley Company},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
1989
Dobek, Andrzej
Spektroskopia pikosekundowa w badaniach biologicznych Incollection
In: Twardowski, J (Ed.): Biospektroskopia, pp. 105–232, Wydawnictwo Naukowe PWN, Warszawa, 1989.
@incollection{Dobek1989,
title = {Spektroskopia pikosekundowa w badaniach biologicznych},
author = {Andrzej Dobek},
editor = {J Twardowski},
year = {1989},
date = {1989-01-01},
booktitle = {Biospektroskopia},
pages = {105--232},
publisher = {Wydawnictwo Naukowe PWN},
address = {Warszawa},
keywords = {},
pubstate = {published},
tppubtype = {incollection}
}
1988
Fytas, G; Patkowski, Adam; Meier, G; Fischer, E W
Optical anisotropy of polysiloxanes in bulk and solution by depolarized Rayleigh scattering Journal Article
In: Macromolecules, vol. 21, no. 11, pp. 3250–3254, 1988, ISSN: 0024-9297.
@article{Fytas1988,
title = {Optical anisotropy of polysiloxanes in bulk and solution by depolarized Rayleigh scattering},
author = {G Fytas and Adam Patkowski and G Meier and E W Fischer},
url = {http://pubs.acs.org/doi/abs/10.1021/ma00189a020},
doi = {10.1021/ma00189a020},
issn = {0024-9297},
year = {1988},
date = {1988-11-01},
journal = {Macromolecules},
volume = {21},
number = {11},
pages = {3250--3254},
publisher = {American Chemical Society},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dobek, Andrzej
Pierwotne reakcje fizyczne w procesie widzenia Journal Article
In: Zeszyty Naukowe Uniwersytetu Jagiellońskiego, DCCCLXXV, prace z biol. mol., vol. 17, pp. 97–106, 1988.
@article{Dobek1988,
title = {Pierwotne reakcje fizyczne w procesie widzenia},
author = {Andrzej Dobek},
year = {1988},
date = {1988-01-01},
journal = {Zeszyty Naukowe Uniwersytetu Jagiellońskiego, DCCCLXXV, prace z biol. mol.},
volume = {17},
pages = {97--106},
keywords = {},
pubstate = {published},
tppubtype = {article}
}