List of publications

Here you can find the publications from 2011 up to now


2020

  1. Kuznetsova, V., Dominguez-Martin, M.A., Bao, H., Gupta, S., Sutter, M., Kloz, M., Rebarz, M., Přeček, M., Chen, Y., Petzold, C.J., Ralston, C.Y., Kerfeld, C.A., Polívka, T. Comparative ultrafast spectroscopy and structural analysis of OCP1 and OCP2 from Tolypothrix. BBA-Bioenergetics, 1861, 148120, 2020.
  2. P. Kayshap, A. K. Srivastava, S. K. Tiwari,P. Jelínek, M. Mathioudakis, Propagation of waves above a plage as observed by IRIS and SDO,Astronomy and Astrophysics 634, A63, 2020. https://doi.org/10.1051/0004-6361/201936070
  3. D. Biriukov, P. Fibich, M. Předota, Zeta Potential Determination from Molecular Simulations, J. Phys. Chem. C 124, 3159, 2020. https://doi.org/10.1021/acs.jpcc.9b11371
  4. Staleva-Musto, H.,Kuznetsova, V.,Bína, D., Litvín, R., Polívka, T. Intramolecular charge transfer state of carotenoids siphonaxanthin and siphonein: Function of non-conjugated acyl-oxy group. Photosynth. Res. 2020, In press.
  5. M. Rycewicz, L. Macewicz,J. Kratochvil, A. Stanisławska, M. Ficek, M. Sawczak,V. Stranak, M. Szkodo, R. Bogdanowicz, Physicochemical and Mechanical Performance of Freestanding Boron-Doped Diamond Nanosheets Coated with C:H:N:O Plasma Polymer, Materials, 13, (2020), 1861. https://doi.org/10.3390/ma13081861
  6. M. Bischoff, D. Biriukov, M. Předota, S. Roke, A. Marchioro, Surface Potential and Interfacial Water Order at the Amorphous TiO2 Nanoparticle/Aqueous Interface, J. Phys. Chem. C 124, 10961, 2020. https://doi.org/10.1021/acs.jpcc.0c01158
  7. P. Jelínek, M. Karlický, V. Smirnova, A. Solov'ev, Transverse oscillations of the double-structured solar filament,Astronomy and Astrophysics637, A42, 2020. https://doi.org/10.1051/0004-6361/201936836
  8. J. Kratochvíl,V. Stranak, J. Kousal, P. Kúš, O. Kylián, Theoretical and experimental analysis of defined 2D-graded two-metal nanoparticle-build surfaces, Applied Surface Science, 551, (2020), 145530. https://doi.org/10.1016/j.apsusc.2020.145530
  9. M. Vaidulych, P. Pleskunov,J. Kratochvíl, H. Mašková, P. Kočová, D. Nikitin, J. Hanuš, O. Kylián, J. Štěrba, H. Biederman, A. Choukourov, Convex vs concave surface nano-curvature of Ta2O5 thin films for tailoring the osteoblast adhesion, Surface and Coatings Technology, in press, 2020, 125805
  10. M. Předota, D. Biriukov, Electronic Continuum Correction without Scaled ChargesJ. Mol. Liq. 314, 113571 , 2020. https://doi.org/10.1016/j.molliq.2020.113571
  11. O. Kroutil, S. Pezzotti, M.-P. Gaigeot,M. Předota, Phase-Sensitive Vibrational SFG Spectra from Simple Classical Force Fields Molecular Dynamics Simulations, J. Phys. Chem. C 124, 15253, 2020. https://doi.org/10.1021/acs.jpcc.0c03576
  12. Adamec, F., Farci, D., Bína, D., Litvín, R., Khan, T., Fuciman, M., Piano, D., Polívka, T. Photophysics of deinoxanthin, the keto-carotenoid bound to the main S-layer unit of Deinococcus radiodurans. Photobiol. Sci. 19, 495-503, 2020. https://doi.org/10.1039/d0pp00031k
  13. Khan, T., Dominguez-Martin, M.A., Šímová, , Fuciman, M., Kerfeld, C.A., Polívka, T. Excited state properties of canthaxanthin in cyanobacterial carotenoid-binding proteins HCP2 and HCP3. J. Phys. Chem. B, 124, 4896-4905, 2020. https://doi.org/10.1021/acs.jpcb.0c03137
  14. Saccon, F., Durchan, M., Bína, D., Duffy, C.D.P., Ruban, A.V., Polívka, T. A protein environment-modulated energy dissipation channel in LHCII antenna complex. iScience, 23, 101430, 2020. https://doi.org/10.1016/j.isci.2020.101430
  15. Šebelík, V., Kloz, M., Rebarz, M., Přeček, M., Kang, E-H., Choi, T-L., Christensen, R.L., Polívka, T. Spectroscopy and excited state dynamics of nearly infinite polyenes. Chem. Chem. Phys. 22, 17867-17879, 2020. https://doi.org/10.1039/d0cp02465a
  16. Šebelík, V., West, R.G., Kuthanová Trsková, E., Kaňa, R., Polívka, T. Energy Transfer Pathways in the CAC Light-Harvesting Complex of Rhodomonas salina. BBA-Bioenergetics, 1861, 148280, 2020.https://doi.org/10.1016/j.bbabio.2020.148280/
  17. Dominguez-Martin, M.A., Hammel, M., Gupta, S., Lechno-Yossef, S., Sutter, M., Rosenberg, D.J., Chen, Y., Petzold, C.J., Ralston, C., Polívka, T., Kerfeld, C.A. Structural analysis of a new carotenoid-binding protein: The C-terminal domain homolog of the OCP. Scientific Reports, 10, 15564, 2020. https://doi.org/10.1038/s41598-020-72383-y
  18. Saccon, F., Durchan, M., Polívka, T., Ruban, A.V. The robustness of the terminal emitter site in major LHCII complexes controls xanthophyll function during photoprotection. Photobiol. Sci. 19, 1308-1318, 2020. https://doi.org/10.1039/d0pp00174k
  19. Bould, J., Lang, , Kirakci, K., Cerdán, L., Roca-Sanjuan, D., Frances, A., Clegg, W., Waddell, P.G., Fuciman, M., Polívka, T., Londesborough, M.G.S. A Series of ultra-efficient blue borane fluorophores. Inorg. Chem., in press. https://doi.org/10.1021/acs.inorgchem.0c02277
  20. V. Prysiazhnyi, F. Dycka, J. Kratochvil, J. Sterba, V. Stranak, Gas-aggregated Ag nanoparticles for detection of small molecules using LDI MS, Analytical and Bioanalytical Chemistry, 2020 https://doi.org/10.1007/s00216-019-02329-5
  21. M. Smietana, M. Koba, P. Sezemsky, K. Szot-Karpinska, D. Burnat, V. Stranak, J. Niedziołka-Jonsson, R. Bogdanowicz, Simultaneous optical and electrochemical label-free biosensing with ITO-coated lossy-mode resonance sensor, Biosensors and Bioelectronics 154 (2020) 112050. https://doi.org/10.1016/j.bios.2020.112050
  22. V. Prysiaznyi, F. Dycka, J. Kratochvil, V. Stranak, V. Popok, Effect of Ag Nanoparticle Size on Ion Formation inNanoparticle Assisted LDI MS, Appl. Nano 1, (2020), 3–13; https://doi.org/10.3390/applnano1010002
  23. Janik, P. Niedzialkowski, K. Lechowicz, M. Koba, P. Sezemsky, T. Ossowski, M. Smietana, Electrochemically directed biofunctionalization of a lossy-mode resonance optical fiber sensor, Optical Express 28, (2020), 15934-15942. https://doi.org/10.1364/OE.390780
  24. B. Michalak, P. Sezemsky, V. Stranak, M. Smietana, Effect of thermal annealing on sensing properties of optical fiber sensors coated with indium tin oxide nano-overlays, Photonics Letters of Poland 12, (2020), 58-60. http://photonics.pl/PLP/index.php/letters/article/view/12-20
  25. V. Prysiaznyi, F. Dycka, J. Kratochvil, V. Stranak, Gas aggregated Ag NPs as a matrix for small molecules: a study on natural amino acids, J. Nanoparticle Res. 22, (2020) 351. https://doi.org/10.1007/s11051-020-05082-4

2019

  1. P. Niedziałkowski, W. Białobrzeska, D. Burnat, P. Sezemsky, V. Stranak, H. Wulff, T. Ossowski, R. Bogdanowicz, M. Koba, M. Smietana, Electrochemical performance of indium-tin-oxide-coated lossy-mode resonance optical fiber sensor, Sensors and Actuators B, (2019), 127043 https://doi.org/10.1016/j.snb.2019.127043
  2. P. Sezemsky,V. Stranak, J. Kratochvil, M. Čada, R. Hippler, M. Hrabovsky, Z. Hubicka, Modified high frequency probe approach for diagnostics of highly reactive plasma, Plasma Sources Science and Technology, 28 (2019), 115009 https://doi.org/10.1088/1361-6595/ab506c
  3. Dominguez-Martin, M.A.,Polívka, T., Sutter, M., Ferlez, B. Lechno-Yossef, S., Montgomery, B., Kerfeld, C. Structural and spectroscopic characterization of HCP2. BBA-Bioenergetics,1860, 414-424, 2019.
  4. M. Smietana, P. Niedziałkowski, W. Białobrzeska, D. Burnat,P. Sezemsky, M. Koba,V. Stranak, K. Siuzdak, T. Ossowski, R. Bogdanowicz, Study on Combined Optical and Electrochemical Analysis Using Indium-tin-oxide-coated Optical Fiber Sensor, Electroanalysis, 31, 1 –8 (2019) https://doi.org/10.1002/elan.201800638
  5. R. Hippler , M. Cada ,V. Stranak, C. A. Helm ,Z. Hubicka, Pressure dependence of singly and doubly charged ion formation in a HiPIMS discharge, J. Appl. Phys. 125, 013301 (2019) https://doi.org/10.1063/1.5055356
  6. V. Prysiazhnyi,F. Dycka, J. Kratochvil, V. Stranak, P. Ksirova, Z. Hubicka, Silver nanoparticles for solvent-free detection of small molecules and mass-to-charge calibration of laser desorption/ionization mass spectrometry, Journal of Vacuum Science & Technology B 37, 012906, (2019) https://doi.org/10.1116/1.5050878
  7. Bína, D.,Durchan, M., Kuznetsova, V., Vácha, F., Litvín, R.,Polívka, T. Energy transfer dynamics in a red-shifted violaxanthin-chlorophyll a light harvesting complex. BBA-Bioenergetics, 1860, 111-120, 2019.
  8. M. L. Machesky, M. K. Ridley,D. Biriukov, O. Kroutil, M. Předota: “Oxalic Acid Adsorption on Rutile: Experiments and Surface Complexation Modeling to 150 °C”,Langmuir 35, 7631-7640 (2019), https://doi.org/10.1021/acs.langmuir.8b03982
  9. Balevičius, V., Wei, T., Di Tommaso, D., Abramavicius, D., Hauer, J.,Polívka, T., Duffy, C. The full dynamics of energy relaxation in large organic molecules: from photo-excitation to solvent heating. Chemical Science,10, 4792-4804, 2019.
  10. P. Jelínek, M. Karlický, Pulse-beam heating of deep atmospheric layers, their oscillations and shocks modulating the flare reconnection,Astronomy and Astrophysics 625, A3, 2019. https://doi.org/10.1051/0004-6361/201935188
  11. V. Prysiazhnyi, J. Kratochvíl, O. Kylián,V. Stranak, Reactive sputtering deposition of plasma polymerized nylon films with embedded NHx groups, Surface & Coatings Technology, 363, 120-127 (2019) https://doi.org/10.1016/j.surfcoat.2019.02.046
  12. D. Biriukov, O. Kroutil, M. Kabeláč, M. K. Ridley, M. L. Machesky,M. Předota: “Oxalic Acid Adsorption on Rutile: Molecular Dynamics and ab Initio Calculations”, Langmuir 35, 7617-7630 (2019), https://doi.org/10.1021/acs.langmuir.8b03984
  13. R. Hippler, M. Čada, M. Čada,V. Stranak, Z. Hubička, Ion formation in an argon and argon-oxygen gas mixture of a magnetron sputtering discharge, J. Phys. Commun.,3, 055011 (2019) https://doi.org/10.1088/2399-6528/ab1e82
  14. M. Sobaszek, D. Burnat,P. Sezemsky, V. Stranak, R. Bogdanowicz, M. Koba, K. Siuzdak, M. Śmietana, Enhancing electrochemical properties of an ITO-coated lossy-mode resonance optical fiber sensor by electrodeposition of PEDOT:PSS, 9, 3069-3078 (2019) https://doi.org/10.1364/OME.9.003069
  15. Šebelík, V., Fuciman, M., West, R.,Polívka, T. Time-resolved two-photon spectroscopy of carotenoids. Chem. Phys. 522, 171-177, 2019.
  16. J. Kratochvíl, D. Kahoun, O. Kylián, J. Štěrba, T. Kretková, J. Kousal, J. Hanuš, J. Vaclová,V. Prysiazhnyi, P. Sezemský, P. Fojtíková, J. Lieskovská, H. Langhansová, I. Krakovský, V. Straňák, Nitrogen enriched C:H:N:O thin films for improved antibiotics doping, Applied Surface Science, (2019) https://doi.org/10.1016/j.apsusc.2019.07.135
  17. Koliada I. , Balk H., Tušer M.,Ptáček L., Kubečka J. (2019) Limitations of target detection in horizontal acoustic surveys of extremely shallow water bodies Fisheries Research 218: 94-104 .DOI: 10.1016/j.fishres.2019.05.005
  18. Prysiazhnyi, V.,Kratochvíl, J., Straňák, V., Tailored wettability of plasma polymers made of C-F, C-H, and N-H, Plasma processes and Polymers (2019) e1900076, DOI: 10.1002/ppap.201900076
  19. Janczuk-Richter, M., Piestrzynska, M., Burnat, D.,Sezemsky, P.Stranak, V., Bock, W.J., Bogdanowicz, R., Niedziolka-Jonsson, J., Smietana, M., Optical investigations of electrochemical processes using a long-period fiber grating functionalized by indium tin oxide, Sensors and actuators B-chemical (2019), DOI: 10.1016/j.snb.2018.10.001
  20. A. K. Srivastava, S. K. Mishra,P. Jelínek,T. Samanta, H. Tian, V. Pant, P. Kayshap, D. Banerjee, J. G. Doyle, B. N. Dwivedi, On the Observations of Rapid Forced Reconnection in the Solar Corona, The Astrophysical Journal 887, 2, 2019. https://doi.org/10.3847/1538-4357/ab4a0c5
  21. A. Marchioro, M. Bischoff, C. Lütgebaucks,D. Biriukov,M. Předota and S. Roke, Surface Characterization of Colloidal Silica Nanoparticles by Second Harmonic Scattering: Quantifying the Surface Potential and Interfacial Water Order, J. Phys. Chem. C 123, 20393−20404 (2019), DOI: 10.1021/acs.jpcc.9b05482
  22. Staleva-Musto, H., West, R.G., Trathnigg, M., Bína, D., Litvín, R.,Polívka, T. Carotenoid-chlorophyll energy transfer in the fucoxanthin-chlorophyll complex binding a fucoxanthin acyloxy derivative. Faraday Discussions, 216, 460-475, 2019.
  23. Wei, T., Balevičius, V.,Polívka, T. Ruban, A.V., Duffy, C.D.P. How carotenoid distortions determine optical properties: Lessons from the Orange Carotenoid Protein. Phys. Chem. Chem. Phys. 21 23187-23197, 2019.
  24. Saccon, F.,Durchan, M., Kaňa, R., Prášil, O., Ruban, A.V., Polívka, T. Spectroscopic properties of carotenoid triplet states in LHCII are independent of carotenoid composition. J. Phys. Chem. B, 123, 9312-9320, 2019.
  25. Yamini K. Rao, Abhishek K. Srivastava,Pradeep Kayshap, and Bhola N. Dwivedi, Signatures of red-shifted foot points in the quiescent coronal loop system, Ann. Geophys., 2019, 765, 35
  26. Yamini K. Rao, Abhishek K. Srivastava,Pradeep Kayshap, Klaus Wilhelm, and Bhola N. Dwivedi, Plasma Flows in the Cool Loop Systems, 2019, ApJ, 874,56

2018

  1. Abhishek Kumar Srivastava, Krzysztof Murawski, Blażej Kuźma, Dariusz Patryk Wójcik, Teimuraz V. Zaqarashvili , Marco Stangalini , Zdzislaw E. Musielak, John Gerard Doyle, Pradeep Kayshap, and Bhola, N. Dwivedi, Confined pseudo-shocks as an energy source for the active solar corona, Nature Astronomy, 2018, 2, 951
  2. Pech J., Novak M., Ptacek L., Kalova J.: Construction of Vertical Scanner for Laser Analysis of Gel Samples. IV International Conference on Information Technologies in Engineering Education (Inforino). 2018. DOI: 10.1109/INFORINO.2018.8581832
  3. Hurbanova K., Nebesarova J., Ruzicka F., Krzyzanek V. 2018: The innovation of cryo-SEM freeze-fracturing methodology demonstrated on high pressure frozen biofilm. Micron, 110, 28-35.
  4. Kučera D., Pernicová I., Kovalčík A., Koller M., Mullerova I., Sedláček P., Mravec F., Nebesářová J., Kalina M., Marová I., Krzyzanek V., Obruča S. 2018: Characterization of the promising poly(3-hydroxybutyrate) producing halophilic bacterium Halomonas halophila. Bioresour Technol, 256, 552-556
  5. Ptáček, L.: Automatické rozpoznávání a identifikace ptáků, Automatic bird identification and verification. Skripta. Jihočeská Univerzita v Č. Budějovicích, Přírodovědecká fakulta. 2018, ISBN 978-80-7394-722-4.
  6. Ptáček, L., Dolejší, M.: Měření a práce s audio analyzátorem Audio Precision. Technická příručka. Jihočeská Univerzita v Č. Budějovicích, Přírodovědecká fakulta. 2018, ISBN 978-80-7394-723-1.
  7. Matoušková M.; Bílý T.; Bruňanská M.; Mackiewicz J.S., Nebesářová J. 2018: Ultrastructure, cytochemistry and electron tomography analysis of Caryophyllaeides fennica (Schneider, 1902) (Cestoda: Lytocestidae) reveals novel spermatology characteristics in the Eucestoda. Parasitology Research, doi: 10.1007/s00436-018-6001-9
  8. Kratochvíl, J. Štěrba, J. Lieskovská, H. Langhansová, A. Kuzminova, I. Khalakhan, O. Kylián,V. Straňák. Antibacterial effect of Cu/C:F nanocomposites deposited on PEEK substrates, Materials Letters, 230 (2018) 96-99
  9. Stranak, R. Bogdanowicz,P. Sezemsky, H. Wulff, A. Kruth, M. Smietana,J. Kratochvil, M. Cada, Z. Hubicka. Towards high quality ITO coatings: The impact of nitrogen admixture in HiPIMS discharges, Surface & Coatings Technology 335 (2018) 126-133
  10. Biriukov, O. Kroutil, M. Předota. Modeling of the Solid-Liquid Interface using Scaled Charges: Rutile (110), Physical Chemistry Chemical Physics20, 23954 - 23966 (2018).https://doi.org/10.1039/C8CP04535F
  11. McLaughlin, V. M. Nakariakov, M. Dominique, P. Jelínek, S. Takasao, Modelling Quasi-periodic Pulsations in Solar and Stellar Flares,Space Sci. Rev.214, 45, 2018. https://doi.org/10.1007/s11214-018-0478-5
  12. Murawski , P. Kayshap, A. K. Srivastava, D. J. Pascoe, P. Jelínek, B. Kuźma, V. Fedun, Magnetic swirls and associated kink waves in a solar chromospheric flux tube,Monthly Notices of the Royal Astronomical Society474 (1), 77, 2018. https://doi.org/10.1093/mnras/stx2763
  13. Šlouf, V., Keşan, G., Litvín, R., Swainsbury, D.J.K., Martin, E.C., Hunter, C.N., Polívka, T. Carotenoid to bacteriochlorophyll energy transfer in the RC-LH1-PufX complex from Rhodobacter sphaeroides containing the extended conjugation keto-carotenoid diketospirilloxanthin. Photosynth. Res. 135, 33-43, 2018.
  14. West, R.G., Bína, D., Fuciman, M., Kuznetsova, V., Litvín, R., Polívka, T. Ultrafast multi-pulse transient absorption spectroscopy of fucoxanthin chlorophyll a protein from Phaeodactylum tricornutum. BBA-Bioenergetics, 1859, 357-365, 2018.
  15. Staleva-Musto, H., Kuznetsova, V., West, R.G., Keşan, G., Minofar, B., Fuciman, M., Bína, D., Litvín, R., Polívka, T. Non-conjugated acyloxy group deactivates the intramolecular charge transfer state in the carotenoid fucoxanthin. J. Phys. Chem. B. 122, 2922-2930, 2018.
  16. Hontani, Y., Kloz, M., Polívka, T., Shukla, M.K., Sobotka, R., Kennis, J.T.M. Molecular origin of photoprotection in oxygenic photosynthesis probed by femtosecond Raman spectroscopy. J. Phys. Chem. Lett. 9, 1788-1792, 2018.
  17. West, R,G., Fuciman, M., Staleva-Musto, H., Šebelík, V., Bína, D., Durchan, M., Kuznetsova, V., Polívka, T. Equilibration dependence of fucoxanthin S1 and ICT signatures on polarity, proticity, and temperature by multi-pulse femtosecond absorption spectroscopy. J. Phys. Chem. B, 122, 7264-7276, 2018.
  18. Brkljača, D. Namjesnik, J. Lützenkirchen,M. Předota, and T. Preočanin. Quartz/Aqueous Electrolyte Solution Interface: Molecular Dynamic Simulation and Interfacial Potential Measurements,J. Phys. Chem. C 122, 24025-24036 (2018). https://dx.doi.org/10.1021/acs.jpcc.8b04035

    2017

    1. Kratochvíl, D. Kahoun, J. Štěrba, H. Langhansová, J. Lieskovská, P. Fojtíková, J. Hanuš, J. Kousal, O. Kylián,V. Straňák. Plasma polymerized C:H:N:O thin films for controlled release of antibiotic substances, Plasma processes and Polymers 15 (2018) e1700160
    2. Dachev, M., Bína, D., Sobotka, R., Moravcová, L., Gardian, Z., Kaftan, D., Šlouf, V., Fuciman, M., Polívka, T., Koblížek, M. Unique double concentric ring organization of light harvesting complexes in Gemmatimonas phototrophica. PloS Biol 15 (12), e2003943, 2017.
    3. Stranak, V.Kratochvil, J., Olejnicek, J., Ksirova, P., Sezemsky, P., Cada, M., Hubicka, Z., Enhanced oxidation of TiO2 films prepared by high power impulse magnetron sputtering running in metallic mode, Journal of Applied Physics 121, 17, 2017.
    4. Jelínek, M. Karlický, T. Van Doorsselaere, M. Bárta, Oscillations excited by plasmoids formed during magnetic reconnection in vertical gravitationally stratified current-sheet, The Astrophysical Journal847, 98, 2017.https://doi.org/10.3847/1538-4357/aa88a6
    5. Kroutil, M. Předota, M. Kabeláč: “Force Field Parametrization of Hydrogenoxalate and Oxalate Anions with Scaled Charges”, J. Mol. Model.23:327, 2017.
    6. Šlouf, V., Kuznetsova, V., Fuciman, M., Bourcier de Carbon, C., Wilson, A., Kirilovsky, D., Polívka, T. Ultrafast spectroscopy tracks carotenoid configurations in the Orange and Red Carotenoid Proteins from cyanobacteria. Photosynth. Res. 131, 105, 2017.
    7. Dvorakova, V., Ptacek, L., Hrouzkova, E., Muller, L., Sumbera, R.:  Mashona Mole-Rat Automatic Individual Identification Based on the Mating Calls, 2017, bioRxiv /2017/129452; doi: https://doi.org/10.1101/ 129452
    8. Ptacek, L., Vanek, J., Eisner, J., Pruchova, A., Linhart, P., Muller, L., Jirotkova, D.: Bird-Adapted Filter for Avian Species and Individual Identification Systems Improvement. International Journal of Physical and Mathematical Sciences, Vol:4, No:6, 2017.
    9. Llansola-Portoles, M.J., Sobotka, R., Kish, E., Shukla, M.K., Pascal, A.A., Polívka, T., Robert, B. Twisting a β-carotene, an adaptive trick from nature for dissipating energy during photoprotection. J. Biol. Chem. 292, 1396, 2017.
    10. Kuznetsova, V., Southall, J., Cogdell, R.J., Fuciman, M., Polívka, T. Spectroscopic properties of the S1 state of linear carotenoids after excess energy excitation. Chem. Phys. Lett. 683, 448, 2017.
    11. Kuznetsova, V., Chábera, P., Litvín, R., Polívka, T., Fuciman, M. Effect of isomerization on excited-state dynamics of the carotenoid fucoxanthin. J. Phys. Chem. B 121, 4438, 2017.
    12. Šlouf, V., Keşan, G., Litvín, R., Swainsbury, D.J.K., Martin, E.C., Hunter, C.N., Polívka, T. Carotenoid to bacteriochlorophyll energy transfer in the RC-LH1-PufX complex from Rhodobacter sphaeroides containing the extended conjugation keto-carotenoid diketospirilloxanthin. Photosynth. Res. In press.

    2016

    1. Předota, M. L. Machesky, D. J. Wesolowski, Molecular Origins of the Zeta Potential,Langmuir32, 10189–10198, 2016.
    2. Karlický, P. Jelínek, Quasi-periodic processes in the flare loop generated by sudden temperature enhancements at loop footpoints,Astronomy and Astrophysics,590, A4, 2016. https://doi.org/10.1051/0004-6361/201527306
    3. M. Nakariakov,  V. Pilipenko,  B. Heilig, P. Jelínek,  M. Karlický,  D. Y. Klimushkin, D. Y. Kolotkov,  D.-H. Lee,  G. Nisticò,  T. Van Doorsselaere,  G. Verth,  I.V. Zimovets, Magnetohydrodynamic Oscillations in the Solar Corona and Earth's Magnetosphere: Towards Consolidated Understanding,Space Sci. Rev.,200(1), 75, 2016. https://doi.org/10.1007/s11214-015-0233-0
    4. Kroutil, M. Předota, and Z. Chval, Pt···H Nonclassical Interaction in Water-Dissolved Pt(II) Complexes: Coaction of Electronic Effects with Solvent-Assisted Stabilization,Inorg. Chem. 55, 3252–3264 (2016).
    5. Keşan, G., Litvín, R., Bína, D., Durchan, M., Šlouf, V. Polívka, T. Efficient light-harvesting using non-carbonyl carotenoids: Energy transfer dynamics in the VCP complex from Nannochloropsis oceanica. Biochim. Biophys. Acta, 1857, 370-379, 2016.
    6. Kvíčalová, Z., Alster, J., Johanning, S., Hofmann, E., Khoroshyy, P., Litvín, R., Bína, D., Polívka, T., Pšenčík, J. Triplet-triplet energy transfer from chlorophylls to carotenoids in two antenna complexes from dinoflagellate Amphidinium carterae. Biochim. Biophys. Acta, 1857, 341-349, 2016.
    7. Adamec, F., Greco, J.A., LaFountain, A.M., Magdaong, N.M., Fuciman, M., Birge, R.R., Polívka, T., Frank, H.A. Spectroscopic investigation of a brightly colored psittacofulvin pigment from parrot feathers. Chem. Phys. Lett, 648, 195-199, 2016.
    8. West, R., Keşan, G., Trsková, E., Sobotka, R., Kaňa, R., Fuciman, M., Polívka, T. Spectroscopic properties of the triple bond carotenoid alloxanthin. Chem. Phys. Lett. 653, 167-172, 2016.
    9. Niedzwiedzki, D.M., Tronina, T., Liu, H., Staleva, H., Komenda, J., Sobotka, R., Blankenship, R.E., Polívka, T. Carotenoid-induced non-photochemical quenching in the cyanobacterial chlorophyll synthase-HliC/D complex. BBA-Bioenergetics, 1857, 1430-1439, 2016.
    10. Kloz, M., Weissenborn, J., Polívka, T., Frank, H. A., Kennis, J.T.M. Spectral watermarking in Raman spectroscopy. Phys. Chem. Chem. Phys. 18, 14619-14628, 2016.
    11. Balevičius, V., Abramavicius, D., Pour, A. G., Polívka, T., Hauer, J. A unified picture of S* in carotenoids. J. Phys. Chem. Lett. 7, 3347-3352, 2016.
    12. Pinnola, A., Staleva-Musto, H., Capaldi, S., Ballottari, M., Bassi, R., Polívka, T. Electron transfer between carotenoid and chlorophyll contributes to quenching in the LHCSR1 protein from Physcomitrella patens.  BBA-Bioenergetics 1857, 1870-1878, 2016.

    2015

    1. Kesan G., Durchan M., Tichý J., Minofar B., Kuznetsova V., Fuciman M., Šlouf V., Parlak C., Polívka T. Different Response of Carbonyl Carotenoids to Solvent Proticity Helps To Estimate Structure of the Unknown Carotenoid from Chromera velia. J. Phys. Chem. B 119, 12653-12663, 2015.
    2. Jelínek, M. Karlický, K. Murawski,  Electric current filamentation at a non-potential magnetic null-point due to pressure perturbation,The Astrophysical Journal812, 105, 2015.
    3. Jelínek, A. K. Srivastava, K. Murawski, P. Kayshap, B.N. Dwivedi, Spectroscopic Observations and Modelling of Impulsive Alfven Waves Along a Polar Coronal Jet, Astronomy and Astrophysics581, A131, 2015.
    4. Jelínek, M. Karlický, Structured mass density slab as a waveguide of fast magnetoacoustic waves,Cent. Eur. Aphys.Bull 39 (1), 51, 2015.
    5. Fuciman, M., Keşan, G., LaFountain, A., Frank, H.A., Polívka, T. Tuning the spectroscopic properties of aryl carotenoids by slight changes in structure. J. Phys. Chem. B. 119, 1457–1467, 2015.
    6. Staleva, H., Komenda, J., Shukla, M., K., Šlouf, V., Kaňa, R., Polívka, T., Sobotka, R. Mechanism of photoprotection in the cyanobacterial ancestor of plant antenna proteins. Nat. Chem. Biol. 11, 287-291, 2015.
    7. Kroutil, O., Chval, Z., Skelton, A. A., Předota, M. Computer Simulations of Quartz (101)–Water Interface over a Range of pH Values, J. Phys. Chem. C,119, 9274–9286, 2015.
    8. Machesky, M. L., Předota, M.,  Ridley, M. K., Wesolowski, D. J.: Constrained Surface Complexation Modeling: Rutile in RbCl, NaCl, and NaCF3SO3 Media to 250 °C, J. Phys. Chem. C 119, 15204–15215, 2015.
    9. Ptacek, L., Machlica, L., Linhart, P., Jaska, P., Muller, L.: Automatic Recognition of Bird Individual on the Open Set using as-is Recordings. Bioacoustic Journal, 2015. DOI: 10.1080/09524622.2015.1089524.
    10. Majumdar, S.Ch. Das,V. Stranak, R. Hippler, Electronic Bond Structure of Carbon Nitride Thin Film Deposited by HiPIMS and dc Magnetron Plasma.J. Coat. Sci. Technol. 2, (2015), 28-37.
    11. Alami,V. Stranak, A-P. Herrendorf, Z. Hubicka, R. Hippler, Design of magnetic field configuration for controlled discharge properties in highly ionized plasma,Plasma Sources Sci. Technol. 24 (2015) 045016.
    12. Dytrych, P. Kluson, O. Solcova, S. Kment,V. Stranak, M. Cada, Z. Hubicka, Shape selective photoinduced electrochemical behavior of thin ZnO layers prepared by surfatron,Thin Solid Films 597, (2015), 131.
    13. Staleva, H., Zeeshan, M., Chábera, P., Partali, V., Sliwka, H.R., Polívka, T. Ultrafast dynamics of long homologs of carotenoid zeaxanthin. J. Phys. Chem. A, 119, 11304-11312, 2015.

    2014

    1. Durchan, M., Keşan, G., Šlouf, V., Fuciman, M., Staleva, H., Tichý, J., Litvín, R., Bína, D., Vácha, F., Polívka, T. Highly efficient energy transfer from a carbonyl carotenoid to chlorophyll-a in the main light harvesting complex of Chromera velia. Biochim. Biophys. Acta, 1837, 1748-1755, 2014.
    2. Polívka, T., Hofmann, E. Structure-function relationship in peridinin-chlorophyll proteins. In: The Structural Basis of Biological Energy Generation (ed. M. F. Hohmann-Marriott). Vol. 39 of the series Advances in Photosynthesis and Respiration. p. 39-58, Springer, Dordrecht, The Netherlands, 2014.
    3. Polívka, T., Frank, H. A. Spectroscopic investigation of carotenoids involved in nonphotochemical quenching. In: Nonphotochemical Quenching and Energy Dissipation in Plants, Algae and Cyanobacteria (ed. B. Demmig-Adams). Vol. 40 of the series Advances in Photosynthesis and Respiration. p. 203-227, Springer, Dordrecht, The Netherlands, 2014.
    4. Mészárosová, M. Karlický, P. Jelínek, J. Rybák, Magnetoacoustic waves propagating along a dense slab and Harris current sheet and their wavelet spectra,The Astrophysical Journal788, 44, 2014.
    5. S. Parez, M. Předota, and M. Machesky: “Dielectric Properties of Water at Rutile and Graphite Surfaces: Effect of Molecular Structure”,J. Phys. Chem. C118, 4818-4834 (2014).
    6. Gürkan Keşan, Cemal Parlak. Infrared and Raman spectra, conformational stability and vibrational assignment of 1-formylpiperazine. Spectrochimica Acta A 118, 1113-1120, 2014.
    7. Chandraju Sadolalu Chidan Kumar, Cemal Parlak, Hoong-Kun Fun, Mahir Tursun , Gürkan Keşan, Siddegowda Chandraju, Ching Kheng Quah. Experimental and theoretical FT-IR, Raman and XRD study of 2-acetyl-5-chlorothiophene. Spectrochimica Acta A 127, 67-73, 2014.
    8. Nesrin Emir, Metin Bilge, Mahir Tursun, Gürkan Keşan, Cemal Parlak. A joint theoretical and experimental study of 1-acetylpiperazine: conformational stability, infrared and Raman spectra. Spectrochimica Acta A 127, 388-395, 2014.

      2013

      1. Karlický, H. Mészárosová,  P. Jelínek, Radio fiber bursts and fast magnetoacoustic wave trains,Astronomy and Astrophysics550, A1, 2013.
      2. Jelínek, K. Murawski, Numerical simulations of magnetoacoustic-gravity waves in the solar coronal curved magnetic field lines structure,Monthly Notices of the Royal Astronomical Society435, 2347-2354, 2013.
      3. Fuciman, M., Durchan, M., Šlouf, V., Keşan, G., Polívka, T.: Excited-state dynamics of astaxanthin aggregates. Chem. Phys. Lett. 568-569: 21-25, 2013.
      4. Lísal, M. Předota and J. K. Brennan: “Molecular-Level Simulations of Chemical Reaction Equilibrium and Diffusion in Slit and Cylindrical Nanopores: Model Dimerization Reactions”, Mol. Sim.39, 1103–1120, (2013).
      5. Předota, M. L. Machesky, D. J. Wesolowski, and P. T. Cummings: “Electric Double Layer at the Rutile (110) Surface. 4. Effect of Temperature and pH on the Adsorption and Dynamics of Ions”,J. Phys. Chem. C117, 22852-22866 (2013).
      6. Šlouf V., Fuciman M., Johanning S., Hofmann E., Frank H.A., Polívka T.: Low-temperature time-resolved spectroscopic study of the major light-harvesting complex of Amphidinium carterae, Photosynth. Res. NOV 2013, 117 SI, 257-265.
      7. Šlouf V., Fuciman M., Dulebo A., Kaftan D., Koblížek M., Frank H.A., Polívka T.: Carotenoid Charge Transfer States and Their Role in Energy Transfer Processes in LH1-RC Complexes from Aerobic Anoxygenic Phototrophs, J. Phys. Chem. B SEP 2013, 117 SI 10987-10999.
      8. Kirakci K., Kubát P., Langmaier J., Polívka T., Fuciman M., Fejfarová K., Lang K.: A comparative study of the redox and excited state properties of (nBu4N)2[Mo6X14] and (nBu4N)2[Mo6X8(CF3COO)6] (X = Cl, Br, or I), Dalton Trans. 2013, 42, 7224-7232.
      9. R.L. Christensen, M.M. Enriquez, N.L. Wagner, A.Y. Peacock-Villada, C. Scriban, R.R. Schrock, T. Polívka, H.A. Frank, R.R. Birge. Energetics and dynamics of the low-lying electronic states of constrained polyenes: Implications for infinite polyenes. J. Phys. Chem. A 117, 1449−1465, 2013.
      10. K. Kirakci, P. Kubát, J. Langmaier, T. Polívka, M. Fuciman, K. Fejfarová, K. Lang. Effects of ligands on the properties of Mo6 cluster complexes in solution. Dalton Trans. 42, 7224-7232, 2013.
      11. Gürkan Keşan, Özgür Alver, Metin Bilge, Cemal Parlak. DFT, FT-Raman and FT-IR investigations of 1-cyclopropylpiperazine. Journal of Structural Chemistry 54 (6), 1044-1054, 2013.
      12. Gürkan Keşan, Mehmet Fatih Kaya, Metin Bilge, Özgür Alver and Cemal Parlak. DFT, FT-IR and Raman investigations of 1-pyrrolidino-1-cyclopentene. Spectrochimica Acta A 101, 22-30, 2013.
      13. Özge Bağlayan, Gürkan Keşan, Cemal Parlak, Özgür Alver, Mustafa Şenyel. Vibrational Investigation of 1-cyclopentylpiperazine: A Combined Experimental and Theoretical Study. Science China Physics, Mechanics & Astronomy, in press. DOI: 10.1007/s11433-013-5313-0
      14. Mehmet Fatih Kaya, Cemal Parlak, Gürkan Keşan, Özgür Alver and Mahir Tursun. Vibrational spectroscopic investigation of 1-pyrrolidino-1-cyclohexene: A comparative density functional study. Spectrochimica Acta A 113, 1-9, 2013.
      15. Mahir Tursun, Gürkan Keşan, Cemal Parlak and Mustafa Şenyel. Vibrational spectroscopic investigation and conformational analysis of 1-heptylamine: A comparative density functional study. Spectrochimica Acta A 114, 668-680, 2013.

        2012

        1. Jelínek, M. Karlický, Magnetoacoustic waves in diagnostics of the flare current sheets,Astronomy and Astrophysics537, A46, 2012.
        2. Jelínek, M. Karlický, K. Murawski, Magnetoacoustic waves in a vertical flare current-sheet in a gravitationally stratified solar atmosphere,Astronomy and Astrophysics546, A49, 2012.
        3. Vredenberg, W., Durchan, M., Prášil, O.: The analysis of PS II photochemical aktivity using single and multi-turnover excitations. J. Photochem. Photobiol. B 107: 45-54, 2012.
        4. Durchan, M., Tichý, J., Litvin, R., Šlouf, V., Gardian, Z., Hříbek, P., Vácha, F., Polívka, T.: Role of carotenoids in light-harvesting processes in an antenna protein from the chromophyte Xanthonema debile. J. Phys. Chem. B 116: 8880-8889, 2012.
        5. Durchan, M., Fuciman, M., Šlouf, V., Keşan, G., Polívka, T.: Excited-state dynamics of monomeric and aggregated carotenoid 8´-apo-β-carotenal. J. Phys. Chem. A 116: 12330-12338, 2012.
        6. Pařez and M. Předota: “Determination of Distance-dependent Viscosity of Mixtures in Parallel Slabs using Non-equilibrium Molecular Dynamics”,Phys. Chem. Chem. Phys.14, 3640-3650 (2012).
        7. Romancová, Z. Chval and M. Předota: “Influence of the Environment on the Specificity of the Mg(II) Binding to Uracil”,J. Phys. Chem. A116, 1786−1793 (2012).
        8. Kabeláč, O. Kroutil, M. Předota, F. Lankaš and M. Šíp: “Influence of a Charged Graphene Surface on the Orientation and Conformation of Covalently Attached Oligonucleotides: A Molecular Dynamics Study”,Phys. Chem. Chem. Phys.14, 4217–4229 (2012).
        9. J. Wesolowski, J. O. Sofo, A. V. Bandura, Z. Zhang, E. Mamontov, M. Předota, N. Kumar, J. D. Kubicki, P. R. C. Kent, L. Vlcek, M. L. Machesky, P. A. Fenter, P. T. Cummings, L. M. Anovitz, A. Skelton, J. Rosenqvist: “The Rutile (110)-Water Interface: A comment on “Structure and Dynamics of Liquid Water on Rutile TiO2(110)” by L.-M. Liu, C. Zhang, G. Thornton and A. Michaelides”,Phys. Rev. B85, 167401 (2012).
        10. Dall’Osto L., Holt N.E., Kaligotla S., Fuciman M., Cazzaniga S., Carbonera D., Frank H.A., Alric J., Bassi R.: Zeaxanthin Protects Plant Photosynthesis by Modulating Chlorophyll Triplet Yield in Specific Light-harvesting Antenna Subunits, J. Biol. Chem. DEC 2012, 287, 41820-41834.
        11. Fuciman M., Enriquez M.M., Polívka T., Dall’Osto L., Bassi R., Frank H.A.: Role of Xanthophylls in Light Harvesting in Green Plants: A Spectroscopic Investigation of Mutant LHCII and Lhcb Pigment-Protein Complexes, J. Phys. Chem. B MAR 2012, 116, 3834-3849.
        12. Maiuri M., Polli D., Brida D., Lueer L., LaFountain A.M., Fuciman M., Cogdell R.J., Frank H.A., Cerullo G.: Solvent-dependent activation of intermediate excited states in the energy relaxation pathways of spheroidene, Phys. Chem. Chem. Phys. 2012, 14, 6312-6319.
        13. Šlouf, P. Chábera, J.D. Olsen, E.C. Martin, P. Qian, C.N. Hunter, T. Polívka. Photoprotection in a purple phototrophic bacterium mediated by oxygen-dependent alteration of carotenoid excited-state properties.Proc. Natl. Acad. Sci. U.S.A.109, 8570–8575, 2012.
        14. L. Vlcek, P. Ganesh, A. Bandura, E. Mamontov, M. Predota, P. T. Cummings, D. J. Wesolowski: “Modeling Interactions of Metal Oxide Surfaces with Water”, Chapter 6, p. 217-262, in “Chemical Sensors: Simulation and Modeling, Vol. 1”, Korotcenkov G. (ed.), Momentum Press, LLC, 2012, ISBN-10: 160650309X; ISBN-13: 978-1606503096
        15. L. Ptáček: Automatic Bird Identification and Verification. PhD Thesis Report. Faculty of Applied Sciences, Department of Cybernetics, ZCU, Pilsen.
        16. M. Londesborough, D. Hnyk, J. Bould, L. Serrano-Andres, V. Sauri, J. Oliva, T. Polívka, P. Kubát, K. Lang. The distinct photophysics of the isomers of B18H22 explained. Inorg. Chem. 51, 1471−1479, 2012.
        17. J. Alster, T. Polívka, J.B. Arellano, P. Hříbek, F. Vácha, J. Hála, J. Pšenčík. Self-assembly and energy transfer in artificial light-harvesting complexes of bacteriochlorophyll c with astaxanthin. Photosynth. Res. 111, 193–204, 2012.
        18. M. Fuciman, M.M. Enriquez, T. Polívka, L. Dall’Osto, R. Bassi, H.A. Frank. The role of xanthophylls in light-harvesting in green plants: A spectroscopic investigation of mutant LHCII and Lhcb pigment-protein complexes. J. Phys. Chem. B, 1163834−3849, 2012.
        19. V. Šlouf, P. Chábera, J.D. Olsen, E.C. Martin, P. Qian, C.N. Hunter, T. Polívka. Photoprotection in a purple phototrophic bacterium mediated by oxygen-dependent alteration of carotenoid excited-state properties. Proc. Natl. Acad. Sci. U.S.A. 109, 8570–8575, 2012.
        20. T. Fessl, F. Adamec, T. Polívka, S. Foldynová-Trantírková, F. Vácha, L. Trantírek. Towards characterization of DNA structure under physiological conditions in vivo at the single-molecule level using single-pair FRET. Nucleic Acids Res. 40(16), e121, 2012.
        21. M. Durchan, M. Fuciman, V. Šlouf, G. Keşan, T. Polívka. Excited-state dynamics of monomeric and aggregated carotenoid 8'-apo-β-carotenal. J. Phys. Chem. A 116, 12330−12338, 2012.
        22. Gürkan Keşan, Özge Bağlayan, Cemal Parlak, Özgür Alver, Mustafa Şenyel. FT-IR and Raman spectroscopic and quantum ch