Humboldt-Universität zu Berlin - Experimentelle Biophysik

Papers

 

2024

 

Kaziannis S., Broser M., van Stokkum I.H.M., Dostal J., Busse W., Munhoven A., Bernardo C., Kloz M., Hegemann P., Kennis J.T.M. (2024) Multiple Retinal Isomerizations during the Early Phase of the Bestrhodopsin Photoreaction. Proc. Natl. Acad. Sci USA  121 (12)  e2318996121. doi.org/10.1073/pnas.2318996121

 

2023

 

Wolfram, M., Greif, A., Sizova, I., Baidukova, O., Hegemann, P., and Kreimer, G. (2023) Multifactorial in vivo regulation of the photoreceptor channelrhodopsin-1 abundance. Plant Cell Environ. 1–16. https://doi.org/10.1111/pce.14657

 

Fischer P., Schiewer E., Broser M., Busse W., Spreen A., Grosse M., Hegemann P., Bartl, F. (2023) The functionality of the DC pair in a Rhodopsin Guanylyl Cyclase from Catenaria anguillulae J. Mol. Biol. Dec 12:168375. doi.org/10.1016/j.jmb.2023.168375

 

Broser M., Busse W., Spreen A., Reh M., Bernal Sierra Y.A., Hwang S., Utesch T., Sun H., Hegemann P. (2023) Diversity of Rhodopsin-cyclases in zoospore forming fungi. Proc. Natl. Acad. Sci USA 120(44) e2310600120. doi/10.1073/pnas.2310600120 

 

Broser M., Andruniow T., Kraskov A., Palombo R., Katz S., Kloz M., Dostál J.D., Bernardo C., Kennis J.T.M., Hegemann P., Olivucci M., Peter Hildebrandt P. (2023) Experimental assessment of the electronic and geometrical structure of a near-infrared absorbing and highly fluorescent microbial rhodopsin. J. Phys. Chem. Lett 14, 9291−9295. doi.org/ 10.1021/arc.jpclett.3c02167

 

Oppermann, J., Rozenberg, A., Fabrin T., GonzalezCabrera C., Béjà, O.,  Prigge M., Hegemann, P. (2023) Robust Optogenetic Inhibition with Red-light sesitivie Anion-conducting Channelrhodopsin. bioRxiv, 06. 09.544329. doi.org/10.1101/2023.06.09.544329

 

Penzkofer, A., Silapetere, A., and Hegemann, P. (2023) Theoretical Investigation of the Photocycle Dynamics of the Archaerhodopsin 3 Based Fluorescent Voltage Sensor Archon2. J. Photochem. Photobiol. A:Chemistry 437, 114366. doi.org/10.1016/j.jphotochem.2022.114366   

 

Hontani Y., Mehlhorn, J., Domratcheva, T., Beck, S., Kloz, M., Hegemann P., Mathes, T., Kennis J.T.M. (2023) Spectroscopic and Computational Observation of Glutamine Tautomerization in the Blue Light Sensing Using Flavin Domain Photoreaction. J. Am. Chem. Soc. 145,1040-1052 https://doi.org/10.1021/jacs.2c10621

 

Hegemann P. and Michel H. (2023) Dieter Oesterhelt (1940-2022) Pioneer of membrane protein research. Science 379, 337.  https://doi.org/ 10.1126/science.adg5458

 

Hegemann P. and Michel H. (2023) Dieter Oesterhelt (1940–2022): Life with light and color, pioneer of membrane protein research. Biophysics and Physicobiology Vol. 20, e201010.

 

Bergs A.C.F., Liewald J., Rodriguez-Rozada S., Liu Q., Wirt C., Bessel A., Zeitzschel N., Durmaz H., Nozownik A., Jospin M., Vierock J., Bargmann C.I.,  Hegemann P., Wiegert J.S. and Gottschalk A. (2023) All-optical closed-loop voltage clamp for precise 1 control of muscles and neurons in live animals. Nature Comm. 14, 1939. doi.org/ 10.1038/s41467-023-37622-6

 

van Stokkum, I.H.M., Hontani Y., Vierock J., Krause B.S., Hegemann P. and Kennis J.T.M. (2023) Reaction Dynamics in the Chrimson Channelrhodopsin: Obser­vation of Product-State Evolution and Slow Diffusive Protein Motions. J. Phys. Chem. Lett. 14, 6, 1485–1493. https://doi.org/10.1021/acs.jpclett. 2c03110   

 

Catalan R.E., Fragkopulos A.A., von Trott N., Kelterborn S., Baidukova O., Hegemann P. and Bäumchen O. (2023) Light regulated adsorption and desorption of Chlamydomonas cells at surfaces. Soft Matter 19, 306 - 314. https://doi.org/10.1039/D2SM01039A

 

2022

 

Zinzius K, Marchetti GM, Fischer R, Milrad Y, Oltmanns A, Kelterborn S, Yacoby I, Hegemann P, Scholz M, Hippler M. (2022) Calredoxin regulates the chloroplast NADPH-dependent thioredoxin reductase in Chlamydomonas reinhardtiibioRxiv, doi.org/10.1101/2022.11.22.517551

 

Fernandez Lahore R., Pampaloni N.P., Peter E., Heim M.-M., Tillert L., Vierock J., Oppermann J., Walter, J., Schmitz D., Owald D., Plested A.J.R., Rost B.R., Hegemann P. (2022) Calcium permeable Channelrhodopsins for the photocontrol of calcium signalling. Nature Comm.13:7844, doi.org/10.1038/s41467-022-35373-4 
 

Baidukova O., Kelterborn S., Sizova I. and Hegemann P. (2022) Reverse Genetics. Chapter 17 In: Goodenough U. (eds) The Chlamydomonas Sourcebook. Volume 1: Introduction to Chlamydomonas and Its Laboratory, Academic Press, Cambridge, USA.

 

Baidukova O., Oppermann J., Kelterborn S., Fernandez Lahore R.G., Schumacher D., Evers H., Kamrani Y.Y. and Hegemann P. (2022) Gating and ion selectivity of Channelrhodopsins are critical for photo-activated orientation of Chlamydomonas as shown by in vivo point mutation. Nat. Commun. 13, 7253. https://doi.org/10.1038/s41467-022-35018-6

 

Vo K.C., Ruga L., Psathaki O.E., Franzkoch R., Distler U., Tenzer S., Hensel M., Hegemann P., Gupta N. (2022) Plasticity and therapeutic potential of cAMP and cGMP-specific phosphodiesterase in Toxoplasma gindii. Computational and Structural Biotechnology Journal. 20,5775-5789. https://doi.org/10.1016/j.csbj.2022.09.022 
 
Penzkofer A., Silapetere A. and Hegemann P. (2022) Theoretical investigation of the photocycle dynamics of the Archaerhodopsin 3 based fluorescent voltage sensor Archon2. J. Photochem. Photobiol. A: Chemistry 437, 114366. doi.org/10.1016/j.jphotochem.2022.114366

 

Silapetere A., Hwang S., Hontani Y., Lahore R.F., Balke J., Escobar F.R., Tros M., Konold P.E., Matis R., Croce R., Walla6, P.J., Hildebrandt, P., Alexiev U., Kennis J.T.M., Sun H., Utesch U., and Hegemann P. (2022) QuasAr Odyssey: The Origin of fluorescence and its voltage dependence in microbial rhodopsins. Nat. Commun. 13:5501. https://doi.org/10.1038/s41467-022-33084-4

 

Emiliani V., Entcheva E., Hedrich R., Hegemann P., Konrad K. R., Lüscher C., Mahn M., Pan Z. H., Sims R., Vierock J., Ofer Yizhar O. (2022) Optogenetics for light control of biological systems. Nature Reviews Methods Primers 2 (55). https://doi.org/10.1038/s43586-022-00136-4 

 

Rozenberg A., Kaczmarczyk I.,  Matzov D.,  Vierock J.,  Nagata T., Sugiura M., Katayama K., Kawasaki Y., Konno M., Nagasaka Y., Aoyama M., Das I., Pahima E.,  Church J., Adam S., BorinV.A., Chazan A.,  Augustin S., Wietek J., Dine J., Peleg Y., Kawanabe A., Fujiwara Y., Yizhar O., Sheves M., Schapiro I., Furutani Y., Kandori H., Inoue K., Hegemann P., Béjà O., Shalev-Benami M. (2022) Rhodopsin-bestropin fusion proteins from unicellular algae form gigantic pentameric ion channels. Nature Structural Biology 29(6) 592-603. https://doi.org/10.1038/s41594-022-00783-x

 

Rodriguez-Rozada S., Wietek J., Tenedini F., Sauter K., Hegemann P., Soba P., and Wiegert JS. (2022) Temporally extended and reversible neuronal silencing with Aion. Comm. Biol. 5 (1), 1-15.  https://doi.org/10.1101/2022.02.25.481932 

 

Awasthi M., Ranjan P., Kelterborn S., Hegemann P. and Snell WJ. (2022) A cytoplasmic protein kinase couples engagement of Chlamydomonas ciliary receptors to cAMP-dependent cellular responses. J. Cell Sci,135 (10): jcs259814.

 

Kelterborn S., Boehning F., Sizova I., Baidukova O., Evers H., Hegemann P. (2022) Gene Editing in Green Alga Chlamydomonas reinhardtii via CRISPR-Cas9 Ribonucleoproteins. In: Zurbriggen M.D. (eds) Plant Synthetic Biology. Methods in Molecular Biology, vol 2379. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-1791-5_3

 

2021

 

Polito R., Temperini M-E., Ritter E., Pushkar L., Schade U., Broser M., Hegemann P., Baldassarre L., Ortolani M., Gilberti V. (2021) Conformational changes of a membrane protein determined by infrared difference spectroscopy beyond the diffraction limit. Physical Review Applied 16 (1), 014048  https://doi.org/10.1103/PhysRevApplied.16.014048                                                  

 

Ciccone G., Meloni I., Lahore R.F., Vierock J., Kleemann H., Hegemann P., Leo K., Murawski C. (2021) Tailoring Organic LEDs for bidirectional control via dual-color switching. Advanced Functional Materials 2110590 https://doi.org/10.1002/adfm.202110590

 

Sizova I., Kelterborn S., Verbenko V., Kateriya S., Hegemann P. (2021) Chlamydomonas POLQ is necessary for CRISPR/Cas9-mediated gene targeting. G3: Genes, Genomes, Genetics 11 (7) https://doi.org/10.1093/g3journal/jkab114

 

Fischer P., Mukherejee S., Peter E., Broser M., Bartl F., Hegemann P. (2021) The inner mechanics of Rhodopsin Guanylyl Cyclase during cGMP-formation by real-time FTIR spectroscopy. eLife 10: e71384 https://elifesciences.org/articles/71384

 

Penzkofer A., Silapetere A., Hegemann P. (2021) Photocycle dynamics of the Archae-rhodopsin-3 based fluorescent voltage sensor Archin2. Photochem. Photobiol. B: Biology 225, 112331.  

 

Vierock J., Rodriguez-Rozada S., Pieper F., Dieter A., Sims R., Tenedini F., Bendifallah I., Zhou F., Bergs A., Zeitzschel N., Ahlbeck J., Augustin S., Sauter K., Papagiakoumou E., Gottschalk A., Soba P., Emiliani V., Engel A.K., Hegemann P., Wiegert J.S. (2021) BiPOLES is a optogenetic tool developed for bidirectional dual-color control of neurons. Nat. Neurosci. 12 (4527)

https://doi.org/10.1038/s41467-021-24759-5

 

Oda K., Nomura T., Nakane T., Yamashita, K., Inoue K., Ito S., Vierock J., Hirata K., Maturana A.D., Katayama, K., Ikuta T., Ishigami I., Izume T., Umeda R., Eguma R., Oishi S., Kasuya G., Kato T., Kusakizako T., Shihoya W., Shimada H., Takatsuji T., Takemoto M.,  Taniguchi R., Tomita A., Nakamura R., Fukuda M., Miyauchi H., Lee Y., Nango E., Tanaka R., Tanaka T., Sugahara M., Kimura T., Shimamura T., Fujiwara T., Yamanaka Y., Owada S., Joti Y., Tono, K., Ishitani, R., Hayashi, S., Kandori H., Hegemann, P., Iwata, S., Kubo, M., Nishizawa T., Nureki O. (2021) TR-SFX reveals early reaction of ion pore formation in channelrhodopsin. E-Life 10:e62389. https://doi.org/10.7554/eLife.62389

 

Henss T., Nagpal J., Gao S., Scheib U., Pieragnolo, A., Hirschhäuser A., Schneider-Warme, F., Hegemann P., Nagel, G. and Gottschalk A. (2021) Optogenetic tools for manipulation of cyclic nucleotides, functionally coupled to CNG-channels. Br J Pharmacol https://doi.org/10.1111/bph.15445

 

2020

 

Broser M., Spreen A., Konold P.E., Peter E., Adam S., Borin V., Schapiro I., Seifert R., Kennis J.T.M., Bernal Sierra Y.A., and Hegemann P. (2020) NeoR, a near-infrared absorbing rhodopsin. Nat. Commun. 11:5682. https://doi.org/10.1038/s41467-020-19375-8

 

Rosenberg A., Oppermann J., Wietek J., Fernandez Lahore R.G., Sandaa R.-A., Bratbak G., Hegemann P., and Béjà O. (2020) Lateral gene transfer of anion-conducting channelrhodopsin between green algae and giant viruses. Current Biology, Oct 9:S0960-9822(20)31426-3. https://doi.10.1016/j.cub.2020.09.056

 

Penzkofer A., Silapetere A., Hegemann P. (2020) Absorption and Emission Spectroscopic Investigation of the Thermal Dynamics of the Archaerhodopsin 3 Based Fluorescent Voltage Sensor Archon2. Intern. J. Mol. Sci 21(18):E6576. https://doi.org/10.3390/ijms21186576

 

Kaufmann J.C.D., Krause B.S., Adam S., Ritter E., Schapiro I., Hegemann P., Bartl F.J. (2020) Modulation of Light Energy Transfer from Chromophore to Protein in the Channelrhodopsin ReaChR. Biophys J. 119(3):705-716. https://doi.org/10.1016/j.bpj.2020.06.031

 

Hontani Y., Broser M., Luck M., Weißenborn J., Kloz M., Hegemann P. and Kennis J.T.M. (2020) Double photoisomerization on distinct potential energy surfaces of unprotonated retinal in a UV absorbing rhodopsin. J. Am. Chem. Soc.21(1):160. https://doi.org/10.3390/ijms21010160

 

Friedrich, D., Brünig, F.N., Nieuwkoop A.J., Netz R.R., Hegemann P. and Oschkinat H. (2020) Collective exchange processes reveal an active site proton cage in bacteriorhodopsin. Communications Biology 3.4. doi.org/10.1038/s42003­­-019-0733-7

 

2019

Penzkofer, A., Silarpetere, A., Hegemann, P. (2019) Photocycle Dynamics of the Archaerhodopsin 3 Based Fluorescent Voltage Sensor Quasar1. Int. J. Mol. Sci. 21, 160 https://doi.org/10.3390/ijms21010160 

 

Ritter, E., Puskar, L., Kim, S.Y., Park, J.H., Hofmann K.-P., Bartl F., Hegemann P., and Schade, U. (2019) Féry IR-spectrometer for Single-shot analysis of protein dynamics. J. Phys. Chem. Lett. 10, 24, 7672-7677. doi.org/10.1021/acs.jpclett.9b03099

 

Penzkofer, A., Silapetere, A., and Hegemann, P. (2019) Absorption and Emission Spectroscopic Investigation of the Thermal Dynamics of the Archaerhodopsin 3 Based Fluorescent Voltage Sensor QuasAr1. Int. J. Mol. Sci. 20, 4086 doi.org/10.3390/ijms20174086

 

Oppermann J., Fischer P., Salipetere A., Liepe B., Rodriguez-Rozada S., Flores-Uribe J.F., Peter E., Sharon I., Keidel A., Vierock J., Kaufmann J., Broser M., Luck M., Bartl F., Hildebrandt P., Wiegert J.S., Béjà O., Hegemann P., Wietek J. (2019) MerMAIDs: A novel family of metagenomically discovered, marine, anion-conducting and intensely desensitizing channelrhodopsins. Nature Comm. 10(1):3315. doi.org/10.1038/s41467-019-11322-6

 

Giliberti V, Polito R, Ritter E, Broser M, Hegemann P, Puskar L, Schade U, Zanetti-Polzi L, Daidone I, Corni S, Rusconi F, Biagioni P, Baldassarre L, Ortolani M. (2019) Tip-enhanced Infrared Difference-Nanospectroscopy of the Proton Pump Activity of Bacteriorhodopsin in Single Purple Membrane Patches. Nano Lett. 19(5):3104-3114. doi.org/10.1021/acs.nanolett.9b00512. Epub 2019 Apr 17.

 

Böhm M., Boness D., Fantisch E., Erhard, H., Frauenholz J., Kowalzyk Z., Marcinkowski N., Kateriya S., Hegemann P. and Kreimer G. (2019) Phosphorylation of Channelrhodopsin-1 responds to different physiological stimuli and influences the phototactic behavior of Chlamydomonas. Plant Cell 31(4):886-910. doi: 10.1105/tpc.18.00936.

 

Krause, B.S., Kaufmann, J.C.D., Kuhne, J., Vierock, V., Huber, T., Sakmar, T.P., Gerwert, K., Bartl, F.J., and Hegemann, P. (2019) Tracking pore hydration in channelrhodopsin by site-directed infrared-active azido probes. Biochemistry 58(9): 1275-1286. doi: 10.1021/acs.biochem.8b01211.

 

Jens Kuhne*, Johannes Vierock*, Stefan Tennigkeit, Jonas Wietek, Dennis Petersen, Max-Aylmer Dreier, Jonas Schartner, Konstantin Gavrilijuk, Samir F. El-Mashtoly, Peter Hegemann and Klaus Gerwert. (2019) A unifiying photocycle model unraveling light adaptation and temporal evolution of cation conductance in Channelrhodopsin-2 Proc Natl Acad Sci USA. 116(19):9380-9389. doi: 10.1073/pnas.1818707116.

 

Vogt, A., Silapetere, A., Grimm, C., Heiser, F., Möller, M.A. and Hege­mann, P. (2019) Engineered Passive Potassium Conductance in the KR2 Sodium Pump. Biophys. J. 116, 1941-1951. doi.org/10.1016/j.bpj.2019.04.001

 

Mukherjee S, Hegemann P, Broser M. (2019) Enzymerhodopsins: novel photoregulated catalysts for optogenetics. Curr Opin Struct Biol. 2019 Apr 4;57:118-126. doi: 10.1016/j.sbi.2019.02.003. [Epub ahead of print] Review. PMID: 30954887

 

Luck M, Velázquez Escobar F, Glass K, Sabotke MI, Hagedorn R, Corellou F, Siebert F, Hildebrandt P, Hegemann P., Photoreactions of the Histidine Kinase Rhodopsin Ot-HKR from the Marine Picoalga Ostreococcus tauri.Biochemistry. 2019 Apr 9;58(14):1878-1891. doi: 10.1021/acs.biochem.8b01200. Epub 2019 Mar 21. PMID: 30768260

 

Fudim R., Szczepek M., Vierock J., Vogt A., Schmidt A., Kleinau G., Fischer P., Bartl FJ, Scheerer P., and Hegemann P. (2019) Design of a light-gated proton channel based on the high-resolution structure of Coccomyxa rhodopsin Sci. Signal. 12, eaav4203; doi: 10.1126/scisignal.aav4203

 

 

 

2018

Penzkofer A, Hegemann P, Kateriya S (2018) Organic dyes in optogenetics Organic Lasers and Organic Photonics. Edited by F J Duarte. Bristol: IOP Publishing.  pp 13, 1-114

https://iopscience.iop.org/book/978-0-7503-1572-2.pdf

 

Bernal Sierra, Y.A.*, Rost, B.R.*, Pofahl, M.*, Fernandes, A.M., Kopton, R.A., Moser, S., Holtkamp, D., Masala, N., Beed, P., Tukker, J.J., et al. (2018). Potassium channel-based optogenetic silencing. Nature Communications 9, 4611. *equal contribution

https://www.nature.com/articles/s41467-018-07038-8

 

Oda, K., Vierock, J., Oishi, S., Rodriguez-Rozada, S., Taniguchi, R., Yamashita, K., Wiegert, J.S., Nishizawa, T., Hegemann, P., Nureki, O. (2018) Crystal structure of the red light-activated channelrhodopsin Chrimson. Nature Comm. 9(1):3949. doi: 10.1038/s41467-018-06421-9.

https://www.nature.com/articles/s41467-018-06421-9

 

Scheib, U., Broser, M., Constantin, O.M., Yang, S., Gao, S., Mukherjee, S., Stehfest, K., Nagel, G., Gee, C.E., Hegemann, P. (2018) Rhodopsin-cyclases for light-induced cGMP & cAMP production and 2.3 Å structure of an adenylyl cyclase domain. Nature Comm. 9(1):2046. doi: 10.1038/s41467-018-04428-w.

https://www.nature.com/articles/s41467-018-04428-w

 

Grimm, C., Silapetere, A., Vogt, A., Bernal Sierra, Y.A., Hegemann, P. (2018) Electrical properties, ion selectivity and optogenetic potential of an engineered light-driven sodium pump eKR2. Sci Rep. 8:9316. doi: 10.1038/ s41598-018-27690-w.

https://www.nature.com/articles/s41598-018-27690-w

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