School of Molecular Biosciences

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Silva-Alvim, F. A.L., Alvim, J. C., Harvey, A., Blatt, M. R. (2023) Speedy stomata of a C4 plant correlate with enhanced K+ channel gating. Plant, Cell and Environment, (doi: 10.1111/pce.14775)

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Cupellini, L., Qian, P., Nguyen-Phan, T. C., Gardiner, A. T., Cogdell, R. J. (2023) Quantum chemical elucidation of a sevenfold symmetric bacterial antenna complex. Photosynthesis Research, 156, pp. 75-87. (doi: 10.1007/s11120-022-00925-8)

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Elvers, I., Nguyen Phan, T. C., Gardiner, A. T., Hunter, C. N., Cogdell, R. J., Köhler, J. (2022) Phasor analysis reveals multicomponent fluorescence kinetics in the LH2 complex from Marichromatium purpuratum. Journal of Physical Chemistry B, 126, pp. 10335-10346. (doi: 10.1021/acs.jpcb.2c04983)

Duan, H.-G., Jha, A., Chen, L., Tiwari, V., Cogdell, R. J., Ashraf, K., Prokhorenko, V. I., Thorwart, M., Miller, R. J. D. (2022) Quantum coherent energy transport in the Fenna–Matthews–Olson complex at low temperature. Proceedings of the National Academy of Sciences of the United States of America, 119, pp. e2212630119. (doi: 10.1073/pnas.2212630119)

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Wu, F., Finkelstein-Shapiro, D., Wang, M., Rosenkampff, I., Yartsev, A., Pascher, T., Nguyen- Phan, T. C., Cogdell, R., Börjesson, K., Pullerits, T. (2022) Optical cavity-mediated exciton dynamics in photosynthetic light harvesting 2 complexes. Nature Communications, 13, (doi: 10.1038/s41467-022-34613-x)

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Fang, W., Vellutini, E., Perrella, G., Kaiserli, E. (2022) TANDEM ZINC-FINGER/PLUS3 regulates phytochrome B abundance and signaling to fine-tune hypocotyl growth. Plant Cell, 34, pp. 4213-4231. (doi: 10.1093/plcell/koac236)

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Miguel-Romero, L., Alqasmi, M., Bacarizo, J., Tan, J. A., Cogdell, R. J., Chen, J., Byron, O., Christie, G. E., Marina, A., Penadés, J. R. (2022) Non-canonical Staphylococcus aureus pathogenicity island repression. Nucleic Acids Research, 50, pp. 11109-11127. (doi: 10.1093/nar/gkac855)

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Patitaki, E., Schivre, G., Zioutopoulou, A., Perrella, G., Bourbousse, C., Barneche, F., Kaiserli, E. (2022) Light, chromatin, action: nuclear events regulating light signaling in Arabidopsis. New Phytologist, 236, pp. 333-349. (doi: 10.1111/nph.18424)

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Caccavale, E., Johnson, M. P., Brijbassi, S., Andreazza, A. C., Tokatlidis, K. (2022) Mitochondria and Us: from exploration to global collective. Biochemist, 44, pp. 22-28. (doi: 10.1042/bio_2022_122)

Liao, X., Jenkins, G. I. (2022) Cysteines have a role in conformation of the UVR8 photoreceptor. Plant Journal, 111, pp. 583-594. (doi: 10.1111/tpj.15841)

Baena, G., Xia, L., Waghmare, S., Karnik, R. (2022) SNARE SYP132 mediates divergent trafficking of H+-ATPase AHA1 and antimicrobial PR1 during bacterial pathogenesis. Plant Physiology, 189, pp. 1639-1661. (doi: 10.1093/plphys/kiac149)

Kjeldsen, A., Kay, J. E., Baxter, S., McColm, S., Serrano-Amatriain, C., Parker, S., Robb, E., Arnold, S. A., Gilmour, C., Raper, A., Robertson, G., Fleming, R., Smith, B. O., Fotheringham, I. G., Christie, J. M., Magneschi, L. (2022) The fluorescent protein iLOV as a reporter for screening of high‐yield production of antimicrobial peptides in Pichia pastoris. Microbial Biotechnology, 15, pp. 2126-2139. (doi: 10.1111/1751-7915.14034)

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Wang, Y., Karnik, R., Garcia-Mata, C., Hu, H. (2022) Editorial: transport and membrane traffic in stomatal biology. Frontiers in Plant Science, 13, (doi: 10.3389/fpls.2022.898128)

Torres Cabán, C. C., Yang, M., Lai, C., Yang, L., Subach, F. V., Smith, B. O., Piatkevich, K. D., Boyden, E. S. (2022) Tuning the sensitivity of genetically encoded fluorescent potassium indicators through structure-guided and genome mining strategies. ACS Sensors, 7, pp. 1336-1346. (doi: 10.1021/acssensors.1c02201)

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Kim, J., Nguyen-Phan, T. C., Gardiner, A. T., Yoon, T. H., Cogdell, R. J., Cho, M., Scholes, G. D. (2022) Vibrational modes promoting exciton relaxation in the B850 band of LH2. Journal of Physical Chemistry Letters, 13, pp. 1099-1106. (doi: 10.1021/acs.jpclett.1c03868)

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Malý, P., Gruber, J. M., Cogdell, R. J., Mančal, T., van Grondelle, R. (2016) Ultrafast energy relaxation in single light-harvesting complexes. Proceedings of the National Academy of Sciences of the United States of America, 113, pp. 2934-2939. (doi: 10.1073/pnas.1522265113)

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Magdaong, N. M., LaFountain, A. M., Hacking, K., Niedzwiedzki, D. M., Gibson, G. N., Cogdell, R., Frank, H. A. (2016) Spectral heterogeneity and carotenoid-to-bacteriochlorophyll energy transfer in LH2 light-harvesting complexes from Allochromatium vinosum. Photosynthesis Research, 127, pp. 171-187. (doi: 10.1007/s11120-015-0165-2)

Henry, S. L., Withers, J. M., Singh, I., Cooper, J. M., Clark, A. W., Burley, G. A., Cogdell, R. J. (2016) DNA-directed spatial assembly of photosynthetic light-harvesting proteins. Organic and Biomolecular Chemistry, 14, pp. 1359-1362. (doi: 10.1039/c5ob02351c)

Pokhilko, A., Zhao, J., Stark, W. M., Colloms, S. D., Ebenhöh, O. (2016) A simplified mathematical model of directional DNA site-specific recombination by serine integrases. Journal of the Royal Society: Interface, 14, (doi: 10.1098/rsif.2016.0618)

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Hashimoto, H., Uragami, C., Cogdell, R. J. (2016) Carotenoids and Photosynthesis. Springer International Publishing

Kosumi, D., Horibe, T., Sugisaki, M., Cogdell, R. J., Hashimoto, H. (2016) Photoprotection mechanism of light-harvesting antenna complex from purple bacteria. Journal of Physical Chemistry B, 120, pp. 951-956. (doi: 10.1021/acs.jpcb.6b00121)

Wientjes, E., Renger, J., Cogdell, R., van Hulst, N. F. (2016) Pushing the photon limit: nanoantennas increase maximal photon stream and total photon number. Journal of Physical Chemistry Letters, 7, pp. 1604-1609. (doi: 10.1021/acs.jpclett.6b00491)

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Miki, T., Buckup, T., Krause, M. S., Southall, J., Cogdell, R. J., Motzkus, M. (2016) Vibronic coupling in the excited-states of carotenoids. Physical Chemistry Chemical Physics, 18, pp. 11443-11453. (doi: 10.1039/C5CP07542D)

Kita, S., Fujii, R., Cogdell, R. J., Hashimoto, H. (2015) Characterization of fucoxanthin aggregates in mesopores of silica gel: electronic absorption and circular dichroism spectroscopies. Journal of Photochemistry and Photobiology A: Chemistry, 313, pp. 3-8. (doi: 10.1016/j.jphotochem.2015.05.009)

Hashimoto, H., Sugai, Y., Uragami, C., Gardiner, A. T., Cogdell, R. (2015) Natural and artificial light-harvesting systems utilizing the functions of carotenoids. Journal of Photochemistry and Photobiology C: Photochemistry Reviews, 25, pp. 46-70. (doi: 10.1016/j.jphotochemrev.2015.07.004)

Uragami, C., Sugai, Y., Hanjo, K., Sumino, A., Fujii, R., Nishioka, T., Kinoshita, I., Dewa, T., Nango, M., Gardiner, A. T., Cogdell, R. J., Hashimoto, H. (2015) Observation of hybrid artificial photosynthetic membranes using peripheral and core antennae from two different species of photosynthetic bacteria by AFM and fluorescence micro-spectroscopy. Journal of Photochemistry and Photobiology A: Chemistry, 313, pp. 60-71. (doi: 10.1016/j.jphotochem.2015.06.009)

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Schörner, M., Beyer, S. R., Southall, J., Cogdell, R. J., Köhler, J. (2015) Conformational memory of a protein revealed by single-molecule spectroscopy. Journal of Physical Chemistry B, 119, pp. 13964-13970. (doi: 10.1021/acs.jpcb.5b07494)

Schörner, M., Beyer, S. R., Southall, J., Cogdell, R., Köhler, J. (2015) Multi-level, multi time-scale fluorescence intermittency of photosynthetic LH2 complexes: a precursor of non-photochemical quenching? Journal of Physical Chemistry B, 119, pp. 13958-13963. (doi: 10.1021/acs.jpcb.5b06979)

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Cogdell, R. J., Gardiner, A. T. (2015) Activated OCP unlocks nonphotochemical quenching in cyanobacteria. Proceedings of the National Academy of Sciences of the United States of America, 112, pp. 12547-12548. (doi: 10.1073/pnas.1517477112)

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Joshi, A., Grinter, R., Josts, I., Chen, S., Wojdyla, J., Lowe, E., Kaminska, R., Sharp, C., McCaughey, L., Roszak, A., Cogdell, R., Byron, O., Walker, D., Kleanthous, C. (2015) Structures of the ultra-high-affinity protein–protein complexes of pyocins S2 and AP41 and their cognate immunity proteins from pseudomonas aeruginosa. Journal of Molecular Biology, 427, pp. 2852-2866. (doi: 10.1016/j.jmb.2015.07.014)

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Löhner, A., Carey, A.-M., Hacking, K., Picken, N., Kelly, S., Cogdell, R., Köhler, J. (2015) The origin of the split B800 absorption peak in the LH2 complexes from Allochromatium vinosum. Photosynthesis Research, 123, pp. 23-31. (doi: 10.1007/s11120-014-0036-2)

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Mathes, T., Heilmann, M., Pandit, A., Zhu, J., Ravensbergen, J., Kloz, M., Fu, Y., Smith, B.O., Christie, J.M., Jenkins, G.I., Kennis, J.T.M. (2015) Proton-coupled electron transfer constitutes the photoactivation mechanism of the plant photoreceptor UVR8. Journal of the American Chemical Society, 137, pp. 8113-8120. (doi: 10.1021/jacs.5b01177)

Ulm, R., Jenkins, G. (2015) Q&A: How do plants sense and respond to UV-B radiation? BMC Biology, 13, (doi: 10.1186/s12915-015-0156-y)

Miyamori, T., Nakasone, Y., Hitomi, K., Christie, J. M., Getzoff, E. D., Terazima, M. (2015) Reaction dynamics of the UV-B photosensor UVR8. Photochemical and Photobiological Sciences, 14, pp. 995-1004. (doi: 10.1039/c5pp00012b)

Mordas, A., Tokatlidis, K. (2015) The MIA pathway: a key regulator of mitochondrial oxidative protein folding and biogenesis. Accounts of Chemical Research, 48, pp. 2191-2199. (doi: 10.1021/acs.accounts.5b00150)

Ji, H., Wang, Y., Cloix, C., Li, K., Jenkins, G. I., Wang, S., Shang, Z., Shi, Y., Yang, S., Li, X. (2015) The arabidopsis RCC1 family protein TCF1 regulates freezing tolerance and cold acclimation through modulating lignin biosynthesis. PLoS Genetics, 11, (doi: 10.1371/journal.pgen.1005471)

Beyer, S. R., Müller, L., Southall, J., Cogdell, R. J., Ullmann, G. M., Köhler, J. (2015) The open, the closed, and the empty: time-resolved fluorescence spectroscopy and computational analysis of RC-LH1 complexes from Rhodopseudomonas palustris. Journal of Physical Chemistry B, 119, pp. 1362-1373. (doi: 10.1021/jp510822k)

Dominguez, P.N., Himmelstoss, M., Michelmann, J., Lehner, F., Gardiner, A., Cogdell, R.J., Zinth, W. (2015) The primary photosynthetic energy conversion in bacterial reaction centers—stepwise electron transfer and the effect of elevated exposure levels. Springer

Singh, V.P., Westberg, M., Wang, C., Dahlberg, P.D., Gellen, T., Gardiner, A.T., Cogdell, R.J., Engel, G.S. (2015) Towards quantification of vibronic coupling in photosynthetic antenna complexes. Journal of Chemical Physics, 142, pp. 212446. (doi: 10.1063/1.4921324)

Maiuri, M., Lüer, L., Henry, S., Carey, A.-M., Cogdell, R.J., Cerullo, G., Polli, D. (2015) Ultrafast energy flow and equilibration dynamics in photosynthetic light-harvesting complexes. Springer International Publishing

Perlík, V., Seibt, J., Cranston, L. J., Cogdell, R. J., Lincoln, C. N., Savolainen, J., Šanda, F., Mančal, T., Hauer, J. (2015) Vibronic coupling explains the ultrafast carotenoid-to-bacteriochlorophyll energy transfer in natural and artificial light harvesters. Journal of Chemical Physics, 142, (doi: 10.1063/1.4919548)