Sobotka, R: Making proteins green; biosynthesis of chlorophyll-binding proteins in cyanobacteria. Photosynthesis Research 119, 223-232, 2014.

Kotabová, E, Jarešová, J, Kaňa, R, Bína, D, Prášil, O: Novel type of red-schifted chlorophyll a antenna complex from Chromera velia. I. Physiological relevance and functional connection to photosystems. Biochym Biophys Acta 1837, 734-743, 2014.

Knoppová, J, Sobotka, R, Tichý, M, Yu, J, Halada, P, Nixon, PJ, Komenda, J: Discovery of a Chlorophyll Binding Protein Complex Involved in the Early Steps of Photosystem II Assembly in Synechocystis. Plant Cell 26, 1200-1212, 2014.

Kopečná, J, Sobotka, R, Komenda, J: Inhibition of chlorophyll biosynthesis at the protochlorophyllide reduction step results in the parallel depletion of Photosystem I and Photosystem II in the cyanobacterium Synechocystis PCC 6803. Planta 237, 497-508, 2013.

Janouškovec, J*, Sobotka, R, Lai, D-H, Flegontov, P, Koník, P, Komenda, J, Ali, S, Prášil, O, Pain, A, Oborník, M, Lukeš, J, Keeling, PJ: Split photosystem protein, linear-mapping topology, and growth of structural complexity in the plastid genome of Chromera velia. Molecular Biology and Evolution 30, 2447–62, 2013. https://doi.org/10.1093/molbev/mst144

Boldareva–Nuianzina, EN, Bláhová, Z, Sobotka, R, Koblížek, M: Distribution and Origin of Oxygen-Dependent and Oxygen-Independent Forms of Mg-Protoporphyrin Monomethylester Cyclase among Phototrophic Proteobacteria. Applied and Environmental Microbiology 79, 2596-2604, 2013.

Wallner, T, Hagiwara, Y, Bernát, G, Sobotka, R, Reijerse, EJ, Frankenberg-Dinkel, N, Wilde, A: Inactivation of the conserved open reading frame ycf34 of Synechocystis sp. PCC6803 interferes dwith the photosynthetic electron transport chain. Biochimica et Biophysica Acta 1817, 2016-2026, 2012.

Torzillo, G, Faraloni, C, Silva, AM, Kopecký, J, Pilný, J, Masojídek J: Photoacclimation of Phaeodactylum tricornutum (Bacillariophyceae) cultures grown outdoors in photobioreactors and open ponds. European Journal of Phycology 47, 169-181, 2012.

Kořený, L, Sobotka, R, Kovářová, J, Gnipová, A, Flegontov, P, Horváth, A, Oborník, M, Ayala, FJ, Lukeš, J: Aerobic kinetoplastid flagellate Phytomonas does not require heme for viability. PNAS 109(10), 3808-3813, 2012.

Kopečná, J, Komenda, J, Bučinská, L, Sobotka, R: Long-term acclimation of the cyanobacterium Synechocystis PCC6803 to high light is accompanied by an enhanced production of chlorophyll that is preferentially channeled to trimeric PSI. Plant Physiology 160, 2239-2250, 2012.

Komenda, J, Sobotka, R, Nixon, PJ: Assembling and maintaining the Photosystem II complex in chloroplasts and cyanobacteria. Current Opinion in Plant Biology 15, 245-251, 2012.

Komenda, J, Knoppová, J, Kopečná, J, Sobotka, R, Halada, P, Yu, J, Nickelsen, J, Boehm, M, Nixon, PJ: The Psb27 assembly factor binds to the CO43 complex of photosystem II in the cyanobacterium Synechocystis sp. PCC 6803 ^1[C][W][OA]. Plant Physiology 158, 476-486, 2012.

Kaňa, R, Kotabová, E, Sobotka, R, Prášil, O: Non-photochemical quenching in cryprohyte alga Rhodomonas salina is located in chlorophyll a/c antennae. PLoS ONE 7(1), e29700, 2012.

Kafková, L, Ammerman, ML, Faktorová, D, Fisk, JC, Zimmer, SL, Sobotka, R, Read, LK, Lukeš, J, Hashimi, H: Functional characterization of two paralogs that are novel RNA binding proteins influencing mitochondrial transcripts of Trypanosoma brucei. RNA 18, 1846-1861, 2012.

Hollingshead, S, Kopečná, J, Jackson, PJ, Canniffe, DP, Davidson, PA, Dickman, MJ, Sobotka, R, Hunter, CN: Conserved chloroplast open-reading freame ycf54 is required for activity of the magnesium protoporphyrin  monomethylester oxidative cyclase in Synechocystis PCC 6803. Journal of Biological Chemistry 287, 27823-27833, 2012.

Sobotka, R, Tichý, M, Wilde, A, Hunter, AN: Functional assignments for the carboxyl-terminal domains of the ferrochelatase from Synechocystis PCC 6803: The CAB domain plays a regulatory role, and region II is essential for catalysis^1[W]. Plant Physiology 155, 1735-1747, 2011.

Kořený, L, Sobotka, R, Janouškovec, J, Keeling, PJ, Oborník, M*: Tetrapyrrole synthesis of photosynthetic chromerids is likely homologous to the unusual pathway of apicomplexan parasites. The Plant Cell 23, 3454–62, 2011. https://doi.org/10.1105/tpc.111.089102

Dobáková, M., Sobotka, R., Tichý, M., Komenda, J. (2009) Psb28 protein is i volved in the biogenesis of the photosystem II inner antenna CP47 (PsbB) in the cyanobacterium Synechocystis sp. PCC 6803. Plant Physiology 149, 1076-1086.

Sobotka, R., Dühring, U., Komenda, J., Peter, E., Gardian, Z., Tichý, M., Grimm, B., Wilde, A. (2008) Improtance of the cyanobacterial Gun4 protein for chlorophyll metabolism and assembly of photosynthetic complexes. Journal of Biological Chemistry 283, 25794-25802.

Sobotka, R., McLean, S., Žuberová, M., Hunter, C.N., Tichý, M. (2008) The C-Terminal extension of ferrochelatase is critical for enzyme aktivity and for functioning of the tetrapyrrole pathway in Synechocystis strain PCC 6803. Journal of Bacteriology 190, 2086-2095.