Abstract
Statistically revealed inner structuredness of bacterial vs. chloroplast phototsynthetic genes is studied. To do it, we analysed the cyanobacterial genes responsible for a light consumption. A sounding difference in the spatial pattern specific for chloroplast photosystem genes, and bacterial photosystem genes is found. Thus, the bacterial genes yield another type of symmetry of the distribution of the genes converted into triplet frequency dictionaries in 63-dimensional Euclidean space of triplets.
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References
Allen, J.F., de Paula, W.B., Puthiyaveetil, S., Nield, J.: A structural phylogenetic map for chloroplast photosynthesis. Trends Plant Sci. 16(12), 645–655 (2011)
Anderson, J.M., Melis, A.: Localization of different photosystems in separate regions of chloroplast membranes. Proc. Natl. Acad. Sci. 80(3), 745–749 (1983)
Casella, S., et al.: Dissecting the native architecture and dynamics of cyanobacterial photosynthetic machinery. Mol. Plant 10(11), 1434–1448 (2017)
Chowdhury, F.A., Trudeau, M.L., Guo, H., Mi, Z.: A photochemical diode artificial photosynthesis system for unassisted high efficiency overall pure water splitting. Nat. Commun. 9(1), 1–9 (2018)
Fedotovskaya, V., Sadovsky, M., Kolesnikova, A., Shpagina, T., Putintseva, Y.: Function vs. taxonomy: further reading from fungal mitochondrial atp synthases. In: IWBBIO, pp. 438–444 (2020)
Gabdulkhakov, A.G., Dontsova, M.V.: Structural studies on photosystem II of cyanobacteria. Biochemistry (Moscow) 78(13), 1524–1538 (2013). https://doi.org/10.1134/S0006297913130105
Gorban, A.N., Popova, T.G., Zinovyev, A.Y.: Four basic symmetry types in the universal 7-cluster structure of microbial genomic sequences. In Silico Biol. 5(3), 265–282 (2005). http://content.iospress.com/articles/in-silico-biology/isb00185
Gorban, A.N., Zinovyev, A.: Principal manifolds and graphs in practice: from molecular biology to dynamical systems. Int. J. Neural Syst. 20(03), 219–232 (2010). https://doi.org/10.1142/S0129065710002383. pMID: 20556849
Gorban, A.N., Zinovyev, A.Y.: Fast and user-friendly non-linear principal manifold learning by method of elastic maps. In: 2015 IEEE International Conference on Data Science and Advanced Analytics, DSAA 2015, Campus des Cordeliers, Paris, France, 19–21 October 2015, pp. 1–9 (2015). https://doi.org/10.1109/DSAA.2015.7344818
Gorban, A., Sumner, N., Zinovyev, A.: Topological grammars for data approximation. Appl. Math. Lett. 20(4), 382–386 (2007)
Hankamer, B., Barber, J., Boekema, E.J.: Structure and membrane organization of photosystem II in green plants. Annu. Rev. Plant Biol. 48(1), 641–671 (1997)
Heinz, S., Liauw, P., Nickelsen, J., Nowaczyk, M.: Analysis of photosystem II biogenesis in cyanobacteria. Biochimica Et Biophysica Acta (BBA)-Bioenergetics 1857(3), 274–287 (2016)
Inoue-Kashino, N., Kashino, Y., Satoh, K., Terashima, I., Pakrasi, H.B.: PSBU provides a stable architecture for the oxygen-evolving system in cyanobacterial photosystem II. Biochemistry 44(36), 12214–12228 (2005)
Karapetyan, N.: Photosystem I of cyanobacteria: organization and functions. Adv. Biol. Chem. 41, 39–76 (2001)
Kirchhoff, H.: Structure-function relationships in photosynthetic membranes: challenges and emerging fields. Plant Sci. 266, 76–82 (2018)
Kirchhoff, H., Haase, W., Wegner, S., Danielsson, R., Ackermann, R., Albertsson, P.A.: Low-light-induced formation of semicrystalline photosystem II arrays in higher plant chloroplasts. Biochemistry 46(39), 11169–11176 (2007)
Kirchhoff, H., Tremmel, I., Haase, W., Kubitscheck, U.: Supramolecular photosystem II organization in grana thylakoid membranes: evidence for a structured arrangement. Biochemistry 43(28), 9204–9213 (2004)
Mabbitt, P.D., Wilbanks, S.M., Eaton-Rye, J.J.: Structure and function of the hydrophilic photosystem II assembly proteins: Psb27, Psb28 and Ycf48. Plant Physiol. Biochem. 81, 96–107 (2014)
Nelson, N., Ben-Shem, A.: The complex architecture of oxygenic photosynthesis. Nat. Rev. Mol. Cell Biol. 5(12), 971–982 (2004)
Nelson, N., Yocum, C.F.: Structure and function of photosystems I and II. Annu. Rev. Plant Biol. 57, 521–565 (2006)
Sadovsky, M., Putintseva, Y., Chernyshova, A., Fedotova, V.: Genome structure of organelles strongly relates to taxonomy of bearers. In: Ortuño, F., Rojas, I. (eds.) Bioinformatics and Biomedical Engineering, pp. 481–490. Springer, Cham (2015). https://doi.org/10.1007/978-3-319-16483-0_47
Sadovsky, M.G., Senashova, M.Y., Malyshev, A.V.: Amazing symmetrical clustering in chloroplast genomes. BMC Bioinform. 21(2), 1–14 (2020)
Shen, J.R.: The structure of photosystem II and the mechanism of water oxidation in photosynthesis. Annu. Rev. Plant Biol. 66, 23–48 (2015)
Staehelin, L.A., Arntzen, C.J.: Regulation of chloroplast membrane function: protein phosphorylation changes the spatial organization of membrane components. J. Cell Biol. 97(5), 1327–1337 (1983)
Wang, Y., Wu, Y., Sun, K., Mi, Z.: A quadruple-band metal-nitride nanowire artificial photosynthesis system for high efficiency photocatalytic overall solar water splitting. Mater. Horizons 6(7), 1454–1462 (2019)
Zhang, S., Wang, S., Guo, L., Chen, H., Tan, B., Jin, S.: An artificial photosynthesis system comprising a covalent triazine framework as an electron relay facilitator for photochemical carbon dioxide reduction. J. Mater. Chem. C 8(1), 192–200 (2020)
Zlenko, D.V., Galochkina, T.V., Krasilnikov, P.M., Stadnichuk, I.N.: Coupled rows of PBS cores and PSII dimers in cyanobacteria: symmetry and structure. Photosynth. Res. 133(1), 245–260 (2017)
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Senashova, M., Sadovsky, M. (2022). Comparative Analysis of the Spatial Structure Chloroplasts and Cyanobacteria Photosynthetic Systems I and II Genes. In: Rojas, I., Valenzuela, O., Rojas, F., Herrera, L.J., Ortuño, F. (eds) Bioinformatics and Biomedical Engineering. IWBBIO 2022. Lecture Notes in Computer Science(), vol 13346. Springer, Cham. https://doi.org/10.1007/978-3-031-07704-3_16
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