Plastid-encoded protein families specific for narrow taxonomic groups of algae and protozoa
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Protein clustering is useful for refining protein annotations and searching for proteins by their phylogenetic profile. We have performed the clustering of proteins encoded in the plastoms of Rhodophyta, as well as other plastid-containing species related to the Rhodophyta branch. The corresponding database and cluster search according to protein phylogenetic profile are available at http://lab6.iitp.ru/ppc/redline. Plastome-encoded proteins specific for small taxonomic groups of algae and protozoa have been found based on this database, and the search for and analysis of RNA polymerase in the nuclear genomes of Apicomplexa has been performed.
Keywordsalgae Apicomplexa plastids Rhodophyta branch protein families protein clusters phylogenetic profile
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- 3.Balashov Yu.S. 1998. Iksodovye kleshchi: parazity i perenoschiki infektsii (Ixodid Ticks: Parasites and Infection Vectors). St. Petersburg: Nauka.Google Scholar
- 8.Seliverstov A.V., Lyubetsky V.A. 2011. Evolution of RNA-polymerases and their promoters in plastids. 50-Year IITP Anniversary Conference, Moscow, Russia, September 15, 2011. Moscow, pp. 58–62.Google Scholar
- 23.Zverkov O.A., Seliverstov A.V., Lyubetsky V.A. On an algorithm of protein clustering. Trudy 53-ei nauchnoi konferentsii MFTI. Proc. 53d Conf. Moscow Inst. of Physics and Technology (Moscow, 2010). Moscow: MFTI, 2010, part 1, vol. 1, pp. 118–119.Google Scholar
- 24.Zverkov O.A., Gorbunov K.Yu., Seliverstov, A.V. Lyubetsky V.A. Protein clustering with accounting for domen architecture. Trudy 54-oi nauchnoi konferentsii MFTI. Proc. 54th Conf. Moscow Inst. of Physics and Technology (Moscow, 2011), Section of Management and Applied Mathematics. Moscow: MFTI, 2011, vol. 2, pp. 88–89.Google Scholar
- 28.Tanaka T., Fukuda Y., Yoshino T., Maeda Y., Muto M., Matsumoto M., Mayama S., Matsunaga T. 2011. High-throughput pyrosequencing of the chloroplast genome of a highly neutral-lipid-producing marine pennate diatom, Fistulifera sp. strain JPCC DA0580. Photosynth. Res. 109, 223–229.PubMedCrossRefGoogle Scholar
- 31.Hagopian J.C., Reis M., Kitajima J.P., Bhattacharya D., de Oliveira M.C. 2004. Comparative analysis of the complete plastid genome sequence of the red alga Gracilaria tenuistipitata var. liui provides insights into the evolution of rhodoplasts and their relationship to other plastids. J. Mol. Evol. 59, 464–477.PubMedCrossRefGoogle Scholar