O. Zverkóv - Publications

2020

Rubanov L., Shilovsky G., Seliverstov A., Zverkóv O., Lyubetsky V., Gene loss prediction based on genomic structure. The proceedings of International forum «Biotechnology: state of the art and perspectives», Moscow, Russia, October 28–30 2020, Iss. 18, P. 259–260. DOI: 10.37747/2312-640X-2020-18-258-260 http://iitp.ru/https://doi.org/10.37747/2312-640X-2020-18-258-260
Lyubetsky V., Shilovsky G., Zverkóv O., Seliverstov A., Rubanov L., New bioinformatics methods for identification of lost genes and protein isoforms. Homo sapiens liberatus, Proceedings of the 3rd International Conference in celebration of the 85th birthday of professor V.P. Skulachev, Moscow, Russia, February 20–21 2020, Abstract Book. Moscow: Torus Press, 2020, P. 41–42. DOI: 10.30826/HomoSapiens-2020-30 http://iitp.ru/https://www.elibrary.ru/item.asp?id=42660982
Lyubetsky V., Shilovsky G., Seliverstov A., Zverkóv O., Rubanov L., Evolution of proteins involved in response to ROS. Bioinformatics of Genome Regulation and Structure/Systems Biology (BGRS/SB-2020), The Twelfth International Multiconference Abstracts, Novosibirsk, Russia, 6–10 July 2020. Novosibirsk: ICG SB RAS, 2020, P. 652–653. DOI: 10.18699/BGRS/SB-2020-398 http://iitp.ru/https://doi.org/10.18699/BGRS/SB-2020-398
Rubanov L., Zverkóv O., Shilovsky G., Seliverstov A., Lyubetsky V., Protein-coding genes in Euarchontoglires with pseudogene homologs in humans. Life, 2020, Vol. 10, No. 9, Art. 192, 10 pp. DOI: 10.3390/life10090192, PMID: 32927891 http://iitp.ru/https://doi.org/10.3390/life10090192
Lyubetsky V., Zverkóv O., Rubanov L., Seliverstov A., Optimal growth temperature and intergenic distances in bacteria, archaea, and plastids of rhodophytic branch. BioMed Research International, 2020, Vol. 2020, Art. 3465380, 10 pp. DOI: 10.1155/2020/3465380, PMID: 32025518 http://iitp.ru/https://www.hindawi.com/journals/bmri/2020/3465380/

2019

Zverkóv O., Mikhailov K., Isaev S., Rusin L., Logacheva M., Penin A., Moroz L., Panchin Y., Lyubetsky V., Aleoshin V., Dicyemida and Orthonectida: Two stories of body plan simplification. Proceedings of the International Moscow Conference on Computational Molecular Biology: MCCMB’19, Moscow, Russia, July 27–30 2019. http://mccmb.belozersky.msu.ru/2019/thesis/MCCMB2019/pages/author.utf8.html
Rubanov L., Shilovsky G., Seliverstov A., Zverkóv O., Lyubetsky V., Mouse genes lost in rodent and primate species with long lifespan. The proceedings of International congress «Biotechnology: state of the art and perspectives», Moscow, Russia, February 25–27 2019, Iss. 17, P. 342. http://iitp.ru/https://elibrary.ru/item.asp?id=37590373
Rubanov L., Zaraisky A., Shilovsky G., Seliverstov A., Zverkóv O., Lyubetsky V., Screening for mouse genes lost in mammals with long lifespans. BioData Mining, 2019, Vol. 12, Art. 20. DOI: 10.1186/s13040-019-0208-x, PMID: 31728160 (WoS Q1) http://iitp.ru/https://doi.org/10.1186/s13040-019-0208-x
Shilovsky G., Zverkóv O., Seliverstov A., Ashapkin V., Putyatina T., Rubanov L., Lyubetsky V., New C-terminal conserved regions of tafazzin, a catalyst of cardiolipin remodeling. Oxidative Medicine and Cellular Longevity, Vol. 2019, Art. 2901057. DOI: 10.1155/2019/2901057, PMID: 31781330 http://iitp.ru/https://www.hindawi.com/journals/omcl/2019/2901057/
Korotkova D., Lyubetsky V., Ivanova A., Rubanov L., Seliverstov A., Zverkóv O., Martynova N., Nesterenko A., Tereshina M., Peshkin L., Zaraisky A., Bioinformatics screening of genes specific for well-regenerating vertebrates reveals c-answer, a regulator of brain development and regeneration. Cell Reports, Vol. 29, Iss. 4, P. 1027–1040. DOI: 10.1016/j.celrep.2019.09.038, PMID: 31644900 (WoS Q1, IF 8) http://iitp.ru/https://www.cell.com/cell-reports/fulltext/S2211-1247(19)31226-4
Seliverstov A., Zverkóv O., Rubanov L., Lyubetsky V., Protein clustering and gene loss prediction. Computer Assisted Mathematics Conference. Electrotechnical University "LETI" Saint-Petersburg, Russia, July 22-24, 2019. P. 7 http://cte.eltech.ru/ojs/public/static/ProgramCAM-2019.pdf
Zverkóv O., Mikhailov K., Isaev S., Rusin L., Popova O., Logacheva M., Penin A., Moroz L., Panchin Y., Lyubetsky V., Aleoshin V., Dicyemida and Orthonectida: Two stories of body plan simplification. Frontiers in Genetics Vol. 10, Article 443. DOI: 10.3389/fgene.2019.00443, PMID: 31178892 http://iitp.ru/https://www.frontiersin.org/articles/10.3389/fgene.2019.00443/full

2018

Korotkova D., Lyubetsky V., Ivanova A., Rubanov L., Seliverstov A., Zverkóv O., Martynova N., Nesterenko A., Tereshina M., Peshkin L., Zaraisky A., Bioinformatic screening of genes present only in well regenerating vertebrates reveals novel FGF and purinergic signaling modulator - c-Answer. bioRxiv, 13 Dec 2018. DOI: 10.1101/494609 http://iitp.ru/https://doi.org/10.1101/494609
Aleoshin V., Slyusarev G., Mikhailov K., Popova O., Rusin L., Zverkóv O., Lyubetsky V., Orthonectida and Dicyemida: Two stories of body plan simplification. In: Molecular Phylogenetics (Eds.: A. Troitsky, L. Rusin), Moscow: Torus Press, 2018, P. 3–4. DOI: 10.30826/MolPhy2018-01 http://iitp.ru/https://doi.org/10.30826/MolPhy2018-01
Seliverstov A., Shilovsky G., Rubanov L., Zverkóv O., Lyubetsky V., Longevity in mammals: lost genes as a determinant. Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB-2018): The Eleventh International Conference (20–25 Aug. 2018, Novosibirsk, Russia); Abstracts. Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences; Novosibirsk State University. – Novosibirsk: ICG SB RAS, 2018. P. 249. DOI: 10.18699/BGRSSB-2018-221 http://conf.bionet.nsc.ru/bgrssb2018/en/
Seliverstov A., Rubanov L., Shilovsky G., Zverkóv O., Lyubetsky V., Longevity in euarchontoglires: lost genes as a determinant. FEBS Open Bio, 2018, Vol. 8 (Suppl. 1), P. 456–457; DOI: 10.1002/2211-5463.12453. http://iitp.ru/https://doi.org/10.1002/2211-5463.12453

2017

Zverkóv O., Mikhailov K., Rusin L., Lyubetsky V., Aleoshin V., Phylogenomic evidence disentangles affinities of the Mesozoa. Proceedings of the 4th International Congress on Invertebrate Morphology (ICIM4), Moscow, Russia, August 18–23 2017, P. 55. http://docs.wixstatic.com/ugd/129822_1dbca70562c24ef59bb43f05d8741720.pdf
Lyubetsky V., Gershgorin R., Rubanov L., Seliverstov A., Zverkóv O., Evolution and systematics of plastids of rhodophytic branch. Proceedings of the International Moscow Conference on Computational Molecular Biology: MCCMB’17, Moscow, Russia, July 27–30 2017, P. 48. http://iitp.ru/https://elibrary.ru/item.asp?id=32563226
Lyubetsky V., Rubanov L., Gorbunov K., Zverkóv O., Seliverstov A., Highly conserved elements in mitochondrial genomes of ciliates and monocots. Materials of the IX International Congress “Biotechnology: State of the Art and Prospects of Development”, Moscow, Russia, February 20–22 2017, Part 1, P. 393. http://iitp.ru/https://elibrary.ru/item.asp?id=29220438
Zverkóv O., Rubanov L., Rusin L., Seliverstov A., Lyubetsky V., Finding long highly conserved elements in complete animal genomes. CEUR Workshop Proceedings, Feb 23 2018, Vol. 2064, Convergent Cognitive Information Technologies 2017, P. 402–408, in Russian. http://ceur-ws.org/Vol-2064/paper47.pdf
Lyubetsky V., Korotkova D., Ivanova A., Rubanov L., Seliverstov A., Zverkóv O., Nesterenko A., Tereshina M., Zaraisky A.G., Novel transmembrane protein c-Answer revealed by bioinformatic screening of genes present only in well regenerating animals. FEBS Journal, 2017, Vol. 284, Iss. S1, P. 155. doi:10.1111/febs.14174
Gershgorin R., Gorbunov K., Zverkóv O., Rubanov L., Seliverstov A., Lyubetsky V., Highly Conserved Elements and Chromosome Structure Evolution in Mitochondrial Genomes in Ciliates. Life, 2017, Vol. 7, No. 9. doi:10.3390/life7010009, PMID: 28264444 http://www.mdpi.com/2075-1729/7/1/9/htm

2016

Korolev S., Gorbunov K., Zverkóv O., Seliverstov A., Lyubetsky V., Degenerate inverted repeats in the genomes of mycobacterium. CEUR Workshop Proceedings (CEUR-WS.org), Selected Papers of the First International Scientific Conference Convergent Cognitive Information Technologies (Convergent 2016), Moscow, Russia, November 25–26 2016, vol. 1763, p. 182–187, in Russian.
Rubanov L., Seliverstov A., Zverkóv O., Lyubetsky V., A method for identification of highly conserved elements and evolutionary analysis of superphylum Alveolata. BMC Bioinformatics. 2016, vol. 17, art. 385, 16 pp. DOI: 10.1186/s12859-016-1257-5, PMID: 27645252 http://dx.doi.org/10.1186/s12859-016-1257-5
Korolev S., Zverkóv O., Seliverstov A., Lyubetsky V., Ribosome reinitiation at leader peptides increases translation of bacterial proteins. Biology Direct, 2016, vol. 11, art. 20. DOI: 10.1186/s13062-016-0123-8, PMID: 27084079 http://biologydirect.biomedcentral.com/articles/10.1186/s13062-016-0123-8#CR11
Zverkóv O., Seliverstov A., Lyubetsky V., Regulation of Expression and Evolution of Genes in Plastids of Rhodophytic Branch. Life, 2016, vol. 6, art. 7, 13 pp. DOI: 10.3390/life6010007, PMID: 26840333 http://www.mdpi.com/2075-1729/6/1/7/htm

2015

Lyubetsky V., Rubanov L., Bairamov A., Shandarin I., Ivanova A., Rusin L., Zverkóv O., Seliverstov A., Zaraisky A., A large-scale search for gene losses, gains and syntenic rearrangements in vertebrate animals. Materials of the VIII Moscow International Congress “Biotechnology: State of the Art and Prospects of Development”, Moscow, March 17–20 2015, Part 1, P. 260–261. http://iitp.ru/https://elibrary.ru/item.asp?id=25631493
Korolev S., Lyzhin S., Zverkóv O., Seliverstov A., Lyubetsky V., A search for genes encoding histidine-containing leader peptides in Actinobacteria. Proceedings of the 39th IITP RAS Interdisciplinary Conference & School “Information Technology and Systems 2015” (ITaS’15), Sochi, Russia, Sep 7–11 2005, Moscow: IITP, 2015, P. 53–60. http://iitp.ru/https://elibrary.ru/item.asp?id=24378300
Lyubetsky V., Rubanov L., Zverkóv O., Rusin L., Seliverstov A., Zaraisky A., A method of detecting local gene synteny rearrangement. Proceedings of the International Moscow Conference on Computational Molecular Biology: MCCMB’15, Moscow, July 16–19 2015, Moscow, IITP RAS, 2015, P. 249–252. http://mccmb.belozersky.msu.ru/2015/proceedings/author.html
Seliverstov A., Zverkóv O., Istomina S., Pirogov S., Kitsis P., Comparative analysis of apicoplast-targeted protein extension lengths in Apicomplexan parasites. BioMed Research International, 2015, Vol. 2015, Article ID 452958. DOI: 10.1155/2015/452958, PMID: 26114107 http://www.hindawi.com/journals/bmri/2015/452958/
Zverkóv O., Seliverstov A., Lyubetsky V., A database of plastid protein families from red algae and Apicomplexa and expression regulation of the moeB gene. BioMed Research International, 2015, Vol. 2015, Article ID 510598. DOI: 10.1155/2015/510598, PMID: 26114108 http://www.hindawi.com/journals/bmri/2015/510598/

2014

Zverkóv O., Seliverstov A., Lyubetsky V., “A database of Rhodophyte plastid protein families and regulation of moeB genes” Abstracts of the Ninth International Conference on Bioinformatics of Genome Regulation and StructureSystems Biology (BGRSSB"2012), Novosibirsk, Russia, June 23–28 2014, p. 176.
Lyubetsky V., Korolev S., Seliverstov A., Zverkóv O., Rubanov L., “Gene expression regulation of the PF00480 or PF14340 domain proteins suggests their involvement in sulfur metabolism” Computational Biology and Chemistry, 2014, vol. 49, p. 7–13. http://www.sciencedirect.com/science/article/pii/S1476927114000036

2013

Lyubetsky V., Korolev S., Seliverstov A., Zverkóv O., “Rho-dependent attenuation of sulfur metabolism in mycobacteria” Proceedings of the International Moscow Conference on Computational Molecular Biology: MCCMB’13, Moscow, Russia, July 25–28 2013.
Kobets N., Goncharov D., Seliverstov A., Zverkóv O., Lyubetsky V., “Comparative analysis of apicoplast-targeted proteins in Toxoplasma gondii and other Apicomplexa species” Proceedings of the International Moscow Conference on Computational Molecular Biology: MCCMB’13, Moscow, Russia, July 25–28 2013.
Lyubetsky V., Seliverstov A., Zverkóv O., “Elaboration of the Homologous Plastid-Encoded Protein Families that Separate Paralogs in Magnoliophytes” Mathematical Biology and Bioinformatics, 2013, Vol. 8, No. 1, P. 225–233, (in Russian).
Zverkóv O., Seliverstov A., Lyubetsky V., Averaged entropy as conservativity measure of genome regions. Tambov University Reports. Series: Natural and Technical Sciences. 2013, Vol. 18, Iss. 5 (part 2), P. 2529–2531 (in Russian).
Lyubetsky V., Seliverstov A., Zverkóv O., Transcription Regulation of Plastid Genes Involved in Sulfate Transport in Viridiplantae. BioMed Research International. 2013, Vol. 2013, Article ID 413450. DOI: 10.1155/2013/413450, PMID: 24073405 http://www.hindawi.com/journals/bmri/2013/413450/
Zverkóv O., Rusin L., Seliverstov A., Lyubetsky V., Study of Direct Repeats in Micro Evolution of Plant Mitochondria and Plastids Based on Protein Clustering. Moscow University Biological Sciences Bulletin. 2013, Vol. 68, No. 2, P. 58–62. DOI: 10.3103/S0096392513020119

2012

Zverkóv O., Seliverstov A., Lyubetsky V., Plastid-encoded protein families specific for narrow taxonomic groups of algae and protozoa. Molecular Biology 2012, Vol. 46, No. 5, P. 717–726. DOI: 10.1134/S0026893312050123
Lyubetsky V., Zverkóv O., Pirogov S., Rubanov L., Seliverstov A., Modeling RNA polymerase interaction in mitochondria of chordates. Biology Direct. 2012, 7:26. DOI: 10.1186/1745-6150-7-26, PMID: 22873568 http://www.biology-direct.com/content/7/1/26
Zverkóv O., Korolev S., Seliverstov A., Lyubetsky V., Transcription regulation of plastid genes cysT and cysA in Viridiplantae. in: Molecular Phylogenetics (Eds.: A. Troitsky, L. Rusin, V. Aleoshin), Moscow, Torus Press, 2012, P. 85.

2011

Zverkóv O., Gorbunov K., Seliverstov A., Lyubetsky V., “Protein clustering with accounting for domen architecture” Proceedings of the 54th conference of Moscow Institute of Physics and Technology “Basic and applied research in life sciences and engineering in modern information environment”, Moscow, Russia, November 25–26 2011, Section of Management and applied mathematics, Vol. 2, P. 88–89.
Lyubetsky V., Zverkóv O., Rubanov L., Seliverstov A., Modeling RNA polymerase competition: the effect of σ-subunit knockout and heat shock on gene transcription level. Biology Direct. 2011, 6:3. DOI: 10.1186/1745-6150-6-3, PMID: 21255416 http://www.biology-direct.com/content/6/1/3

2010

Lyubetsky V., Zverkóv O., Rubanov L., Seliverstov A., Interaction between nucleome and plastome: heat shock response regulation in plastids of plants. Proceedings of the Seventh International Conference on Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB"2010), Novosibirsk, Russia, June 20–27 2010, P. 161.
Zverkóv O., Seliverstov A., Lyubetsky V., “On an algorithm of protein clustering” Proceedings of the 53th conference of Moscow Institute of Physics and Technology “Modern problems of fundamental and applied sciences”, Moscow, Russia, November 24–29 2010, Part I, Vol. 1, P. 118–119. http://mipt.ru/nauka/53conf/Materialy+53+konferenzii/01-FRTK1-view-arpggzeu7il.pdf

2007

Lyubetsky V., Seliverstov A., Zverkóv O., RNA Structures upstream leuA Genes in α-proteobacteria. Proceedings of the International Moscow Conference on Computational Molecular Biology: MCCMB’07, Moscow, Russia, July 27–31 2007, P. 191–192.

2006

Seliverstov A., Zverkóv O., Lyubetsky V., Translation of some chloroplast genes is checked to allow for splicing and editing. Biophysics. 2006, Vol. 51, Suppl. 1, P. S18–S22. DOI: 10.1134/S0006350906070049 http://www.springerlink.com/content/p7517k3187230111/