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BGRS\SB-2018) the Eleventh International Conference Institute of Cytology and Genetics Sibirian Branch of Russian Academy of Sciences Novosibirsk State Univesity BIOINFORMATICS OF GENOME REGULATION AND STRUCTURE\SYSTEMS BIOLOGY (BGRS\SB-2018) The Eleventh International Conference Abstracts 20–25 August, 2018 Novosibirsk, Russia Novosibirsk ICG SB RAS 2018 УДК 575 B60 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. – 262 pp. – ISBN 978-5-91291-036-4. ISBN 978-5-91291-036-4 © ICG SB RAS, 2018 International program committee • Nikolai Kolchanov, Institute of Cytology and Genetics of SB RAS, Novosibirsk, Russia (Conference Chair) • Ralf Hofestädt, University of Bielefeld, Germany • Mikhail Fedoruk, Novosibirsk State University, Novosibirsk, Russia • Lubomir Aftanas, State Scientific-Research Institute of Physiology & Basic Medicine, Novosibirsk, Russia • Ivo Grosse, Halle-Wittenberg University, Halle, Germany • Olga Lavrik, Institute of Chemical Biology and Fundamental Medicine • Siberian Branch of the Russian Academy of Sciences, Novosibirsk, Russia • Dmitry Afonnikov, Institute of Cytology and Genetics of SB RAS, Novosibirsk, Russia • Andrey Lisitsa, IBMC, Moscow, Russia • Mikhail Voevoda, Institute of Internal Medicine and Preventive Medicine – ICG SB RAS, Russia • Vladimir Ivanisenko, Institute of Cytology and Genetics of SB RAS, Novosibirsk, Russia • Sergey Kabanikhin, Institute of Computational Mathematics and Mathematical Geophysics SB RAS, Novosibirsk, Russia • Olga Krebs, Heidelberg Institute for Theoretical Studies, Germany • Inna Lavrik, Otto von Guericke University, Magdeburg, Germany • Yuri Matushkin, Institute of Cytology and Genetics of SB RAS, Novosibirsk, Russia • Evgeny Nikolaev, Institute of Energy Problems of Chemical Physics, Russian Academy of Sciences, Moscow, Russia • Nikolay Podkolodny, Institute of Cytology and Genetics of SB RAS, Novosibirsk, Russia • Mikhail Moshkin, Institute of Cytology and Genetics of SB RAS, Novosibirsk, Russia • Leonid Moroz, University of Florida, Gainesville, USA • Sergey Peltek, Institute of Cytology and Genetics of SB RAS, Novosibirsk, Russia • Sergey Lashin, Institute of Cytology and Genetics of SB RAS, Novosibirsk, Russia • Evgeny Rogaev, University of Massachusetts, USA • Alexey Rodionov, Institute of Computational Mathematics and Mathematical Geophysics SB RAS, Novosibirsk, Russia • Elena Salina, Institute of Cytology and Genetics of SB RAS, Novosibirsk, Russia • Natalya Kolosova, Institute of Cytology and Genetics of SB RAS, Novosibirsk, Russia • Alexey Kochetov, Institute of Cytology and Genetics of SB RAS, Novosibirsk, Russia • Yuri Orlov, Institute of Cytology and Genetics of SB RAS, Novosibirsk, Russia • Vladimir Poroikov, Institute of Biomedical Chemistry, Moscow, Russia • Maria Samsonova, St. Petersburg State Polytechnic University, St. Petersburg, Russia • Denis Larkin, The Royal Veterinary College, London, United Kingdom • Ancha Baranova, George Mason University, Fairfax, USA Local organizing committee Contacts • Svetlana Zubova, ICG SB RAS (Chairperson) Russian Federation • Olga Petrovskaiy, ICG SB RAS 630090 Novosibirsk, Lavrentyeva, 10 • Tatyana Karamysheva, ICG SB RAS Tel: +7(383) 363-49-80 • Erlan Tokpanov, ICG SB RAS Fax: +7(383) 333-12-78 • Alina Morkovina, ICG SB RAS • Larisa Eliseeva, ICG SB RAS URL - ICG SB RAS: www.bionet.nsc.ru • Ksenia Strygina, ICG SB RAS URL - BGRS\SB-2018: http://conf.bionet.nsc.ru/ bgrssb2018/en/ • Andrey Kharkevich, ICG SB RAS • Nadezhda Glebova, ICG SB RAS Organizing committee: [email protected] • Tatyana Chalkova, ICG SB RAS • Ilya Akberdin, ICG SB RAS • Aleksandr Ovsienko, NSU • Anastasia Klimenok, NSU • Grigoriy Khazankin, NSU Information Technology Department, IEEE R8 Russia Siberia Section Organizers • Institute of Cytology and Genetics SB RAS • The Vavilov Society of Geneticists and Breeders (ICIG SB RAS) • Federal State Scientific Budgetary Institution • Novosibirsk State University (NSU) “Scientific Research Institute of Physiology • The Federal Agency for Scientific Organizations & Basic Medicine”(FSSBI “SRIPBM”) (FASO Russia) • Chair of Information Biology NSF NSU • Siberian Branch of the Russian Academy • Limited liability company “Scientific service” of Sciences (SB RAS) • Vavilov Journal of Genetics and Breeding Sponsors Russian Foundation Federal Agency Ministry of Education and for Basic Research for Scientific Science of the Russian Grant No. 18-04-20047 Organizations Federation (Minobrnauki FASO Russia of Russia) Grant No. ДНИТ 28.12487.2018/12.1 GolD SPONSORS SILVER SPONSORS MP Biomedicals Albiogen Roche Diagnostics Rus Ltd. Skygen, Ltd Bioline, Llc Khimexpert Ltd. DIA-M, Ltd BAsic SPONSORS geneXplain GmbH IOS Press Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, Novosibirsk, Russia Director: Corr. Member of the RAS Alexey V. Kochetov Academic Secretary: Candidate of Sciences (Biology) Galina V. Orlova Phone: +7(383) 363-49-85 ext. 1336; e-mail: [email protected], [email protected] The Institute was founded in 1957, among the first institutions of the Siberian Branch of the Russian Academy of Sciences. Presently, ICG SB RAS is an interdisciplinary biological center, which ranks among the leading biological institutions in Russia. The second step of the restructuring of the Federal Research Center Institute of Cytology and Genetics was completed in May 2017. Presently, ICG includes three branches: - Siberian Research Institute for Plant Industry and Breeding, - Institute of Clinical and Experimental Lymphology, and - Institution of Internal and Preventive Medicine. Tasks of ICG SB RAS: Solution of top-priority problems in the development of the Russian science and technology sector in the fields of plant genetics and breeding, animal genetics and breeding, human genetics, biotechnology, and fundamental medicine by applying methods of molecular genetics, cell biology, and computational biology. Strategic goal: Integrated studies in plant genetics and breeding, animal genetics and breeding, human genetics, fundamental medicine, and biotechnology by applying methods of molecular genetics, cell biology, and computational biology from the generation of academic knowledge to the solution of top priority problems set by Russian agricultural, biotechnological, biomedical, and pharmaceutical industries. Staff: As on January 1, 2018, ICG included 88 scientific units, which employed 1397 members, of them 492 researchers, 2 RAS Advisors, 8 Full Members of the RAS, 4 Corresponding Members of the RAS, 98 Doctors of Science, and 305 Candidates of Science. Postgraduate education and residency training: As on January 1, 2018, ICG trains 87 postgraduates and 18 interns. Publications: The Institute intensely contributes to Russian and foreign journals and ranks among acknowledged leaders in Russian biology. In 2017, 344 papers were enrolled in the international online service Web of Science (WoS). The overall number of publications in peer-reviewed journals exceeds 450. In 2017 papers of the researchers of the Institute received over 4719 WoS citations. Auxiliaries: Core facility “Center for Genetic Resources of Laboratory Animals”, which includes the unique research unit “SPF vivarium”, and seven shared access centers www.bionet.nsc.ru/ uslugi. The Federal Research Center Institute of Cytology and Genetics is looking to cooperate with scientific and commercial enterprises. Address: Prosp. Akad. Lavrentiev 10, Novosibirsk, 630090 Russia Phone/fax: +7(383) 363-49-80 / +7(383) 333-12-78 URL: www.bionet.nsc.ru e-mail: [email protected] from 57 countries 141 140 ТОP-100 GENOMICS, TRANSCRIPTOMICS AND BIOINFORMATICS DOI 10.18699/BGRSSB-2018-001 Analysis of repetitive DNA sequences in genomes of Porodaedalea niemelaei, P. chrysoloma and Armillaria borealis A. Aksyonova1*, Yu. Putintseva1, N. Oreshkova1, 2, I. Pavlov1, 2, Y. Litovka3, K. Krutovsky1, 4, 5, 6 1 Siberian Federal University, Krasnoyarsk, Russia 2 V.N. Sukachev Institute of Forest SB RAS, Krasnoyarsk, Russia 3 M.F. Reshetnov Siberian State Aerospace University, Department of Silviculture, Krasnoyarsk, Russia 4 Georg-August University of Göttingen, Department of Forest Genetics and Forest Tree Breeding, Göttingen, Germany 5 Vavilov Institute of General Genetics RAS, Moscow, Russia 6 Texas A&M University, College Station, Texas, USA * e-mail: [email protected] Key words: Armillaria, fungi, genomes, Porodaedalea, repetitive DNA, transposable elements, transposons Motivation and Aim: We are interested in the evolution of the fungi genes and genomes. Repetitive DNA sequences may play significant role in determining the structure and evolution of genes and genomes. Therefore, it is very important to identify and study them in the fungi genomes, such as Porodaedalea and Armillaria that are among the most important fungi in boreal and temperate forests. Methods and Algorithms: The P. niemelaei genome was sequenced and annotated using the PacBio technology by the US DoE Joint Genome Institute (JGI) in collaboration with Department of Forest Genetics and Forest Tree Breeding, Georg-August University of Göttingen, Germany and Laboratory of Forest Genomics, Siberian Federal University (SFU), Russia. The length of the full genomic assembly was 53 Mbp. The genome assembly of P. chrysoloma was obtained from the
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