actabiomedicaActa Biomedica ScientificaActa Biomedica Scientifica2541-94202587-9596Scientific Centre for Family Health and Human Reproduction Problems10.12737/23384actabiomedica-280Research ArticleНОВЫЕ ТЕХНОЛОГИИNEW TECHNOLOGIESБиоинформационный анализ CRISPR/Cas системы штамма Yersinia pseudotuberculosis IP32953Bioinformational analysis of Yersinia pseudotuberculosis IP32953 CRISPR/cas systemПеретолчинаН. П.PeretolchinaN. P.nadine1lenz@gmail.comДжиоевЮ. П.DzhioevY. P.alanir07@mail.ruБорисенкоА. Ю.BorisenkoA. Y.noemail@neicon.ruВоскресенскаяЕ. А.VoskresenskayaE. A.tsenevapasteur@yandex.ruПарамоновА. И.ParamonovA. I.paramonov_a.i@mail.ruСтепаненкоЛ. А.StepanenkoL. A.steplia@mail.ruКолбасееваО. В.KolbaseevaO. V.kolbaseeva@yandex.ruЗлобинВ. И.ZlobinV. I.vizlobin@mail.ruФГБОУ ВО «Иркутский государственный медицинский университет» Минздрава РоссииIrkutsk state Medical universityФГБОУ ВО «Иркутский государственный медицинский университет» Минздрава России; ФГБНУ «Научный центр проблем здоровья семьи и репродукции человека»Irkutsk state Medical university; Scientific centre of Family Health and Human Reproduction problemsФБУН «Санкт-Петербургский научно-исследовательский институт эпидемиологии и микробиологии им. Пастера»Saint Petersburg pasteur InstituteФГБНУ «Научный центр проблем здоровья семьи и репродукции человека»Scientific centre of Family Health and Human Reproduction problems201628092016156467Copyright © Перетолчина Н.П., Джиоев Ю.П., Борисенко А.Ю., Воскресенская Е.А., Парамонов А.И., Степаненко Л.А., Колбасеева О.В., Злобин В.И., 20162016Перетолчина Н.П., Джиоев Ю.П., Борисенко А.Ю., Воскресенская Е.А., Парамонов А.И., Степаненко Л.А., Колбасеева О.В., Злобин В.И.Peretolchina N.P., Dzhioev Y.P., Borisenko A.Y., Voskresenskaya E.A., Paramonov A.I., Stepanenko L.A., Kolbaseeva O.V., Zlobin V.I.Данная работа распространяется под лицензией Creative Commons Attribution 4.0.This work is licensed under a Creative Commons Attribution 4.0 License.https://www.actabiomedica.ru/jour/article/view/280

Цель данного исследования: поиск и расшифровка CRISPR/Cas системы с помощью пакета программ в геноме Y. pseudotuberculosis 1P32953. С помощью объединения результатов 4 программных методов мы обнаружили в геноме штамма Y. pseudotuberculosis IP329353 один набор cas-генов и три локуса: YP1, YP2 и YP3. Через спейсеры кассет были обнаружены протоспейсеры в геномах: Y. pseudotuberculosis, Y. intermedia, Y. similis, Salmonella phage, Enterobacteria phage, и плазмиды Y. pseudotuberculosis IP32953 и Y. pseudotuberculosis IP31758.

The results of this study include Yersinia pseudotuberculosis CRISPR/Cas system structure analysis. CRISPR/Cas system is a specific adaptive protection against heterogeneous genetic elements. The object of research was the complete genome of Y. pseudotuberculosis IP32953 (NC_006155). CRISPR/Cas system screening was performed by program modelling methods MacSyFinder ver. 1.0.2. CRISPR loci screening and analyzing were carried out by program package: CRISPR Recognition tool (CRT), CR1SP1: a CRISPR Interactive database, CRISPRFinder, and PilerCR. Spacer sequences were used in order to find protospacers in ACLAME, GenBank-Phage and RefSeq-Plasmid databases by BLASTn search algorithm. Protospacer sequences could be found in genomes of phages, plasmids and bacteria. In last case complete genomes of bacteria were analyzed by online-tool PHAST: PHAge Search Tool. Y. pseudotuberculosis IP329353 has CRISPR/Cas system that consists of one sequence of cas-genes and three loci. These loci are far away from each other. Locus YP1 is situated in close proximity to cas-genes. Protospacers were found in genomes of Y. pseudotuberculosis PB1/+, Y. intermedia Y228, Y. similis str. 228, Salmonella phage, Enterobacteria phage, Y. pseudotuberculosis 1P32953 plasmid pYV and plasmid of Y. pseudotuberculosis 1P31758. Thus, the combination of four program methods allows finding CRISPR/Cas system more precisely. Spacer sequences could be used for protospacer screening.

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The authors declare that there are no conflicts of interest present.