Bioinformational analysis of Yersinia pseudotuberculosis IP32953 CRISPR/cas system

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 syst...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	N. P. Peretolchina, Y. P. Dzhioev, A. Y. Borisenko, E. A. Voskresenskaya, A. I. Paramonov, L. A. Stepanenko, O. V. Kolbaseeva, V. I. Zlobin
Formato:	article
Lenguaje:	RU
Publicado:	Scientific Сentre for Family Health and Human Reproduction Problems 2016
Materias:	crispr/cas yersinia bioinformatics Science Q
Acceso en línea:	https://doaj.org/article/1aaebc0d12fc48debce09f9df677aca6
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:1aaebc0d12fc48debce09f9df677aca6
record_format	dspace
spelling	oai:doaj.org-article:1aaebc0d12fc48debce09f9df677aca62021-11-23T06:14:35ZBioinformational analysis of Yersinia pseudotuberculosis IP32953 CRISPR/cas system2541-94202587-959610.12737/23384https://doaj.org/article/1aaebc0d12fc48debce09f9df677aca62016-09-01T00:00:00Zhttps://www.actabiomedica.ru/jour/article/view/280https://doaj.org/toc/2541-9420https://doaj.org/toc/2587-9596The 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.N. P. PeretolchinaY. P. DzhioevA. Y. BorisenkoE. A. VoskresenskayaA. I. ParamonovL. A. StepanenkoO. V. KolbaseevaV. I. ZlobinScientific Сentre for Family Health and Human Reproduction Problemsarticlecrispr/cascrispr/casyersiniabioinformaticsScienceQRUActa Biomedica Scientifica, Vol 1, Iss 5, Pp 64-67 (2016)
institution	DOAJ
collection	DOAJ
language	RU
topic	crispr/cas crispr/cas yersinia bioinformatics Science Q
spellingShingle	crispr/cas crispr/cas yersinia bioinformatics Science Q N. P. Peretolchina Y. P. Dzhioev A. Y. Borisenko E. A. Voskresenskaya A. I. Paramonov L. A. Stepanenko O. V. Kolbaseeva V. I. Zlobin Bioinformational analysis of Yersinia pseudotuberculosis IP32953 CRISPR/cas system
description	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.
format	article
author	N. P. Peretolchina Y. P. Dzhioev A. Y. Borisenko E. A. Voskresenskaya A. I. Paramonov L. A. Stepanenko O. V. Kolbaseeva V. I. Zlobin
author_facet	N. P. Peretolchina Y. P. Dzhioev A. Y. Borisenko E. A. Voskresenskaya A. I. Paramonov L. A. Stepanenko O. V. Kolbaseeva V. I. Zlobin
author_sort	N. P. Peretolchina
title	Bioinformational analysis of Yersinia pseudotuberculosis IP32953 CRISPR/cas system
title_short	Bioinformational analysis of Yersinia pseudotuberculosis IP32953 CRISPR/cas system
title_full	Bioinformational analysis of Yersinia pseudotuberculosis IP32953 CRISPR/cas system
title_fullStr	Bioinformational analysis of Yersinia pseudotuberculosis IP32953 CRISPR/cas system
title_full_unstemmed	Bioinformational analysis of Yersinia pseudotuberculosis IP32953 CRISPR/cas system
title_sort	bioinformational analysis of yersinia pseudotuberculosis ip32953 crispr/cas system
publisher	Scientific Сentre for Family Health and Human Reproduction Problems
publishDate	2016
url	https://doaj.org/article/1aaebc0d12fc48debce09f9df677aca6
work_keys_str_mv	AT npperetolchina bioinformationalanalysisofyersiniapseudotuberculosisip32953crisprcassystem AT ypdzhioev bioinformationalanalysisofyersiniapseudotuberculosisip32953crisprcassystem AT ayborisenko bioinformationalanalysisofyersiniapseudotuberculosisip32953crisprcassystem AT eavoskresenskaya bioinformationalanalysisofyersiniapseudotuberculosisip32953crisprcassystem AT aiparamonov bioinformationalanalysisofyersiniapseudotuberculosisip32953crisprcassystem AT lastepanenko bioinformationalanalysisofyersiniapseudotuberculosisip32953crisprcassystem AT ovkolbaseeva bioinformationalanalysisofyersiniapseudotuberculosisip32953crisprcassystem AT vizlobin bioinformationalanalysisofyersiniapseudotuberculosisip32953crisprcassystem
_version_	1718417055498108928

Bioinformational analysis of Yersinia pseudotuberculosis IP32953 CRISPR/cas system

Ejemplares similares