Reconstruction of recombination sites in genomic structures of the strains of genotype 6 of hepatitis C virus

The encoded portion of the complete genomes of 46 strains of the genotype 6 of hepatitis C virus through bioinformatics RDP programs complex group of 6 recombinants strains was identified, in which 7 recombination sites were fixed. Strains correspond to the three-recombinant HCV subtypes: 6a, 6b and...

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Autores principales:	N. E. Garashchenko, Y. P. Dzhioev, A. I. Paramonov, L. A. Stepanenko, S. I. Malov, O. V. Kolbaseeva, I. V. Malov, V. I. Zlobin
Formato:	article
Lenguaje:	RU
Publicado:	Scientific Сentre for Family Health and Human Reproduction Problems 2016
Materias:	hepatitis c virus genotype 6 strains of hepatitis c virus software rdp methods recombination sites “hot spots" of recombination Science Q
Acceso en línea:	https://doaj.org/article/1106bdda265645649181d957b004e35a
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spelling	oai:doaj.org-article:1106bdda265645649181d957b004e35a2021-11-23T06:14:36ZReconstruction of recombination sites in genomic structures of the strains of genotype 6 of hepatitis C virus2541-94202587-959610.12737/23401https://doaj.org/article/1106bdda265645649181d957b004e35a2016-09-01T00:00:00Zhttps://www.actabiomedica.ru/jour/article/view/287https://doaj.org/toc/2541-9420https://doaj.org/toc/2587-9596The encoded portion of the complete genomes of 46 strains of the genotype 6 of hepatitis C virus through bioinformatics RDP programs complex group of 6 recombinants strains was identified, in which 7 recombination sites were fixed. Strains correspond to the three-recombinant HCV subtypes: 6a, 6b and 61. For each of the identified recombinant we defined parent strains from which they can be obtained. Three recombinants were obtained from parent strains of the same subtype (homologous inside subgenotypic recombination). For the remaining three recombinants parent strains were members of three different subtypes (between subgenotypic recombination).In one strain we identified a unique recombination site in a highly conservative NS3 gene. Most of the recombination sites occurred in the region of the structural genes C, E1 and E2, and in the area of non-structural genes NS5a and NS5b.In the recombinant strain DQ480518-6a two recombination site were identified. One site is located in the structural and nonstructural genes (E2 + NS1 + NS2), and a second one in non-structural region. Dimensions of recombination sites can vary from 86 to 1072 nucleotide bases. The study identified "hot spots" of recombination in the strains of genotype 6 of hepatitis C virus. The recombinants were found in the population of the three countries: the United States (from the serum of an immigrant), Hong Kong and China.N. E. GarashchenkoY. P. DzhioevA. I. ParamonovL. A. StepanenkoS. I. MalovO. V. KolbaseevaI. V. MalovV. I. ZlobinScientific Сentre for Family Health and Human Reproduction Problemsarticlehepatitis c virusgenotype 6 strains of hepatitis c virussoftware rdp methodsrecombination sites“hot spots" of recombinationScienceQRUActa Biomedica Scientifica, Vol 1, Iss 5, Pp 100-103 (2016)
institution	DOAJ
collection	DOAJ
language	RU
topic	hepatitis c virus genotype 6 strains of hepatitis c virus software rdp methods recombination sites “hot spots" of recombination Science Q
spellingShingle	hepatitis c virus genotype 6 strains of hepatitis c virus software rdp methods recombination sites “hot spots" of recombination Science Q N. E. Garashchenko Y. P. Dzhioev A. I. Paramonov L. A. Stepanenko S. I. Malov O. V. Kolbaseeva I. V. Malov V. I. Zlobin Reconstruction of recombination sites in genomic structures of the strains of genotype 6 of hepatitis C virus
description	The encoded portion of the complete genomes of 46 strains of the genotype 6 of hepatitis C virus through bioinformatics RDP programs complex group of 6 recombinants strains was identified, in which 7 recombination sites were fixed. Strains correspond to the three-recombinant HCV subtypes: 6a, 6b and 61. For each of the identified recombinant we defined parent strains from which they can be obtained. Three recombinants were obtained from parent strains of the same subtype (homologous inside subgenotypic recombination). For the remaining three recombinants parent strains were members of three different subtypes (between subgenotypic recombination).In one strain we identified a unique recombination site in a highly conservative NS3 gene. Most of the recombination sites occurred in the region of the structural genes C, E1 and E2, and in the area of non-structural genes NS5a and NS5b.In the recombinant strain DQ480518-6a two recombination site were identified. One site is located in the structural and nonstructural genes (E2 + NS1 + NS2), and a second one in non-structural region. Dimensions of recombination sites can vary from 86 to 1072 nucleotide bases. The study identified "hot spots" of recombination in the strains of genotype 6 of hepatitis C virus. The recombinants were found in the population of the three countries: the United States (from the serum of an immigrant), Hong Kong and China.
format	article
author	N. E. Garashchenko Y. P. Dzhioev A. I. Paramonov L. A. Stepanenko S. I. Malov O. V. Kolbaseeva I. V. Malov V. I. Zlobin
author_facet	N. E. Garashchenko Y. P. Dzhioev A. I. Paramonov L. A. Stepanenko S. I. Malov O. V. Kolbaseeva I. V. Malov V. I. Zlobin
author_sort	N. E. Garashchenko
title	Reconstruction of recombination sites in genomic structures of the strains of genotype 6 of hepatitis C virus
title_short	Reconstruction of recombination sites in genomic structures of the strains of genotype 6 of hepatitis C virus
title_full	Reconstruction of recombination sites in genomic structures of the strains of genotype 6 of hepatitis C virus
title_fullStr	Reconstruction of recombination sites in genomic structures of the strains of genotype 6 of hepatitis C virus
title_full_unstemmed	Reconstruction of recombination sites in genomic structures of the strains of genotype 6 of hepatitis C virus
title_sort	reconstruction of recombination sites in genomic structures of the strains of genotype 6 of hepatitis c virus
publisher	Scientific Сentre for Family Health and Human Reproduction Problems
publishDate	2016
url	https://doaj.org/article/1106bdda265645649181d957b004e35a
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Reconstruction of recombination sites in genomic structures of the strains of genotype 6 of hepatitis C virus

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