TY - JOUR

T1 - Recombinant Variants of Hepatitis C Virus in Siberia

AU - Chub, E. V.

AU - Sivolobova, G. F.

AU - Netesov, S. V.

AU - Kochneva, G. V.

PY - 2019/4/1

Y1 - 2019/4/1

N2 - Abstract: This review summarizes the results of a comprehensive multi-year molecular-epidemiological research on HCV (2001–2016) in Altai krai and Novosibirsk oblast. The first eight cases of infection with the CRF01_1b2k recombinant form of HCV were revealed during this research. The recombination point in the NS2 gene was confirmed for all CRF01_1b2k Siberian isolates, which agrees with the data on the previously identified recombinants of the same form in other regions of Russia and the rest of the world. An analysis of the nucleotide sequences of the Core, E1, NS2, and NS5b gene fragments in the genomes of eight recombinant isolates of the 2k/1b type identified in Siberia showed a close phylogenetic relationship between them, as well as with 27 recombinants described in St. Petersburg, Azerbaijan, Armenia, Estonia, The Netherlands, Ireland, France, and the United States. The levels of homology for the Core, Е1, NS2, and NS5b genes were 97, 94, 92, and 96%, respectively. Phylogenetic analysis of the genomes of recombinants indicated the common origin of isolates of the 2k/1b type and their broad circulation in the territory of Russia. Analysis of the 5'‑region of the genome of recombinant isolates of subtype 2k showed that, apart from Russia, the closest isolates of the 2k subtype were previously identified in Moldova and Uzbekistan in 1996–2013. The incidence of recombinant isolates in the Siberian region is estimated at 1%. The molecular clock method has shown that the most probable time of the appearance of the CRF01_1b2k recombinant form is between 1957 and 1970.

AB - Abstract: This review summarizes the results of a comprehensive multi-year molecular-epidemiological research on HCV (2001–2016) in Altai krai and Novosibirsk oblast. The first eight cases of infection with the CRF01_1b2k recombinant form of HCV were revealed during this research. The recombination point in the NS2 gene was confirmed for all CRF01_1b2k Siberian isolates, which agrees with the data on the previously identified recombinants of the same form in other regions of Russia and the rest of the world. An analysis of the nucleotide sequences of the Core, E1, NS2, and NS5b gene fragments in the genomes of eight recombinant isolates of the 2k/1b type identified in Siberia showed a close phylogenetic relationship between them, as well as with 27 recombinants described in St. Petersburg, Azerbaijan, Armenia, Estonia, The Netherlands, Ireland, France, and the United States. The levels of homology for the Core, Е1, NS2, and NS5b genes were 97, 94, 92, and 96%, respectively. Phylogenetic analysis of the genomes of recombinants indicated the common origin of isolates of the 2k/1b type and their broad circulation in the territory of Russia. Analysis of the 5'‑region of the genome of recombinant isolates of subtype 2k showed that, apart from Russia, the closest isolates of the 2k subtype were previously identified in Moldova and Uzbekistan in 1996–2013. The incidence of recombinant isolates in the Siberian region is estimated at 1%. The molecular clock method has shown that the most probable time of the appearance of the CRF01_1b2k recombinant form is between 1957 and 1970.

KW - CRF01_1b2k form

KW - HCV

KW - phylogenetic analysis

KW - recombinant

KW - recombination point

KW - review

KW - STRAINS

KW - SUBTYPE

KW - INTRAVENOUS-DRUG-USERS

KW - INTERGENOTYPIC RECOMBINANT

KW - GENETIC DIVERSITY

KW - GENOTYPES

KW - EXCLUSION

KW - EVOLUTION

KW - MOLECULAR EPIDEMIOLOGY

KW - INFECTION

UR - http://www.scopus.com/inward/record.url?scp=85073499622&partnerID=8YFLogxK

U2 - 10.3103/S0891416819020034

DO - 10.3103/S0891416819020034

M3 - Review article

AN - SCOPUS:85073499622

VL - 34

SP - 97

EP - 109

JO - Molecular Genetics, Microbiology and Virology

JF - Molecular Genetics, Microbiology and Virology

SN - 0891-4168

IS - 2

ER -