Prevalence of Hepatitis C Virus Subgenotypes 1a and 1b in Japanese Patients: Ultra-Deep Sequencing Analysis of HCV NS5B Genotype-Specific Region

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dc.contributorSistema FMUSP-HC: Faculdade de Medicina da Universidade de São Paulo (FMUSP) e Hospital das Clínicas da FMUSP
dc.contributor.authorWU, Shuang
dc.contributor.authorKANDA, Tatsuo
dc.contributor.authorNAKAMOTO, Shingo
dc.contributor.authorJIANG, Xia
dc.contributor.authorMIYAMURA, Tatsuo
dc.contributor.authorNAKATANI, Sueli M.
dc.contributor.authorONO, Suzane Kioko
dc.contributor.authorTAKAHASHI-NAKAGUCHI, Azusa
dc.contributor.authorGONOI, Tohru
dc.contributor.authorYOKOSUKA, Osamu
dc.date.accessioned2014-01-28T22:21:50Z
dc.date.available2014-01-28T22:21:50Z
dc.date.issued2013
dc.description.abstractBackground: Hepatitis C virus (HCV) subgenotypes 1a and 1b have different impacts on the treatment response to peginterferon plus ribavirin with direct-acting antivirals (DAAs) against patients infected with HCV genotype 1, as the emergence rates of resistance mutations are different between these two subgenotypes. In Japan, almost all of HCV genotype 1 belongs to subgenotype 1b. Methods and Findings: To determine HCV subgenotype 1a or 1b in Japanese patients infected with HCV genotype 1, real-time PCR-based method and Sanger method were used for the HCV NS5B region. HCV subgenotypes were determined in 90% by real-time PCR-based method. We also analyzed the specific probe regions for HCV subgenotypes 1a and 1b using ultra-deep sequencing, and uncovered mutations that could not be revealed using direct-sequencing by Sanger method. We estimated the prevalence of HCV subgenotype 1a as 1.2-2.5% of HCV genotype 1 patients in Japan. Conclusions: Although real-time PCR-based HCV subgenotyping method seems fair for differentiating HCV subgenotypes 1a and 1b, it may not be sufficient for clinical practice. Ultra-deep sequencing is useful for revealing the resistant strain(s) of HCV before DAA treatment as well as mixed infection with different genotypes or subgenotypes of HCV.
dc.description.indexMEDLINE
dc.description.sponsorshipMinistry of Education, Culture, Sports, Science, and Technology, Japan
dc.description.sponsorshipJapan Society for the Promotion of Science
dc.identifier.citationPLOS ONE, v.8, n.9, article ID e73615, 7p, 2013
dc.identifier.doi10.1371/journal.pone.0073615
dc.identifier.issn1932-6203
dc.identifier.urihttps://observatorio.fm.usp.br/handle/OPI/4058
dc.language.isoeng
dc.publisherPUBLIC LIBRARY SCIENCE
dc.relation.ispartofPlos One
dc.rightsopenAccess
dc.rights.holderCopyright PUBLIC LIBRARY SCIENCE
dc.subject.otherhepatocellular-carcinoma
dc.subject.otherinfection
dc.subject.othertherapy
dc.subject.othercountries
dc.subject.otherribavirin
dc.subject.othervariants
dc.subject.wosMultidisciplinary Sciences
dc.titlePrevalence of Hepatitis C Virus Subgenotypes 1a and 1b in Japanese Patients: Ultra-Deep Sequencing Analysis of HCV NS5B Genotype-Specific Region
dc.typearticle
dc.type.categoryoriginal article
dc.type.versionpublishedVersion
dspace.entity.typePublication
hcfmusp.affiliation.countryJapão
hcfmusp.affiliation.countryisojp
hcfmusp.author.externalWU, Shuang:Chiba Univ, Grad Sch Med, Dept Gastroenterol & Nephrol, Chiba, Japan
hcfmusp.author.externalKANDA, Tatsuo:Chiba Univ, Grad Sch Med, Dept Gastroenterol & Nephrol, Chiba, Japan
hcfmusp.author.externalNAKAMOTO, Shingo:Chiba Univ, Grad Sch Med, Dept Gastroenterol & Nephrol, Chiba, Japan; Chiba Univ, Grad Sch Med, Dept Mol Virol, Chiba, Japan
hcfmusp.author.externalJIANG, Xia:Chiba Univ, Grad Sch Med, Dept Gastroenterol & Nephrol, Chiba, Japan
hcfmusp.author.externalMIYAMURA, Tatsuo:Chiba Univ, Grad Sch Med, Dept Gastroenterol & Nephrol, Chiba, Japan
hcfmusp.author.externalNAKATANI, Sueli M.:Univ Sao Paulo, Sch Med, Dept Gastroenterol, Sao Paulo, Brazil
hcfmusp.author.externalTAKAHASHI-NAKAGUCHI, Azusa:Chiba Univ, Med Mycol Res Ctr, Chiba, Japan
hcfmusp.author.externalGONOI, Tohru:Chiba Univ, Med Mycol Res Ctr, Chiba, Japan
hcfmusp.author.externalYOKOSUKA, Osamu:Chiba Univ, Grad Sch Med, Dept Gastroenterol & Nephrol, Chiba, Japan
hcfmusp.citation.scopus31
hcfmusp.contributor.author-fmusphcSUZANE KIOKO ONO
hcfmusp.description.articlenumbere73615
hcfmusp.description.issue9
hcfmusp.description.volume8
hcfmusp.origemWOS
hcfmusp.origem.pubmed24069214
hcfmusp.origem.scopus2-s2.0-84884247234
hcfmusp.origem.wosWOS:000324547300018
hcfmusp.publisher.citySAN FRANCISCO
hcfmusp.publisher.countryUSA
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