Publication:
Simplified hepatitis C virus genotyping by heteroduplex mobility analysis

dc.contributor.author White, Peter en_US
dc.contributor.author Zhai, Xinyan en_US
dc.contributor.author Carter, Ian en_US
dc.contributor.author Zhao, Yong en_US
dc.contributor.author Rawlinson, William en_US
dc.date.accessioned 2021-11-25T12:49:31Z
dc.date.available 2021-11-25T12:49:31Z
dc.date.issued 2000 en_US
dc.description.abstract Heteroduplex mobility analysis (HMA) was used to genotype hepatitis C viruses (HCV) with PCR fragments derived from the 5' untranslated region (5'-UTR) or the NS5b region. HCV 5'-UTR fragments were amplified from 296 serum samples by use of a combined reverse transcription-PCR assay, and the genotypes of isolates were determined by sequencing. HCV genotype distributions in Australia were 39% for genotype 1a, 15% for 1b, 3% for 1a/b, <1% for 2a/c, 5% for 2b, 34% for 3a, <1% for 3b, and 1% for 4, and 1% of patients were infected with more than one genotype. Pairwise HMA of subtypes 1a, 1b, 2a/c, 2b, 3a, 3b, 4a, and 6a demonstrated that five distinct heteroduplex patterns were formed between the eight subtypes. A reference panel that contained a representative of each pattern (1a, 2b, 3a, 4a, and 6a) was used for genotyping. The pattern of heteroduplexes formed when a test isolate was mixed with the five reference isolates was correlated with the genotype, as determined by sequencing. Genotypes determined by HMA correlated exactly with sequencing results within the groups 1, 2, 3a, 3b/4, and 6. HMA was also used to simplify the identification of mixed infection with two HCV genotypes. In further studies, with amplicons from the NS5b region, HMA classified isolates into their respective subtypes, and the heteroduplex mobility ratio correlated closely with nucleotide sequence variation at the isolate, subtype, and genotype levels. HMA provides an adaptable, inexpensive, and rapid method of genotyping HCV that requires fewer resources than DNA sequencing. en_US
dc.identifier.issn 0095-1137 en_US
dc.identifier.uri http://hdl.handle.net/1959.4/38187
dc.language English
dc.language.iso EN en_US
dc.rights CC BY-NC-ND 3.0 en_US
dc.rights.uri https://creativecommons.org/licenses/by-nc-nd/3.0/au/ en_US
dc.source Legacy MARC en_US
dc.title Simplified hepatitis C virus genotyping by heteroduplex mobility analysis en_US
dc.type Journal Article en
dcterms.accessRights metadata only access
dspace.entity.type Publication en_US
unsw.accessRights.uri http://purl.org/coar/access_right/c_14cb
unsw.description.notePublic The Journal of Clinical Microbiology is published by the American Society for Microbiology, http://www.asm.org/ en_US
unsw.description.publisherStatement Copyright 2000 en_US
unsw.relation.faculty Science
unsw.relation.ispartofissue 2 en_US
unsw.relation.ispartofjournal Journal of Clinical Microbiology en_US
unsw.relation.ispartofpagefrompageto 477-482 en_US
unsw.relation.ispartofvolume 38 en_US
unsw.relation.originalPublicationAffiliation White, Peter, Biotechnology & Biomolecular Sciences, Faculty of Science, UNSW en_US
unsw.relation.originalPublicationAffiliation Zhai, Xinyan en_US
unsw.relation.originalPublicationAffiliation Carter, Ian en_US
unsw.relation.originalPublicationAffiliation Zhao, Yong, Materials Science & Engineering, Faculty of Science, UNSW en_US
unsw.relation.originalPublicationAffiliation Rawlinson, William, Biotechnology & Biomolecular Sciences, Faculty of Science, UNSW en_US
unsw.relation.school School of Biotechnology & Biomolecular Sciences *
unsw.relation.school School of Materials Science & Engineering *
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