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Article: Evaluation of in-house and commercial genotyping assays for molecular typing of hepatitis C virus in Hong Kong

TitleEvaluation of in-house and commercial genotyping assays for molecular typing of hepatitis C virus in Hong Kong
Authors
KeywordsGenotype
Hepatitis C
Hybridization, genetic
Polymerase chain reaction
Issue Date2010
PublisherStep Communications Ltd. The Journal's web site is located at http://www.ibms.org/index.cfm?method=publications.british_journal
Citation
British Journal Of Biomedical Science, 2010, v. 67 n. 2, p. 82-85 How to Cite?
AbstractThis study aims to evaluate genotyping assays for hepatitis C virus (HCV). An in-house nucleic acid sequencing method is performed in parallel with the Roche Linear Array HCV genotyping test on 73 HCV-positive (66 clinical samples and seven proficiency testing quality control samples) and 12 HCV-negative samples (11 clinical samples and one proficiency testing sample). The performance of the in-house method was comparable with that of the Roche assay (concordance rate: 89.4%). Discordant results included four mixed infections missed by the in-house method, two false-negatives with the Roche assay, and three discrepant results. The in-house method exhibited a higher resolution (subtype vs. genotype level) at a lower running cost (25% of the commercial assay). The in-house method was also used to genotype 375 HCV clinical isolates to determine the genotypic distribution of HCV in Hong Kong between 2005 and 2008. A total of 441 (52.8%) clinical isolates proved to be genotype 1, which shows a poorer response to interferon therapy. Genotype 6 was the next most common (32.0%). Prevalence of genotypes 2 and 3 was 7.7% and 6.6%, respectively, and prevalence of genotypes 4 and 5 was 0.9% and 0%, respectively. Although the in-house nucleic acid sequencing method failed to detect a few cases of mixed HCV infection, its high resolution and low running cost make it suitable for surveillance and outbreak investigation.
Persistent Identifierhttp://hdl.handle.net/10722/125111
ISSN
2015 Impact Factor: 1.245
2015 SCImago Journal Rankings: 0.352
ISI Accession Number ID
References

 

DC FieldValueLanguage
dc.contributor.authorLam, THJen_HK
dc.contributor.authorCheng, PSen_HK
dc.contributor.authorLai, STen_HK
dc.contributor.authorTsang, TYen_HK
dc.contributor.authorCheng, VCCen_HK
dc.contributor.authorHo, SLen_HK
dc.contributor.authorYam, WCen_HK
dc.date.accessioned2010-10-31T11:12:00Z-
dc.date.available2010-10-31T11:12:00Z-
dc.date.issued2010en_HK
dc.identifier.citationBritish Journal Of Biomedical Science, 2010, v. 67 n. 2, p. 82-85en_HK
dc.identifier.issn0967-4845en_HK
dc.identifier.urihttp://hdl.handle.net/10722/125111-
dc.description.abstractThis study aims to evaluate genotyping assays for hepatitis C virus (HCV). An in-house nucleic acid sequencing method is performed in parallel with the Roche Linear Array HCV genotyping test on 73 HCV-positive (66 clinical samples and seven proficiency testing quality control samples) and 12 HCV-negative samples (11 clinical samples and one proficiency testing sample). The performance of the in-house method was comparable with that of the Roche assay (concordance rate: 89.4%). Discordant results included four mixed infections missed by the in-house method, two false-negatives with the Roche assay, and three discrepant results. The in-house method exhibited a higher resolution (subtype vs. genotype level) at a lower running cost (25% of the commercial assay). The in-house method was also used to genotype 375 HCV clinical isolates to determine the genotypic distribution of HCV in Hong Kong between 2005 and 2008. A total of 441 (52.8%) clinical isolates proved to be genotype 1, which shows a poorer response to interferon therapy. Genotype 6 was the next most common (32.0%). Prevalence of genotypes 2 and 3 was 7.7% and 6.6%, respectively, and prevalence of genotypes 4 and 5 was 0.9% and 0%, respectively. Although the in-house nucleic acid sequencing method failed to detect a few cases of mixed HCV infection, its high resolution and low running cost make it suitable for surveillance and outbreak investigation.en_HK
dc.languageengen_HK
dc.publisherStep Communications Ltd. The Journal's web site is located at http://www.ibms.org/index.cfm?method=publications.british_journalen_HK
dc.relation.ispartofBritish Journal of Biomedical Scienceen_HK
dc.subjectGenotypeen_HK
dc.subjectHepatitis Cen_HK
dc.subjectHybridization, geneticen_HK
dc.subjectPolymerase chain reactionen_HK
dc.subject.meshHepacivirus - classification - genetics - isolation and purification-
dc.subject.meshHepatitis C - genetics-
dc.subject.meshPolymerase Chain Reaction - methods-
dc.subject.meshPredictive Value of Tests-
dc.subject.meshSequence Analysis, DNA - methods-
dc.titleEvaluation of in-house and commercial genotyping assays for molecular typing of hepatitis C virus in Hong Kongen_HK
dc.typeArticleen_HK
dc.identifier.emailYam, WC:wcyam@hkucc.hku.hken_HK
dc.identifier.authorityYam, WC=rp00313en_HK
dc.description.naturelink_to_subscribed_fulltext-
dc.identifier.pmid20669764-
dc.identifier.scopuseid_2-s2.0-77954304391en_HK
dc.identifier.hkuros179782en_HK
dc.relation.referenceshttp://www.scopus.com/mlt/select.url?eid=2-s2.0-77954304391&selection=ref&src=s&origin=recordpageen_HK
dc.identifier.volume67en_HK
dc.identifier.issue2en_HK
dc.identifier.spage82en_HK
dc.identifier.epage85en_HK
dc.identifier.isiWOS:000278893000005-
dc.publisher.placeUnited Kingdomen_HK
dc.identifier.scopusauthoridLam, THJ=54792600300en_HK
dc.identifier.scopusauthoridCheng, PS=7401619029en_HK
dc.identifier.scopusauthoridLai, ST=7402937038en_HK
dc.identifier.scopusauthoridTsang, TY=7101832362en_HK
dc.identifier.scopusauthoridCheng, VCC=23670479400en_HK
dc.identifier.scopusauthoridHo, SL=55041381700en_HK
dc.identifier.scopusauthoridYam, WC=7004281720en_HK

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