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Article: Survey of type 6 group variants of hepatitis C virus in Southeast Asia by using a core-based genotyping assay

TitleSurvey of type 6 group variants of hepatitis C virus in Southeast Asia by using a core-based genotyping assay
Authors
Issue Date1996
Citation
Journal Of Clinical Microbiology, 1996, v. 34 n. 2, p. 417-423 How to Cite?
AbstractPrevious surveys of the prevalences of genotypes of hepatitis C virus (HCV) in different populations have often used genotyping assays based upon analysis of amplified sequences from the 5' noncoding region (5'NCR), such as restriction fragment length polymorphism (RFLP) or hybridization with type- specific probes (e.g., InnoLipa). Although highly conserved, this region contains several type-specific nucleotide polymorphisms that allow major genotypes 1 to 6 to be reliably identified. Recently, however, novel HCV variants found in Vietnam and Thailand that are distantly related to the type 6a genotype (type 6 group) by phylogenetic analysis of coding regions of the genome often have sequences in the 5'NCR that are similar or identical to those of type 1 and could therefore not be identified by any assay of sequences in this region. We developed a new genotyping assay based upon RFLP of sequences amplified from the more variable core region to investigate their distribution elsewhere in southeast (SE) Asia. Among 108 samples from blood donors in seven areas that were identified as type 1 by RFLP in the 5'NCR, type 6 group variants were found in Thailand (7 from 28 samples originally identified as type 1) and Burma (Myanmar) (1 of 3) but were not found in Hong Kong (n = 43), Macau (n = 8), Taiwan (n = 6), Singapore (n = 2), or Malaysia (n = 18). Although this small survey suggests a relatively limited distribution for type 6 group variants in SE Asia, larger studies will be required to explore their distribution in other geographical regions and the extent to which their presence would limit the practical usefulness of 5'NCR-based genotyping assays for clinical or epidemiological purposes.
Persistent Identifierhttp://hdl.handle.net/10722/163519
ISSN
2015 Impact Factor: 3.631
2015 SCImago Journal Rankings: 2.151
ISI Accession Number ID
References

 

DC FieldValueLanguage
dc.contributor.authorMellor, Jen_US
dc.contributor.authorWalsh, EAen_US
dc.contributor.authorPrescott, LEen_US
dc.contributor.authorJarvis, LMen_US
dc.contributor.authorDavidson, Fen_US
dc.contributor.authorYap, PLen_US
dc.contributor.authorSimmonds, Pen_US
dc.contributor.authorNowicki, MJen_US
dc.contributor.authorMosley, JWen_US
dc.contributor.authorLin, CKen_US
dc.contributor.authorLai, CLen_US
dc.contributor.authorDe Olim, Gen_US
dc.contributor.authorMartins, IAen_US
dc.contributor.authorDuraisamy, Gen_US
dc.contributor.authorOng, YWen_US
dc.contributor.authorTeo, Den_US
dc.contributor.authorLin, Men_US
dc.contributor.authorNuchprayoon, Cen_US
dc.contributor.authorTanprasert, Sen_US
dc.date.accessioned2012-09-05T05:33:02Z-
dc.date.available2012-09-05T05:33:02Z-
dc.date.issued1996en_US
dc.identifier.citationJournal Of Clinical Microbiology, 1996, v. 34 n. 2, p. 417-423en_US
dc.identifier.issn0095-1137en_US
dc.identifier.urihttp://hdl.handle.net/10722/163519-
dc.description.abstractPrevious surveys of the prevalences of genotypes of hepatitis C virus (HCV) in different populations have often used genotyping assays based upon analysis of amplified sequences from the 5' noncoding region (5'NCR), such as restriction fragment length polymorphism (RFLP) or hybridization with type- specific probes (e.g., InnoLipa). Although highly conserved, this region contains several type-specific nucleotide polymorphisms that allow major genotypes 1 to 6 to be reliably identified. Recently, however, novel HCV variants found in Vietnam and Thailand that are distantly related to the type 6a genotype (type 6 group) by phylogenetic analysis of coding regions of the genome often have sequences in the 5'NCR that are similar or identical to those of type 1 and could therefore not be identified by any assay of sequences in this region. We developed a new genotyping assay based upon RFLP of sequences amplified from the more variable core region to investigate their distribution elsewhere in southeast (SE) Asia. Among 108 samples from blood donors in seven areas that were identified as type 1 by RFLP in the 5'NCR, type 6 group variants were found in Thailand (7 from 28 samples originally identified as type 1) and Burma (Myanmar) (1 of 3) but were not found in Hong Kong (n = 43), Macau (n = 8), Taiwan (n = 6), Singapore (n = 2), or Malaysia (n = 18). Although this small survey suggests a relatively limited distribution for type 6 group variants in SE Asia, larger studies will be required to explore their distribution in other geographical regions and the extent to which their presence would limit the practical usefulness of 5'NCR-based genotyping assays for clinical or epidemiological purposes.en_US
dc.languageengen_US
dc.relation.ispartofJournal of Clinical Microbiologyen_US
dc.subject.meshAsia, Southeastern - Epidemiologyen_US
dc.subject.meshBase Sequenceen_US
dc.subject.meshDna, Viral - Geneticsen_US
dc.subject.meshData Collectionen_US
dc.subject.meshGenetic Techniquesen_US
dc.subject.meshGenetic Variationen_US
dc.subject.meshGenotypeen_US
dc.subject.meshHepacivirus - Classification - Genetics - Isolation & Purificationen_US
dc.subject.meshHepatitis C - Epidemiology - Virologyen_US
dc.subject.meshHumansen_US
dc.subject.meshMolecular Epidemiologyen_US
dc.subject.meshMolecular Sequence Dataen_US
dc.subject.meshPhylogenyen_US
dc.subject.meshPolymorphism, Restriction Fragment Lengthen_US
dc.subject.meshSequence Homology, Nucleic Aciden_US
dc.titleSurvey of type 6 group variants of hepatitis C virus in Southeast Asia by using a core-based genotyping assayen_US
dc.typeArticleen_US
dc.identifier.emailLai, CL:hrmelcl@hku.hken_US
dc.identifier.authorityLai, CL=rp00314en_US
dc.description.naturelink_to_subscribed_fulltexten_US
dc.identifier.pmid8789027-
dc.identifier.scopuseid_2-s2.0-9044233638en_US
dc.relation.referenceshttp://www.scopus.com/mlt/select.url?eid=2-s2.0-9044233638&selection=ref&src=s&origin=recordpageen_US
dc.identifier.volume34en_US
dc.identifier.issue2en_US
dc.identifier.spage417en_US
dc.identifier.epage423en_US
dc.identifier.isiWOS:A1996TQ53800035-
dc.publisher.placeUnited Statesen_US
dc.identifier.scopusauthoridMellor, J=7103106842en_US
dc.identifier.scopusauthoridWalsh, EA=16743121700en_US
dc.identifier.scopusauthoridPrescott, LE=15071124500en_US
dc.identifier.scopusauthoridJarvis, LM=7101946900en_US
dc.identifier.scopusauthoridDavidson, F=7101716792en_US
dc.identifier.scopusauthoridYap, PL=16938057500en_US
dc.identifier.scopusauthoridSimmonds, P=7102203090en_US
dc.identifier.scopusauthoridNowicki, MJ=7102378348en_US
dc.identifier.scopusauthoridMosley, JW=24565827300en_US
dc.identifier.scopusauthoridLin, CK=15034856400en_US
dc.identifier.scopusauthoridLai, CL=7403086396en_US
dc.identifier.scopusauthoridDe Olim, G=6506476865en_US
dc.identifier.scopusauthoridMartins, IA=7103152763en_US
dc.identifier.scopusauthoridDuraisamy, G=6601962340en_US
dc.identifier.scopusauthoridOng, YW=36891945700en_US
dc.identifier.scopusauthoridTeo, D=6601976297en_US
dc.identifier.scopusauthoridLin, M=25822567800en_US
dc.identifier.scopusauthoridNuchprayoon, C=6603913129en_US
dc.identifier.scopusauthoridTanprasert, S=6603287725en_US

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