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Article: Investigation of the pattern of hepatitis C virus sequence diversity in different geographical regions: Implications for virus classification

TitleInvestigation of the pattern of hepatitis C virus sequence diversity in different geographical regions: Implications for virus classification
Authors
Issue Date1995
PublisherSociety for General Microbiology. The Journal's web site is located at http://vir.sgmjournals.org
Citation
Journal Of General Virology, 1995, v. 76 n. 10, p. 2493-2507 How to Cite?
AbstractGenotypes of hepatitis C virus (HCV) present within 104 samples from HCV-infected individuals from Africa, the Middle East, the Indian subcontinent and South-East Asia were identified by sequence comparisons in the core and NS-5 regions. Relatively short sequences (such as the 222 bp fragment of NS-5) provided effective discrimination of types, subtypes and isolates, and produced equivalent relationships between genotypes as were found upon comparison of longer sequences of NS-5, of the core region, and by comparison of the limited number of complete genomic sequences currently available. Measurement of evolutionary distances in the core and NS-5 regions allowed 79 of the 104 samples to be identified as examples of known genotypes, while 17 of the remainder could be provisionally classified as new subtypes of types 1 (Nigeria), 2 (Gambia), 3 (India, Pakistan and Bangladesh) and 4 (Middle East) on the basis of sequence comparison in core and NS-5 (n = 9) or provisionally using core alone (n = 8). The remaining sequences from Thailand made up two groups showing no close similarity to any of the six major genotypes classified to date, although one corresponded to an as yet unclassified variant of HCV also found in Thailand. However, phylogenetic analysis of the core and NS-5 regions indicated a distant relationship between these sequences with variants found in Vietnam and with type 6a, and collectively they formed a diverse single phylogenetic group. The existence of great diversity within a single genotype was also found amongst type 3 sequences in the Indian subcontinent, amongst type 4 variants in Central Africa and the Middle East, and amongst type variants in Nigeria. These findings may provide clues for understanding the origins and mechanisms of transmission of HCV.
Persistent Identifierhttp://hdl.handle.net/10722/162069
ISSN
2015 Impact Factor: 3.192
2015 SCImago Journal Rankings: 1.741
ISI Accession Number ID

 

DC FieldValueLanguage
dc.contributor.authorMellor, Jen_US
dc.contributor.authorHolmes, ECen_US
dc.contributor.authorJarvis, LMen_US
dc.contributor.authorYap, PLen_US
dc.contributor.authorSimmonds, Pen_US
dc.contributor.authorConradie, JDen_US
dc.contributor.authorNeill, AGNen_US
dc.contributor.authorDusheiko, GMen_US
dc.contributor.authorKew, MCen_US
dc.contributor.authorKoshy, Aen_US
dc.contributor.authorLin, CKen_US
dc.contributor.authorLai, CLen_US
dc.contributor.authorMurrayLyon, Ien_US
dc.contributor.authorGunaid, AAen_US
dc.contributor.authorElGuneid, AMen_US
dc.contributor.authorMutimer, Den_US
dc.contributor.authorAhamed, Men_US
dc.contributor.authorNuchprayoon, Cen_US
dc.contributor.authorTamprasert, Sen_US
dc.date.accessioned2012-09-05T05:17:03Z-
dc.date.available2012-09-05T05:17:03Z-
dc.date.issued1995en_US
dc.identifier.citationJournal Of General Virology, 1995, v. 76 n. 10, p. 2493-2507en_US
dc.identifier.issn0022-1317en_US
dc.identifier.urihttp://hdl.handle.net/10722/162069-
dc.description.abstractGenotypes of hepatitis C virus (HCV) present within 104 samples from HCV-infected individuals from Africa, the Middle East, the Indian subcontinent and South-East Asia were identified by sequence comparisons in the core and NS-5 regions. Relatively short sequences (such as the 222 bp fragment of NS-5) provided effective discrimination of types, subtypes and isolates, and produced equivalent relationships between genotypes as were found upon comparison of longer sequences of NS-5, of the core region, and by comparison of the limited number of complete genomic sequences currently available. Measurement of evolutionary distances in the core and NS-5 regions allowed 79 of the 104 samples to be identified as examples of known genotypes, while 17 of the remainder could be provisionally classified as new subtypes of types 1 (Nigeria), 2 (Gambia), 3 (India, Pakistan and Bangladesh) and 4 (Middle East) on the basis of sequence comparison in core and NS-5 (n = 9) or provisionally using core alone (n = 8). The remaining sequences from Thailand made up two groups showing no close similarity to any of the six major genotypes classified to date, although one corresponded to an as yet unclassified variant of HCV also found in Thailand. However, phylogenetic analysis of the core and NS-5 regions indicated a distant relationship between these sequences with variants found in Vietnam and with type 6a, and collectively they formed a diverse single phylogenetic group. The existence of great diversity within a single genotype was also found amongst type 3 sequences in the Indian subcontinent, amongst type 4 variants in Central Africa and the Middle East, and amongst type variants in Nigeria. These findings may provide clues for understanding the origins and mechanisms of transmission of HCV.en_US
dc.languageengen_US
dc.publisherSociety for General Microbiology. The Journal's web site is located at http://vir.sgmjournals.orgen_US
dc.relation.ispartofJournal of General Virologyen_US
dc.subject.meshAfricaen_US
dc.subject.meshAsiaen_US
dc.subject.meshBase Sequence - Geneticsen_US
dc.subject.meshEuropeen_US
dc.subject.meshGenes, Viral - Geneticsen_US
dc.subject.meshGenetic Variation - Geneticsen_US
dc.subject.meshGenome, Viralen_US
dc.subject.meshGenotypeen_US
dc.subject.meshHepacivirus - Classification - Geneticsen_US
dc.subject.meshHumansen_US
dc.subject.meshMolecular Sequence Dataen_US
dc.subject.meshPhylogenyen_US
dc.subject.meshRna, Viral - Blood - Geneticsen_US
dc.subject.meshSequence Analysis, Dnaen_US
dc.subject.meshTerminology As Topicen_US
dc.subject.meshViral Core Proteins - Geneticsen_US
dc.subject.meshViral Nonstructural Proteins - Geneticsen_US
dc.titleInvestigation of the pattern of hepatitis C virus sequence diversity in different geographical regions: Implications for virus classificationen_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.doi10.1099/0022-1317-76-10-2493-
dc.identifier.pmid7595353-
dc.identifier.scopuseid_2-s2.0-0028871988en_US
dc.identifier.volume76en_US
dc.identifier.issue10en_US
dc.identifier.spage2493en_US
dc.identifier.epage2507en_US
dc.identifier.isiWOS:A1995RY54500009-
dc.publisher.placeUnited Kingdomen_US
dc.identifier.scopusauthoridMellor, J=7103106842en_US
dc.identifier.scopusauthoridHolmes, EC=35433598300en_US
dc.identifier.scopusauthoridJarvis, LM=7101946900en_US
dc.identifier.scopusauthoridYap, PL=16938057500en_US
dc.identifier.scopusauthoridSimmonds, P=7102203090en_US
dc.identifier.scopusauthoridConradie, JD=7004072675en_US
dc.identifier.scopusauthoridNeill, AGN=7005311730en_US
dc.identifier.scopusauthoridDusheiko, GM=7006885162en_US
dc.identifier.scopusauthoridKew, MC=7102927763en_US
dc.identifier.scopusauthoridKoshy, A=7005478544en_US
dc.identifier.scopusauthoridLin, CK=15034856400en_US
dc.identifier.scopusauthoridLai, CL=7403086396en_US
dc.identifier.scopusauthoridMurrayLyon, I=35460136700en_US
dc.identifier.scopusauthoridGunaid, AA=6603878455en_US
dc.identifier.scopusauthoridElGuneid, AM=6506985041en_US
dc.identifier.scopusauthoridMutimer, D=7005974457en_US
dc.identifier.scopusauthoridAhamed, M=6603676247en_US
dc.identifier.scopusauthoridNuchprayoon, C=6603913129en_US
dc.identifier.scopusauthoridTamprasert, S=6504195908en_US

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