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Article: Worldwide genomic diversity of the human papillomaviruses-53, 56, and 66, a group of high-risk HPVs unrelated to HPV-16 and HPV-18

TitleWorldwide genomic diversity of the human papillomaviruses-53, 56, and 66, a group of high-risk HPVs unrelated to HPV-16 and HPV-18
Authors
KeywordsGenomic diversity
HPV-53
HPV-56
HPV-66
Issue Date2005
PublisherAcademic Press. The Journal's web site is located at http://www.elsevier.com/locate/yviro
Citation
Virology, 2005, v. 340 n. 1, p. 95-104 How to Cite?
AbstractAmong more than 200 human papillomavirus (HPV) types presumed to exist, 18 "high-risk" HPV types are frequently found in anogenital cancer. The best studied types are HPV-16 and 18, which are only distantly related to one another and form two separate phylogenetic branches, each including six closely related types. HPV-30, 53, 56, and 66 form a third phylogenetic branch unrelated to HPV-16 and 18. Worldwide comparison of HPV-16 and 18 isolates revealed a distribution of variant genomes that correlated with the geographic origin and the ethnicity of the infected cohort and led to the concept of unique African, European, Asian, and Native American HPV-16 and 18 variants. Here, we address the question whether similar phylogenies are found for HPV-53, 56, and 66 by determining the sequence of the long control regions (LCR) of these HPVs in samples from Europe, Asia, and Africa, and from immigrant societies in North and South America. Phylogenetic trees calculated from point mutations and a few insertions/deletions affecting 2-4.2% of the nucleotide sequences were distinct for each of the three HPVs and divergent from HPV-16 and 18. In contrast to the "star-phylogenies" formed by HPV-16 and 18 variants, 44 HPV-53 isolates represented nine variants, which formed two deep dichotomic branches reminiscent of the beginning split into two new taxa, as recently observed for subtypes of HPV-44 and 68. A total of 66 HPV-56 isolates represented 17 variants, which formed three branches preferentially containing European, Asian, and African variants. Variants of a fourth branch, deeply separated from the other three, were characterized by a 25 bp insertion and created a dichotomy rather than star-like phylogeny. As it contained isolates from cohorts in all continents, it may have evolved before the spread of humans into all continents. 18 of 31 HPV-66 isolates represented the prototype clone, which was found in all parts of the world, while the remaining 13 clones formed 11 branches without any geographic association. Our findings confirm the notion of a quantitatively limited genomic diversity of each HPV type with some correlation to the geographic origin of the sample. In addition, we observed in some variants of these three HPV types mutations that affect the amino acid sequence of the E6 oncoproteins and the L1 capsid protein, supporting the possibility of immunogenic and oncogenic diversity between variants of any HPV type. © 2005 Elsevier Inc. All rights reserved.
Persistent Identifierhttp://hdl.handle.net/10722/148423
ISSN
2015 Impact Factor: 3.2
2015 SCImago Journal Rankings: 1.805
ISI Accession Number ID
References

 

DC FieldValueLanguage
dc.contributor.authorPrado, JCen_HK
dc.contributor.authorCallejaMacias, IEen_HK
dc.contributor.authorBernard, HUen_HK
dc.contributor.authorKalantari, Men_HK
dc.contributor.authorMacay, SAen_HK
dc.contributor.authorAllan, Ben_HK
dc.contributor.authorWilliamson, ALen_HK
dc.contributor.authorChung, LPen_HK
dc.contributor.authorCollins, RJen_HK
dc.contributor.authorZuna, REen_HK
dc.contributor.authorDunn, STen_HK
dc.contributor.authorOrtizLopez, Ren_HK
dc.contributor.authorBarreraSaldaña, HAen_HK
dc.contributor.authorCubie, HAen_HK
dc.contributor.authorCuschieri, Ken_HK
dc.contributor.authorVon KnebelDoeberitz, Men_HK
dc.contributor.authorSanchez, GIen_HK
dc.contributor.authorBosch, FXen_HK
dc.contributor.authorVilla, LLen_HK
dc.date.accessioned2012-05-29T06:12:54Z-
dc.date.available2012-05-29T06:12:54Z-
dc.date.issued2005en_HK
dc.identifier.citationVirology, 2005, v. 340 n. 1, p. 95-104en_HK
dc.identifier.issn0042-6822en_HK
dc.identifier.urihttp://hdl.handle.net/10722/148423-
dc.description.abstractAmong more than 200 human papillomavirus (HPV) types presumed to exist, 18 "high-risk" HPV types are frequently found in anogenital cancer. The best studied types are HPV-16 and 18, which are only distantly related to one another and form two separate phylogenetic branches, each including six closely related types. HPV-30, 53, 56, and 66 form a third phylogenetic branch unrelated to HPV-16 and 18. Worldwide comparison of HPV-16 and 18 isolates revealed a distribution of variant genomes that correlated with the geographic origin and the ethnicity of the infected cohort and led to the concept of unique African, European, Asian, and Native American HPV-16 and 18 variants. Here, we address the question whether similar phylogenies are found for HPV-53, 56, and 66 by determining the sequence of the long control regions (LCR) of these HPVs in samples from Europe, Asia, and Africa, and from immigrant societies in North and South America. Phylogenetic trees calculated from point mutations and a few insertions/deletions affecting 2-4.2% of the nucleotide sequences were distinct for each of the three HPVs and divergent from HPV-16 and 18. In contrast to the "star-phylogenies" formed by HPV-16 and 18 variants, 44 HPV-53 isolates represented nine variants, which formed two deep dichotomic branches reminiscent of the beginning split into two new taxa, as recently observed for subtypes of HPV-44 and 68. A total of 66 HPV-56 isolates represented 17 variants, which formed three branches preferentially containing European, Asian, and African variants. Variants of a fourth branch, deeply separated from the other three, were characterized by a 25 bp insertion and created a dichotomy rather than star-like phylogeny. As it contained isolates from cohorts in all continents, it may have evolved before the spread of humans into all continents. 18 of 31 HPV-66 isolates represented the prototype clone, which was found in all parts of the world, while the remaining 13 clones formed 11 branches without any geographic association. Our findings confirm the notion of a quantitatively limited genomic diversity of each HPV type with some correlation to the geographic origin of the sample. In addition, we observed in some variants of these three HPV types mutations that affect the amino acid sequence of the E6 oncoproteins and the L1 capsid protein, supporting the possibility of immunogenic and oncogenic diversity between variants of any HPV type. © 2005 Elsevier Inc. All rights reserved.en_HK
dc.languageengen_US
dc.publisherAcademic Press. The Journal's web site is located at http://www.elsevier.com/locate/yviroen_HK
dc.relation.ispartofVirologyen_HK
dc.subjectGenomic diversityen_HK
dc.subjectHPV-53en_HK
dc.subjectHPV-56en_HK
dc.subjectHPV-66en_HK
dc.subject.meshAleutian Mink Disease Virusen_US
dc.subject.meshBase Sequenceen_US
dc.subject.meshDna Primersen_US
dc.subject.meshGene Amplificationen_US
dc.subject.meshGenetic Variationen_US
dc.subject.meshGenome, Viralen_US
dc.subject.meshHumansen_US
dc.subject.meshMolecular Sequence Dataen_US
dc.subject.meshPapillomaviridae - Classification - Genetics - Pathogenicityen_US
dc.subject.meshPhylogenyen_US
dc.subject.meshPolymerase Chain Reactionen_US
dc.titleWorldwide genomic diversity of the human papillomaviruses-53, 56, and 66, a group of high-risk HPVs unrelated to HPV-16 and HPV-18en_HK
dc.typeArticleen_HK
dc.identifier.emailChung, LP: lpchung@hkucc.hku.hken_HK
dc.identifier.emailCollins, RJ: rcollins@hkucc.hku.hken_HK
dc.identifier.authorityChung, LP=rp00249en_HK
dc.identifier.authorityCollins, RJ=rp00251en_HK
dc.description.naturelink_to_subscribed_fulltexten_US
dc.identifier.doi10.1016/j.virol.2005.06.024en_HK
dc.identifier.pmid16039686-
dc.identifier.scopuseid_2-s2.0-23944465978en_HK
dc.relation.referenceshttp://www.scopus.com/mlt/select.url?eid=2-s2.0-23944465978&selection=ref&src=s&origin=recordpageen_HK
dc.identifier.volume340en_HK
dc.identifier.issue1en_HK
dc.identifier.spage95en_HK
dc.identifier.epage104en_HK
dc.identifier.isiWOS:000231631400009-
dc.publisher.placeUnited Statesen_HK
dc.identifier.scopusauthoridPrado, JC=8886982700en_HK
dc.identifier.scopusauthoridCallejaMacias, IE=6507782063en_HK
dc.identifier.scopusauthoridBernard, HU=7103326376en_HK
dc.identifier.scopusauthoridKalantari, M=6701552986en_HK
dc.identifier.scopusauthoridMacay, SA=8696911500en_HK
dc.identifier.scopusauthoridAllan, B=7102506110en_HK
dc.identifier.scopusauthoridWilliamson, AL=8363457500en_HK
dc.identifier.scopusauthoridChung, LP=24315879100en_HK
dc.identifier.scopusauthoridCollins, RJ=7403350455en_HK
dc.identifier.scopusauthoridZuna, RE=6701422748en_HK
dc.identifier.scopusauthoridDunn, ST=7201627243en_HK
dc.identifier.scopusauthoridOrtizLopez, R=6603385591en_HK
dc.identifier.scopusauthoridBarreraSaldaña, HA=7005781887en_HK
dc.identifier.scopusauthoridCubie, HA=7003598660en_HK
dc.identifier.scopusauthoridCuschieri, K=6506948763en_HK
dc.identifier.scopusauthoridVon KnebelDoeberitz, M=35477888400en_HK
dc.identifier.scopusauthoridSanchez, GI=7202034893en_HK
dc.identifier.scopusauthoridBosch, FX=7201833375en_HK
dc.identifier.scopusauthoridVilla, LL=7102824355en_HK

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