Multi-locus sequence typing of African swine fever viruses from endemic regions of Kenya and Eastern Uganda (2011–2013) reveals rapid B602L central variable region evolution

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cg.authorship.typesCGIAR and developing country instituteen
cg.authorship.typesCGIAR and advanced research instituteen
cg.contributor.affiliationInternational Livestock Research Instituteen
cg.contributor.affiliationUniversity of Pretoriaen
cg.contributor.affiliationMinistry of Agriculture, Livestock, and Fisheries, Kenyaen
cg.contributor.affiliationUniversity of Edinburghen
cg.contributor.crpLivestocken
cg.contributor.donorDepartment of Foreign Affairs and Trade, Australiaen
cg.coverage.countryKenyaen
cg.coverage.countryUgandaen
cg.coverage.iso3166-alpha2KEen
cg.coverage.iso3166-alpha2UGen
cg.coverage.regionAfricaen
cg.coverage.regionEastern Africaen
cg.creator.identifierAbworo: 0000-0003-0689-823Xen
cg.creator.identifierMark Bronsvoort: 0000-0002-3271-8485en
cg.creator.identifierRichard Bishop: 0000-0002-3720-9970en
cg.howPublishedFormally Publisheden
cg.identifier.doihttps://doi.org/10.1007/s11262-017-1521-4en
cg.isijournalISI Journalen
cg.issn1572-994Xen
cg.issue1en
cg.journalVirus Genesen
cg.reviewStatusPeer Reviewen
cg.subject.ilriANIMAL DISEASESen
cg.subject.ilriASFen
cg.subject.ilriDISEASE CONTROLen
cg.subject.ilriEMERGING DISEASESen
cg.subject.ilriEPIDEMIOLOGYen
cg.subject.ilriLIVESTOCKen
cg.volume54en
dc.contributor.authorOnzere, Cynthia K.en
dc.contributor.authorBastos, A.D.S.en
dc.contributor.authorOkoth, Edward A.en
dc.contributor.authorLichoti, J.K.en
dc.contributor.authorNyambego, Edwina B.en
dc.contributor.authorOwido, M.G.en
dc.contributor.authorNdambuki, Gideon M.en
dc.contributor.authorBronsvoort, B.M. de C.en
dc.contributor.authorBishop, Richard P.en
dc.date.accessioned2018-05-01T06:53:37Zen
dc.date.available2018-05-01T06:53:37Zen
dc.identifier.urihttps://hdl.handle.net/10568/92428
dc.titleMulti-locus sequence typing of African swine fever viruses from endemic regions of Kenya and Eastern Uganda (2011–2013) reveals rapid B602L central variable region evolutionen
dcterms.abstractThe central variable region (CVR) within the B602L gene of the African swine fever virus (ASFV) is highly polymorphic within the 23 ASFV genotypes defined by sequencing of the C-terminal end of the p72 locus. Sequencing the p54 gene further discriminates ASFV genotypes that are conserved at the p72 locus. Variation in the thymidine kinase locus is a novel additional tool for ASFV genotyping whose application for this purpose is described for the first time herein. We evaluated genetic variation at these four polymorphic loci in 39 ASFV isolates obtained from outbreaks in Kenya and a region of Eastern Uganda between 2011 and 2013. Analysis of the p72 and p54 loci revealed high genetic conservation among these isolates; all clustered within p72 genotype IX and were similar to isolates associated with earlier outbreaks in East Africa. The thymidine kinase gene of the Kenyan isolates in this study were distinct relative to Southern African isolates and synonymous substitutions were observed among viruses from central Kenya. Analysis of the CVR within the B602L gene revealed two previously unknown polymorphisms that were restricted to Western Kenya and Eastern Uganda. A novel variant was revealed within CVR subgroup XXIV and a novel CVR subgroup XXIVa that contains tetrameric repeat F which has previously only been associated with p72 genotype I, was also identified for the first time in East Africa. Phylogeographic analysis of isolates based on CVR polymorphisms revealed rapid evolution and dissemination of variants present within ASFV genotype IX in East Africa.en
dcterms.accessRightsOpen Accessen
dcterms.audienceScientistsen
dcterms.available2017-11-15en
dcterms.bibliographicCitationOnzere, C.K., Bastos, A.D., Okoth, E.A., Lichoti, J.K., Bochere, E.N., Owido, M.G., Ndambuki, G. and Bronsvoort, M. and Bishop, R.P. 2018. Multi-locus sequence typing of African swine fever viruses from endemic regions of Kenya and Eastern Uganda (2011–2013) reveals rapid B602L central variable region evolution. Virus Genes 54(1):111–123.en
dcterms.extentp. 111-123en
dcterms.issued2018-02en
dcterms.languageenen
dcterms.licenseCC-BY-4.0en
dcterms.publisherSpringeren
dcterms.subjectanimal diseasesen
dcterms.subjectdisease controlen
dcterms.subjectepidemiologyen
dcterms.subjectlivestocken
dcterms.subjectafrican swine feveren
dcterms.typeJournal Articleen

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