Genome characterization of Rift Valley fever virus isolated from cattle, goats and sheep during interepidemic periods in Kenya

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cg.authorship.typesCGIAR and developing country instituteen_US
cg.contributor.affiliationJomo Kenyatta University of Agriculture and Technologyen_US
cg.contributor.affiliationMinistry of Agriculture, Livestock, and Fisheries, Kenyaen_US
cg.contributor.affiliationInternational Livestock Research Instituteen_US
cg.contributor.affiliationKenya Medical Research Instituteen_US
cg.contributor.donorFederal Ministry for Economic Cooperation and Development, Germanyen_US
cg.contributor.donorRockefeller Foundationen_US
cg.contributor.donorAfrica Centres for Disease Control and Preventionen_US
cg.coverage.countryKenyaen_US
cg.coverage.iso3166-alpha2KEen_US
cg.coverage.regionAfricaen_US
cg.coverage.regionEastern Africaen_US
cg.creator.identifierSamuel O. Oyola: 0000-0002-6425-7345en_US
cg.creator.identifierJohn Juma: 0000-0002-1481-5337en_US
cg.creator.identifierRichard Nyamota: 0000-0002-9569-1953en_US
cg.creator.identifierBernard Bett: 0000-0001-9376-2941en_US
cg.howPublishedFormally Publisheden_US
cg.identifier.doihttps://doi.org/10.1186/s12917-024-04161-1en_US
cg.isijournalISI Journalen_US
cg.issn1746-6148en_US
cg.issue1en_US
cg.journalBMC Veterinary Researchen_US
cg.reviewStatusPeer Reviewen_US
cg.subject.actionAreaResilient Agrifood Systemsen_US
cg.subject.ilriCATTLEen_US
cg.subject.ilriGOATSen_US
cg.subject.ilriRVFen_US
cg.subject.ilriSHEEPen_US
cg.subject.ilriSMALL RUMINANTSen_US
cg.subject.ilriZOONOTIC DISEASESen_US
cg.subject.impactAreaNutrition, health and food securityen_US
cg.subject.impactPlatformNutrition, Health and Food Securityen_US
cg.subject.sdgSDG 2 - Zero hungeren_US
cg.volume20en_US
dc.contributor.authorOnwong'a, A.A.en_US
dc.contributor.authorOyola, Samuel O.en_US
dc.contributor.authorJuma, Johnen_US
dc.contributor.authorKonongoi, S.en_US
dc.contributor.authorNyamota, Richarden_US
dc.contributor.authorMwangi, Reubenen_US
dc.contributor.authorMuli, Collinsen_US
dc.contributor.authorDobi, Paulen_US
dc.contributor.authorBett, Bernard K.en_US
dc.contributor.authorOngus, J.R.en_US
dc.date.accessioned2024-08-26T04:55:19Zen_US
dc.date.available2024-08-26T04:55:19Zen_US
dc.identifier.urihttps://hdl.handle.net/10568/151844en_US
dc.titleGenome characterization of Rift Valley fever virus isolated from cattle, goats and sheep during interepidemic periods in Kenyaen_US
dcterms.abstractRift Valley fever virus (RVFV) is a mosquito-borne RNA virus of the <i>Phlebovirus</i> genus in the <i>phenuviridae</i> family. Its genome is trisegmented with small (S), medium (M) and large (L) fragments. In nature, the virus exists as a single serotype that is responsible for outbreaks of Rift Valley fever (RVF), a zoonotic disease that often occurs in Africa and the Middle East. RVFV genomes are thought to undergo both recombination and reassortment and investigations of these events is important for monitoring the emergence of virulent strains and understanding the evolutionary characteristics of this virus. The aim of this study was to characterize the genomes of RVFV isolates from cattle, sheep, and goats collected during an interepidemic period in Kenya between June 2016 and November 2021. A total of 691 serum samples from cattle (n = 144), goats (n = 185) and sheep (n = 362) were analysed at the Central Veterinary Laboratories. The competitive IgM-capture ELISA, was used to screen the samples; 205 samples (29.67%) tested positive for RVFV. Of the 205 positive samples, 42 (20.5%) were from cattle, 57 (27.8%) from goats, and 106 (51.7%) from sheep. All the IgM-positive samples were further analyzed by qPCR, and 24 (11.71%) tested positive with Ct values ranging from 14.788 to 38.286. Two samples, 201808HABDVS from sheep and 201810CML3DVS from cattle, had Ct values of less than 20.0 and yielded whole genome sequences with 96.8 and 96.4 coverage, respectively. There was no statistically significant evidence of recombination in any of the three segments and also phylogenetic analysis showed no evidence of reassortment in the two isolated RVFV segments when compared with other isolates of different lineages from previous outbreaks whose genomes are deposited in the GenBank. No evidence of reassortment leaves room for other factors to be the most probable contributors of change in virulence, pathogenicity and emergence of highly virulent strains of the RVFV.en_US
dcterms.accessRightsOpen Accessen_US
dcterms.audienceAcademicsen_US
dcterms.audienceScientistsen_US
dcterms.available2024-08-23en_US
dcterms.bibliographicCitationOnwong'a, A.A., Oyola, S.O., Juma, J., Konongoi, S., Nyamota, R., Mwangi, R., Muli, C., Dobi, P., Bett, B. and Ongus, J.R. 2024. Genome characterization of Rift Valley fever virus isolated from cattle, goats and sheep during interepidemic periods in Kenya. BMC Veterinary Research 20: 376.en_US
dcterms.extent376en_US
dcterms.issued2024-08-23en_US
dcterms.languageenen_US
dcterms.licenseCC-BY-4.0en_US
dcterms.publisherSpringer Science and Business Media LLCen_US
dcterms.subjectrift valley feveren_US
dcterms.subjectgenomicsen_US
dcterms.subjectcattleen_US
dcterms.subjectzoonosesen_US
dcterms.subjectsheepen_US
dcterms.subjectgoatsen_US
dcterms.subjectsmall ruminantsen_US
dcterms.typeJournal Articleen_US

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