Genome-wide analysis reveals the ancient and recent admixture history of East African Shorthorn Zebu from Western Kenya

Simple item page
cg.contributor.affiliationInternational Livestock Research Instituteen
cg.contributor.crpLivestock and Fishen
cg.contributor.donorWellcome Trusten
cg.coverage.countryKenyaen
cg.coverage.iso3166-alpha2KEen
cg.coverage.regionAfricaen
cg.coverage.regionEastern Africaen
cg.creator.identifierHenry Kiara: 0000-0001-9578-1636en
cg.creator.identifierAlan S. Orth: 0000-0002-1735-7458en
cg.creator.identifierMark Bronsvoort: 0000-0002-3271-8485en
cg.creator.identifierPhilip Toye: 0000-0002-7100-2789en
cg.creator.identifierOlivier Hanotte: 0000-0002-2877-4767en
cg.identifier.doihttps://doi.org/10.1038/hdy.2014.31en
cg.isijournalISI Journalen
cg.issn0018-067Xen
cg.issn1365-2540en
cg.issue4en
cg.journalHeredityen
cg.reviewStatusPeer Reviewen
cg.subject.ilriANIMAL BREEDINGen
cg.subject.ilriCATTLEen
cg.subject.ilriGENETICSen
cg.subject.ilriINDIGENOUS BREEDSen
cg.subject.ilriLIVESTOCKen
cg.subject.ilriRESEARCHen
cg.volume113en
dc.contributor.authorMbole-Kariuki, Mary N.en
dc.contributor.authorSonstegard, T.S.en
dc.contributor.authorOrth, Alan S.en
dc.contributor.authorThumbi, Samuel M.en
dc.contributor.authorBronsvoort, B.M. de C.en
dc.contributor.authorKiara, Henry K.en
dc.contributor.authorToye, Philip G.en
dc.contributor.authorConradie, I.en
dc.contributor.authorJennings, A.en
dc.contributor.authorCoetzer, K.en
dc.contributor.authorWoolhouse, Mark E.J.en
dc.contributor.authorHanotte, Olivier H.en
dc.contributor.authorTapio, M.en
dc.date.accessioned2014-05-13T05:09:28Zen
dc.date.available2014-05-13T05:09:28Zen
dc.identifier.urihttps://hdl.handle.net/10568/35610
dc.titleGenome-wide analysis reveals the ancient and recent admixture history of East African Shorthorn Zebu from Western Kenyaen
dcterms.abstractThe Kenyan East African zebu cattle are valuable and widely used genetic resources. Previous studies using microsatellite loci revealed the complex history of these populations with the presence of taurine and zebu genetic backgrounds. Here, we estimate at genome-wide level the genetic composition and population structure of the East African Shorthorn Zebu (EASZ) of western Kenya. A total of 548 EASZ from 20 sub-locations were genotyped using the Illumina BovineSNP50 v. 1 beadchip. STRUCTURE analysis reveals admixture with Asian zebu, African and European taurine cattle. The EASZ were separated into three categories: substantial (⩾12.5%), moderate (1.56%<12.5%) and non-introgressed (⩽1.56%) according to the European taurine genetic proportion. The non-European taurine introgressed animals (n=425) show an unfluctuating zebu and taurine ancestry of 0.84±0.009 s.d. and 0.16±0.009 s.d., respectively, with significant differences in African taurine (AT) and Asian zebu backgrounds across chromosomes (P<0.0001). In contrast, no such differences are observed for the European taurine ancestry (P=0.1357). Excluding European introgressed animals, low and nonsignificant genetic differentiation and isolation by distance are observed among sub-locations (Fst=0.0033, P=0.09; r=0.155, P=0.07). Following a short population expansion, a major reduction in effective population size (Ne) is observed from approximately 240 years ago to present time. Our results support ancient zebu × AT admixture in the EASZ population, subsequently shaped by selection and/or genetic drift, followed by a more recent exotic European cattle introgression.en
dcterms.accessRightsOpen Accessen
dcterms.audienceScientistsen
dcterms.available2014-04-16en
dcterms.bibliographicCitationMbole-Kariuki, M.N., Sonstegard, T., Orth, A., Thumbi, S.M., Bronsvoort, B. M. de C., Kiara, H., Toye, P., Conradie, I., Jennings, A., Coetzer, K., Woolhouse, M.E.J. , Hanotte, O. and Tapio, M. 2014. Genome-wide analysis reveals the ancient and recent admixture history of East African Shorthorn Zebu from Western Kenya. Heredity 113: 297-305.en
dcterms.extentp. 297-305en
dcterms.issued2014-10en
dcterms.languageenen
dcterms.licenseCC-BY-3.0en
dcterms.publisherSpringeren
dcterms.subjectcattleen
dcterms.subjectresearchen
dcterms.typeJournal Articleen

Files

License bundle

Now showing 1 - 1 of 1
Thumbnail Image
Name:
license.txt
Size:
1.75 KB
Format:
Item-specific license agreed upon to submission
Description:
Download

Collections

ILRI articles in journals
Livestock Fish Flagship: Animal Genetics
Livestock Fish Flagship: Animal Health
Livestock Fish journal articles