Genetic diversity, population structure and kinship relationships highlight the environmental influence on Uganda’s indigenous goat populations

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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.affiliationNelson Mandela African Institution of Science and Technologyen
cg.contributor.affiliationNational Livestock Resources Research Institute, Ugandaen
cg.contributor.affiliationOhio State Universityen
cg.contributor.affiliationScotland Rural Collegeen
cg.contributor.donorSwedish International Development Cooperation Agencyen
cg.contributor.donorAfrica Biosciences Challenge Funden
cg.contributor.donorDepartment for Foreign Affairs and Trade, Australiaen
cg.contributor.donorSyngenta Foundation for Sustainable Agricultureen
cg.contributor.donorBill & Melinda Gates Foundationen
cg.contributor.donorForeign, Commonwealth and Development Office, United Kingdomen
cg.coverage.countryUgandaen
cg.coverage.iso3166-alpha2UGen
cg.coverage.regionAfricaen
cg.coverage.regionEastern Africaen
cg.creator.identifierRaphael Mrode: 0000-0003-1964-5653en
cg.creator.identifierMorris Agaba: 0000-0001-6777-0382en
cg.howPublishedFormally Publisheden
cg.identifier.doihttps://doi.org/10.3389/fgene.2024.1385611en
cg.isijournalISI Journalen
cg.issn1664-8021en
cg.journalFrontiers in Geneticsen
cg.reviewStatusPeer Reviewen
cg.subject.ilriANIMAL BREEDINGen
cg.subject.ilriBREEDSen
cg.subject.ilriGENETICSen
cg.subject.ilriGOATSen
cg.subject.ilriINDIGENOUS BREEDSen
cg.volume15en
dc.contributor.authorNantongo, Ziwenaen
dc.contributor.authorBirungi, Josephineen
dc.contributor.authorOpiyo, S.O.en
dc.contributor.authorShirima, G.en
dc.contributor.authorMugerwa, S.en
dc.contributor.authorMutai, Collinsen
dc.contributor.authorKyalo, Martinaen
dc.contributor.authorMunishi, L.en
dc.contributor.authorAgaba, M.en
dc.contributor.authorMrode, Raphael A.en
dc.date.accessioned2024-07-15T11:42:32Zen
dc.date.available2024-07-15T11:42:32Zen
dc.identifier.urihttps://hdl.handle.net/10568/149076
dc.titleGenetic diversity, population structure and kinship relationships highlight the environmental influence on Uganda’s indigenous goat populationsen
dcterms.abstractKnowledge about genetic diversity and population structure among goat populations is essential for understanding environmental adaptation and fostering efficient utilization, development, and conservation of goat breeds. Uganda’s indigenous goats exist in three phenotypic groups: Mubende, Kigezi, and Small East African. However, a limited understanding of their genetic attributes and population structure hinders the development and sustainable utilization of the goats. Using the Goat Illumina 60k chip International Goat Genome Consortium V2, the whole-genome data for 1,021 indigenous goats sourced from 10 agroecological zones in Uganda were analyzed for genetic diversity and population structure. A total of 49,337 (82.6%) single-nucleotide polymorphism markers were aligned to the ARS-1 goat genome and used to assess the genetic diversity, population structure, and kinship relationships of Uganda’s indigenous goats. Moderate genetic diversity was observed. The observed and expected heterozygosities were 0.378 and 0.383, the average genetic distance was 0.390, and the average minor allele frequency was 0.30. The average inbreeding coefficient (Fis) was 0.014, and the average fixation index (Fst) was 0.016. Principal component analysis, admixture analysis, and discriminant analysis of principal components grouped the 1,021 goat genotypes into three genetically distinct populations that did not conform to the known phenotypic populations but varied across environmental conditions. Population 1, comprising Mubende (90%) and Kigezi (8.1%) goats, is located in southwest and central Uganda, a warm and humid environment. Population 2, which is 59% Mubende and 49% Small East African goats, is located along the Nile Delta in northwestern Uganda and around the Albertine region, a hot and humid savannah grassland. Population 3, comprising 78.4% Small East African and 21.1% Mubende goats, is found in northeastern to eastern Uganda, a hot and dry Commiphora woodlands. Genetic diversity and population structure information from this study will be a basis for future development, conservation, and sustainable utilization of Uganda’s goat genetic resources.en
dcterms.accessRightsOpen Accessen
dcterms.audienceScientistsen
dcterms.available2024-05-30en
dcterms.bibliographicCitationNantongo, Z., Birungi, J., Opiyo, S.O., Shirima, G., Mugerwa, S., Mutai, C., Kyalo, M., Munishi, L., Agaba, M. and Mrode, R. 2024. Genetic diversity, population structure and kinship relationships highlight the environmental influence on Uganda’s indigenous goat populations. Frontiers in Genetics 15: 1385611.en
dcterms.extent1385611en
dcterms.issued2024-05-30en
dcterms.languageenen
dcterms.licenseCC-BY-4.0en
dcterms.publisherFrontiers Mediaen
dcterms.subjectgoatsen
dcterms.subjectgeneticsen
dcterms.subjectenvironmenten
dcterms.subjectlandracesen
dcterms.typeJournal Articleen

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