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Abstract
The Angora goat populations in Argentina (AR), France (FR) and South Africa (SA) have been kept geographically and genetically distinct. Due to country-specific selection and breeding strategies, there is a need to characterize the populations on a genetic level. In this study we analysed genetic variability of Angora goats from three distinct geographical regions using the standardized 50k Goat SNP Chip. A total of 104 goats (AR: 30; FR: 26; SA: 48) were [ver mas...]
dc.contributor.authorVisser, Carina
dc.contributor.authorLashmar, Simon F.
dc.contributor.authorMarle-Koster, Este Van
dc.contributor.authorPoli, Mario Andres
dc.contributor.authorAllain, Daniel
dc.date.accessioned2017-08-31T15:30:07Z
dc.date.available2017-08-31T15:30:07Z
dc.date.issued2016
dc.identifier.citationVisser C, Lashmar SF, Van Marle-Köster E, Poli MA, Allain D (2016) Genetic Diversity and Population Structure in South African, French and Argentinian Angora Goats from Genome-Wide SNP Data. PLoS ONE 11(5): e0154353.
dc.identifier.issn1932-6203
dc.identifier.otherhttps://doi.org/10.1371/journal.pone.0154353
dc.identifier.urihttp://hdl.handle.net/20.500.12123/1093
dc.identifier.urihttp://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0154353&type=printable
dc.description.abstractThe Angora goat populations in Argentina (AR), France (FR) and South Africa (SA) have been kept geographically and genetically distinct. Due to country-specific selection and breeding strategies, there is a need to characterize the populations on a genetic level. In this study we analysed genetic variability of Angora goats from three distinct geographical regions using the standardized 50k Goat SNP Chip. A total of 104 goats (AR: 30; FR: 26; SA: 48) were genotyped. Heterozygosity values as well as inbreeding coefficients across all autosomes per population were calculated. Diversity, as measured by expected heterozygosity (HE) ranged from 0.371 in the SA population to 0.397 in the AR population. The SA goats were the only population with a positive average inbreeding coefficient value of 0.009. After merging the three datasets, standard QC and LD-pruning, 15 105 SNPs remained for further analyses. Principal component and clustering analyses were used to visualize individual relationships within and between populations. All SA Angora goats were separated from the others and formed a well-defined, unique cluster, while outliers were identified in the FR and AR breeds. Apparent admixture between the AR and FR populations was observed, while both these populations showed signs of having some common ancestry with the SA goats. LD averaged over adjacent loci within the three populations per chromosome were calculated. The highest LD values estimated across populations were observed in the shorter intervals across populations. The Ne for the Angora breed was estimated to be 149 animals ten generations ago indicating a declining trend. Results confirmed that geographic isolation and different selection strategies caused genetic distinctiveness between the populations.eng
dc.formatapplication/pdf
dc.language.isoeng
dc.rightsinfo:eu-repo/semantics/openAccess
dc.sourcePLoS ONE 11 (5) : e0154353
dc.subjectCaprinos
dc.subjectGoatseng
dc.subjectVariación Genética
dc.subjectGenetic Variationeng
dc.subjectEstructura de la Población
dc.subjectPopulation Structureeng
dc.subjectGenética
dc.subjectGeneticseng
dc.subject.otherSudáfrica
dc.subject.otherFrancia
dc.subject.otherArgentina
dc.titleGenetic diversity and population structure in South African, French and Argentinian angora goats from genome-wide snp data
dc.typeinfo:eu-repo/semantics/article
dc.typeinfo:ar-repo/semantics/artículo
dc.typeinfo:eu-repo/semantics/publishedVersion
dc.description.origenInst. de Genética "Ewald A. Favret"- IGEAF
dc.gic151751
dc.description.filFil: Visser, Carina. University of Pretoria. Department of Animal and Wildlife Sciences; Sudáfrica
dc.description.filFil: Lashmar, Simon F. University of Pretoria. Department of Animal and Wildlife Sciences; Sudáfrica
dc.description.filFil: Marle-Koster, Este Van. University of Pretoria. Department of Animal and Wildlife Sciences; Sudáfrica
dc.description.filFil: Poli, Mario Andres. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina
dc.description.filFil: Allain, Daniel. Institut National de la Recherche Agronomique; Francia
dc.subtypecientifico


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