A within- and across-country assessment of the genomic diversity and autozygosity of South African and eSwatini Nguni cattle

Autor: S F, Lashmar, C, Visser, M, Okpeku, F C, Muchadeyi, N O, Mapholi, E, van Marle-Köster
Rok vydání: 2022
Předmět:
Zdroj: Tropical animal health and production. 54(6)
ISSN: 1573-7438
Popis: In southern Africa, the Nguni cattle breed is classified as an indigenous and transboundary animal genetic resource (AnGR) that manifests unique adaptation abilities across distinct agroecological zones. The genetic integrity of various ecotypes is under potential threat due to both indiscriminate crossbreeding and uncontrolled inbreeding. The aim of this study was to assess the genetic diversity and autozygosity that exist both across countries (ES: eSwatini; SA: South Africa) and within countries (SA), between purebred stud animals (SA-S) and research herds (SA-R). Subsets of 96 ES, 96 SA-S, and 96 SA-R genotyped for 40,930 common SNPs were used to study genome-wide profiles of runs of homozygosity (ROH) and heterozygosity (ROHet) as well as inbreeding levels and population structure. The highest percentage (39.8%) of the 2168 ROH segments was 4-8 Mbp in length, whereas 65% of the 935 ROHet segments fell within the 0.5-1 Mbp length category. Inbreeding coefficients indicated positive but low inbreeding (F
Databáze: OpenAIRE
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