ArticleFrontiers in genetics2025
Genetic diversity and population structure of non-descript cattle in South African smallholder systems.
Article in Frontiers in genetics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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Who cites it
4 citing papers in PubMed.
- Analysis of Inbreeding, Population Structure, and Genetic Diversity in the Kumamoto Sub-Breed of Japanese Brown Cattle.Animals : an open access journal from MDPI · 2026Article
- Genome-wide analysis reveals differential admixture dynamics and historical demographic contractions in African cattle.Scientific reports · 2026Article
- Whole-genome sequencing reveals genomic diversity and selection signatures for adaptation in South African Afrikaner and Bonsmara cattle.Frontiers in genetics · 2026Article
- Exploring Meiotic Recombination and Its Potential Benefits in South African Beef Cattle: A Review.Veterinary sciences · 2025Review
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5 authors.
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Abstract
The genetic background and characteristics of South African smallholder cattle populations remain largely unknown. These cattle exhibit remarkable adaptability to challenging environments with minimal inputs from farmers, making them a valuable genetic resource for sustainable farming. This study aimed to genetically characterize non-descript cattle kept in smallholding systems using single-nucleotide polymorphism (SNP) markers. A total of 188 non-descript smallholder beef cattle were sampled from seven South African provinces; Eastern Cape (n = 27), Free State (n = 28), Gauteng (n = 13), KwaZulu-Natal (n = 29), Limpopo (n = 34), North West (n = 44) and Northern Cape (n = 10). In addition, samples were obtained from Afrikaner (n = 42), Bonsmara (BON; n = 46), Boran (n = 20), Brahman (n = 96), Drakensberger (n = 25), Hereford (n = 31), Holstein (HOL; n = 29), Nguni (n = 59) and Shorthorn (n = 35) to serve as reference populations. Quality control of the original SNP data removed less informative animals and SNPs, which resulted in a final data set consisting of 185 animals and 119,392 SNPs. Principal coordinate analysis, ancestry, and genomic diversity statistics revealed moderate to high levels of diversity within smallholder cattle and substantial relationship with commercial beef cattle (i.e., Afrikaner, Bonsmara, Brahman, Drakensberger, Hereford, Holstein and Nguni). In North West province, there was tendency towards greater influence of Bonsmara, whereas in KwaZulu Natal the cattle were more closely related to Holstein. The smallholder populations were shown not to be unique, likely due to indiscriminate hybridization with the commercial breeds. Among the provinces, estimates of observed heterozygosity (H
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