ArticleFrontiers in genetics2023
Pedigree and genome-based patterns of homozygosity in the South African Ayrshire, Holstein, and Jersey breeds.
Article in Frontiers in genetics, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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6 citing papers in PubMed, 15 citations in OpenAlex.
- Integrating Precision Livestock Farming and Genomic Tools for Heat Stress Mitigation in South African Dairy Cattle.Animals : an open access journal from MDPI · 2026Review
- Evaluating Adjusted ssGBLUP Models for Genomic Prediction and Matrix Compatibility in South African Holstein Cattle.Animals : an open access journal from MDPI · 2026Article
- Runs of homozygosity in Italian Holstein bulls: a permutation approach and time-based mapping of the genomic regions potentially under selection.BMC genomics · 2026Article
- Preliminary Evaluation of Blending, Tuning, and Scaling Parameters in ssGBLUP for Genomic Prediction Accuracy in South African Holstein Cattle.Animals : an open access journal from MDPI · 2025Article
- Estimation of genome-wide patterns of homozygosity, heterozygosity and inbreeding in crossbred dairy cattle population in Pakistan.Tropical animal health and production · 2025Article
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
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Abstract
The erosion of genetic diversity limits long-term genetic gain and impedes the sustainability of livestock production. In the South African (SA) dairy industry, the major commercial dairy breeds have been applying estimated breeding values (EBVs) and/or have been participating in Multiple Across Country Evaluations (MACE). The transition to genomic estimated breeding values (GEBVs) in selection strategies requires monitoring of the genetic diversity and inbreeding of current genotyped animals, especially considering the comparatively small population sizes of global dairy breeds in SA. This study aimed to perform a homozygosity-based evaluation of the SA Ayrshire (AYR), Holstein (HST), and Jersey (JER) dairy cattle breeds. Three sources of information, namely 1) single nucleotide polymorphism (SNP) genotypes (3,199 animals genotyped for 35,572 SNPs) 2) pedigree records (7,885 AYR; 28,391 HST; 18,755 JER), and 3) identified runs of homozygosity (ROH) segments were used to quantify inbreeding related parameters. The lowest pedigree completeness was for the HST population reducing from a value of 0.990 to 0.186 for generation depths of one to six. Across all breeds, 46.7% of the detected ROH were between 4 megabase pairs (Mb) and 8 Mb in length. Two conserved homozygous haplotypes were identified in more than 70% of the JER population on
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