ArticleNature communications2025
The genetic diversity of Indonesian cattle has been shaped by multiple introductions and adaptive introgression.
Article in Nature communications, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
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Who cites it
5 citing papers in PubMed.
- Harnessing adaptive alleles in native animals for sustainable intensification of livestock.Animal frontiers : the review magazine of animal agriculture · 2026Article
- Genetic Ancestry and Genome-Wide Association Study Combined with Functional Enrichment Analyses Reveal Candidate Genes for Body Conformation Traits in Hexi Cattle.Animals : an open access journal from MDPI · 2026Article
- Runs of homozygosity reveal population dynamics and selection across global cattle.Journal of animal science and biotechnology · 2026Article
- Preliminary study of genetic variation in the CYP26B1 gene coding region in Bali cattle bulls.Open veterinary journal · 2026Article
- Population structure and domestication history of the Javan banteng.Current biology : CB · 2026Article
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Authors and funding
31 authors.
Funding
Abstract
Genetic diversity is a crucial resource in livestock, determining their traits and ability to respond to selection. Indonesian cattle are unique due to their history of admixture involving both zebu (Bos indicus) and banteng (B. javanicus), and may therefore contain novel cattle genetic resources. We generated whole genome sequences from 126 Indonesian cattle, 51 domesticated banteng and three captive banteng. We show that Indonesian cattle have very high genetic diversity, especially the Madura breed due to introgression from banteng and possibly other Bos species, contributing up to 36.6% of the Madura's genome. We find that Indonesian zebu ancestry can be traced to at least three distinct ancestral populations, two of which were introduced more than 1345 years ago from mainland Southeast or eastern Asia. Peaks and valleys in banteng ancestry across the genome in admixed breeds suggest that both negative and positive selection act on introgressed haplotypes. Despite adaptive introgression being mainly breed-specific, we found evidence that some phenotypes, such as coat color, have experienced convergent adaptive introgression. Overall, our results provide insights into the historical movement of cattle in Asia, and showcase the potential for genetic improvement of cattle by identifying ~3.5 million novel SNPs introgressed into Indonesian cattle.
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