Skin transcriptomic and selection signature analyses identify ASIP as a key gene in cattle coat color determination DOI Creative Commons
Xin Wang, Longxin Xu, Di Zhou

et al.

Frontiers in Genetics, Journal Year: 2025, Volume and Issue: 16

Published: April 28, 2025

Objective Coat color is a complex trait and plays an important role in breed identification. However, information regarding genes associated with coat cattle limited, especially at the skin transcriptome level. Methods We investigated differential expressed (DEGs) genomic selection signal underlying variation between black brown breeds. A total of 19 (Brangus, Angus, Simmental, Guanling) were performed analysis 262 (Angus Simmental) whole genome analysis. Results Angus (black coat) had significantly higher melanin content both their hair compared to that Simmental Guanling (brown coat). Transcriptomic identified 14,118 genes, principal component hierarchical clustering revealing clear differences cattle. DEGs across four pairwise comparisons highlighted 343 downregulated 54 upregulated common all comparisons, ASIP gene (agouti signaling protein) emerging as key linked melanogenesis. The expression was several dozen-fold than cattle, suggesting crucial determination. Path-way enrichment set (GSEA) “Melanogenesis” pathway enriched central variation. Genes such FZD10 , WNT6 showed patterns correlated color. Genomic revealed strong signals region, SNPs exhibiting high linkage disequilibrium. Notably, mutation type predominant while reference allele more Conclusion Based on transcriptomic analyses, we found breeds under positive selection. These findings provide valuable insights into genetic basis highlight critical determinant this trait.

Language: Английский

Skin transcriptomic and selection signature analyses identify ASIP as a key gene in cattle coat color determination DOI Creative Commons
Xin Wang, Longxin Xu, Di Zhou

et al.

Frontiers in Genetics, Journal Year: 2025, Volume and Issue: 16

Published: April 28, 2025

Objective Coat color is a complex trait and plays an important role in breed identification. However, information regarding genes associated with coat cattle limited, especially at the skin transcriptome level. Methods We investigated differential expressed (DEGs) genomic selection signal underlying variation between black brown breeds. A total of 19 (Brangus, Angus, Simmental, Guanling) were performed analysis 262 (Angus Simmental) whole genome analysis. Results Angus (black coat) had significantly higher melanin content both their hair compared to that Simmental Guanling (brown coat). Transcriptomic identified 14,118 genes, principal component hierarchical clustering revealing clear differences cattle. DEGs across four pairwise comparisons highlighted 343 downregulated 54 upregulated common all comparisons, ASIP gene (agouti signaling protein) emerging as key linked melanogenesis. The expression was several dozen-fold than cattle, suggesting crucial determination. Path-way enrichment set (GSEA) “Melanogenesis” pathway enriched central variation. Genes such FZD10 , WNT6 showed patterns correlated color. Genomic revealed strong signals region, SNPs exhibiting high linkage disequilibrium. Notably, mutation type predominant while reference allele more Conclusion Based on transcriptomic analyses, we found breeds under positive selection. These findings provide valuable insights into genetic basis highlight critical determinant this trait.

Language: Английский

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