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Cross-species analyses demonstrate partial evolutionary conservation of genetic metabolism between cattle and humans, establishing this atlas as a powerful asset for cattle genetics and genomics, selective breeding, and comparative biology.
Non-coding regulatory variation drives complex traits, domestication, and evolutionary adaptation, yet the sheep genome lacks high-resolution functional annotation. Here we present SheepEpimap, a multi-tissue regulatory atlas harmonizing 516 CUT&Tag histone modifications, ATAC-seq, and RNA-seq datasets across 43 adult...
Most complex-trait-associated variants reside in non-coding regions, yet functional annotation relies heavily on static local expression quantitative trait loci (cis-eQTL), leaving distal and context-dependent regulatory effects unresolved. Here, we leverage an 18-generation chicken advanced intercross line, which subs...
It is demonstrated that wild boar expanded from South Asia during the Middle Pleistocene, preceded by a Pliocene introgression in South Asia from an archaic Suinae lineage that introduced a ~43 megabase X-chromosomal haplotype into the ancestral wild boar population.
Genome-wide association study (GWAS) analyses have identified numerous loci associated with economic traits in cattle. Many of these loci reside in noncoding regions, and the regulatory mechanisms through which they influence complex traits remain poorly understood. Here, we integrated 657 RNA-seq libraries from 275 Hu...
High-fidelity pangenome graphs are constructed by integrating both assembly-based and whole-genome sequencing (WGS) derived SV catalogs and provide novel insights into the SV landscape and its contribution to gene regulation, underscoring its importance in cattle genetics and genomics.
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