Genome-wide adaptive selection and functional annotation of regulatory variation in the Yangxin pig.

ABSTRACT:

Background

Local adaptation drives complex traits in domestic animals, but the roles of positive and balancing selection in Chinese indigenous pig breeds remain unclear. We performed whole-genome resequencing of 79 Yangxin pigs and applied positive and balance selection, integrated findings with PigQTLdb and FarmGTEx.

Results

In this study, we detected ~ 98 Mb of the genome under adaptive selection, mainly involving non-coding variants. Positive selection signals were concentrated in regulatory regions affected to muscle traits, whereas balancing selection was enriched at loci associated with reproduction. The strongest overlap with regulatory elements was observed in muscle tissue. Additionally, significant enrichment of the Hippo signaling pathway was detected in testis. D

SUBMITTER: Liu S 

PROVIDER: S-EPMC12751906 | biostudies-literature | 2025 Nov

REPOSITORIES: biostudies-literature