Artificial selection footprints in indigenous and commercial chicken genomes

Abstract Background Although many studies have been done to reveal artificial selection signatures in commercial and indigenous chickens, a limited number of genes have been linked to specific traits. To identify more trait-related artificial selection signatures and genes, we re-sequenced a total of 85 individuals of five indigenous chicken breeds with distinct traits from Yunnan Province, China. Results We found 30 million non-redundant single nucleotide variants and small indels (