Genetic variation and genetic structure of five Chinese indigenous pig populations in Jiangsu Province revealed by sequencing data.

ABSTRACT: In this study, we investigated the genetic variants, including SNPs and indels (short insertions or deletions, less than 50 bp in length), in the genomes and genetic structures of five pig populations (in the northern Taihu Lake region, Jiangsu Province) using the genotyping by genome reducing and sequencing (GGRS) approach. A total of 581 million good reads with an average depth of 11× and an average coverage of 2.16% were used to call variants. In general, 202 106 SNPs and 34 415 indels were obtained, of which 2690 SNPs and 224 indels were capable of inducing protein-coding changes. The genes containing these variants were extracted for functional annotation. The results of gene enrichment analysis revealed that the SNPs under investigation may be associated with reproduction, disease re

SUBMITTER: Xiao Q 

PROVIDER: S-EPMC5638066 | biostudies-literature | 2017 Oct

REPOSITORIES: biostudies-literature