Selective Sweep Analysis
The population-differentiation statistic (F ST)
with Vcftools [56], nucleotide diversity
(θ π)
and Tajima’s D with
Variscan 2.0, were estimated for 50-kb sliding windows with a 25-kb step
size along each chromosome and Fisher’s exact test was performed on
synonymous and non-synonymous SNPs in the exon region by Plink [57],
the false discovery rate (FDR) was used to correct the P values.
Windows at the top 5% of F ST and q <
0.01 of Fisher’s exact test were selected, and the corresponding genes
were considered as candidates. Enrichment analysis was conducted
according to Uniport and KEGG databases.