Figure 3.
Examples of Putative Artificial Selective Sweep Regions Identified in Laboratory Rat Strains
(A) Relative SNV density (RSD) in 10 kb windows for four rat strains plotted along rat chromosomes separated by colors. Black arrows indicate putative artificial selective sweep (PASS) regions identified in respective rat strains. Closely adjacent but distinct PASS regions on the same chromosome are represented by a single arrow. The PASS region on chromosome 7 in SS is adjacent to but not overlapping with the chromosome 7 PASS region in SR. (For detail, see Table S6).
(B) Average linkage disequilibrium (LD) between pairs of SNVs within a distance ranging from 1 bp to 0.5 Mb. The blue line represents average LD at whole-genome level; the red line represents LD in PASS regions.
(C) Distribution of Tajima’s D in 10 kb windows in the entire genome (blue line) and in PASS regions (red line).
(D) Ratio of nonsynonymous coding (NSC) variants to synonymous coding (SC) variants at genome level (blue bar) and in PASS regions (red bar).