Figure 5.

Selection and evolution of the rice QR-genes. A, Comparison of resistance allele usage between Xian accessions (n = 419) and Geng accessions (n = 219) for each SNP associated with resistance to Xoo. XI, Xian/indica; GJ, Geng/japonica. B, Comparison of resistance allele usage between CHN-MV (n = 316) and CHN-LAN (n = 135) for each SNP associated with resistance to Xoo. The dotted red lines in (A) and (B) indicate the mean frequency difference of all significant SNPs detected in rice GWAS panel. The resistance allele was determined by its corresponding phenotypes in the whole population. C, Density of large-sized deletions (>100 bp) calculated by a sliding window of 500 kb with each moving step of 100 kb. The density was further adjusted to deletion numbers per 100 kb. The two important regions (R30–R37 and R40–R41) were highlighted. The dotted red line indicates the genome-wide mean value