Fig. 6

UV-related DNA repair genes implicated by trait-associated SNPs (TASs) and haplotype demographic distributions. a ATR in maize is tagged by a TAS (PZE0561610418) on chromosome 5. b DNA ligase1 (Lig1) in soybean is tagged by a TAS (rs1126618459) on chromosome 11. The upper panel shows the box plot of base composition between accessions carrying different alleles at the TASs. The middle panel shows the regional Manhattan plot around ATR and Lig1 locus (ATR and Lig1 are shown in red, others in blue). Dot size is proportional to the magnitude of significance for the SNP’s association with [AT] variation. Dot color indicates its LD with the TAS. The lower panel shows the haplotype networks inferred from 8 SNPs within ATR gene and 16 SNPs within Lig1 gene, respectively. Each circle represents one haplotype. Size of the circle is proportional to the number of accessions possessed the haplotype. Size of each colored slice within a circle is proportional to the number of accessions possessed the haplotype from the corresponding group