Climate-associated loci and their geographic distributions. (A) Manhattan plots for bio10 (mean temperature of warmest quarter) and bio17 (precipitation of driest quarter). Horizontal dashed lines indicate P = 0.05 after Benjamini–Hochberg FDR correction. Highlighted dots indicate SNPs associated significantly with bioclimatic variables and included in the 4-kb windows of selection scans that were significant in more than two combinations of subpopulations. SNPs indicated by arrowheads were used for plots of (B) and (C). SNPs on the assembled chromosomes are shown. (B) Geographic distributions of the alleles strongly associated with bio10 and bio17. These alleles are located ∼1.2 kbp downstream of the stop codon of Ah7G32100 and ∼1.9 kbp upstream from the start codon of Ah8G12760, respectively. (C) Distribution of bioclimatic variables for each allele.