Fig. 4
From: A role for heritable transcriptomic variation in maize adaptation to temperate environments
Genome-wide analysis of selective sweeps for temperate adaptation. a Genome-wide XP-CLR scanning in 100-kb sliding windows with a 10-kb step size. The dashed horizontal line indicates the top 10% XP-CLR threshold. Characterized genes with significant selective sweep signals that also showed reduction of expression heritability in temperate maize (except for pfd2) are indicated. b Genome-wide fixation index (Fst) scanning in 100-kb sliding windows with a 10-kb step size. The dashed horizontal line indicates the top 10% Fst threshold. c The maize homolog of Arabidopsis PREFOLDIN-2 (pfd2) located near the highest XP-CLR peak. Red dashed line indicates the position shown in a and b; blue dashed lines below the x-axis indicates the boundary of the regions in which linkage disequilibrium r2 was analyzed; the heatmap indicates LD r2. d Difference in pfd2 expression heritability between temperate and tropical maize. e Frequency of different alleles at the lead SNP (chr2:232,869,130 T/A) representing the eQTL of pfd2 in tropical and temperate maize. f VIN3-LIKE PROTEIN-1 (vil1) located near the highest Fst peak. Red dashed line indicates the position shown in a and b; blue dashed lines below the x-axis indicates the boundary of the regions in which linkage disequilibrium r2 was analyzed; the heatmap indicates LD r2. g Difference in vil1 expression heritability between temperate and tropical maize. h Frequency of different alleles at the lead SNP (chr3:134,681,872 T/A) representing the sQTL of vil1 in tropical and temperate maize