Fig. 6

Meiotic crossovers are enriched with Stowaway MITE transposons. a Significantly enriched (before Bonferroni multiple testing correction) transposons between fine-resolution crossovers and matched cold regions. Top barplot: Proportion of significantly enriched transposons in cold regions (gray background) and crossovers (red background) out of all transposons overlapping each data set. Blue bars represent the portion the transposon takes in cold regions. Orange bars represent the portion the transposon takes in crossovers. Bottom barplot: −log10 transformed P values from Fisher’s exact test. Grey bars are for transposons enriched within cold regions, purple bars denote significance for transposons enriched within crossovers. Transformed P values are shown only for the data set in which they are significant. *Significance following Bonferroni correction at P < 0.05. b Aggregate plot of Stowaway element distribution relative to genes across the potato genome. Orange, normalized count of Stowaway elements (per bp window); blue, random control. c Heatmap of Stowaway elements per 100 kb on chromosome 12, on top of recombination rate interpolated onto 100-kb windows. d Promoters of genes from the upper quartile of recombination rate are more enriched with Stowaway elements than genes from crossover-poor regions. Orange, normalized count of Stowaway transposons in gene promoters of recombination rich regions; gray, normalized count of Stowaway elements within gene promoters from recombination poor regions. e Promoters carrying Stowaway elements underlie regions with significantly higher recombination rates (orange line), compared to simulated distributions (one million permutations) of nearby (within 500 kb) promoters lacking Stowaway elements (blue histogram). Y-axis represents the counts of observations with a mean cM/Mb value (X-axis)