Fig. 6: Putative domestication sweep around a bromelain inhibitor gene that helps control fruit ripening.
From: The bracteatus pineapple genome and domestication of clonally propagated crops
a, Top: Heat maps showing the distribution of domestication sweeps (top 5% πw/πc) for the four cultivars. Bottom: A putative swept region at the end of LG03 containing AccBI1 and AccBI2. πw/πc across all cultivars is plotted using a sliding window of 0.5 Mb with 0.1 Mb shift. b, Genetic distance (FST) between the Smooth Cayenne, Queen, Singapore Spanish and Mordilona-related clusters for the 6.5 Mb of LG03. Mean FST values are plotted in sliding windows of 50 kb with 25 kb step size. c, Tajima’s D values for the four combined cultivar clusters (var. comosus) and wild (var. microstachys). Mean Tajima’s D values are plotted in sliding windows of 50 kb with a step size of 25 kb. d, Left: Pineapple fruit at select stages from a fruit ripening series (stages 1, 2, 7 and 8). Right: Maximum likelihood phylogeny of bromelain genes with log2 transformed RPKMs of expression in fruit, flower, leaf and root tissue.
