Fig. 3: eQTL hotspots and genetic network of genes associated with fiber quality.
From: Regulatory controls of duplicated gene expression during fiber development in allotetraploid cotton
a, Line chart showing the number of genes regulated by eQTL hotspots at each timepoint. Red point, the total number of regulated genes across five timepoints. b, Bubble plot showing the variable number of genes regulated by nine hotspots in fiber development. Point size, the scaled number of regulated genes in each timepoint; line size, the scaled number of genes that were coregulated between adjacent timepoints. c, Genetic network of fiber-related genes. The node color represents the module to which it belongs. Hexagon node, eQTL hotspot; circular, candidate genes; square, eQTL. The edge is used to connect hotspots/eQTLs with genes. Line plot, distribution of node in-degree values (one-sided F test). d, The counts of genes, eQTLs and hotspots (top) in 36 modules and module heritability of four fiber quality-related traits (bottom). e, Analysis of dynamic interpretation (normalized r2) of fiber length in eight modules at five timepoints. The expression patterns of four representative genes are shown with line plots. f, A total of 129 loci with higher favorable allele frequency (>0.2) in the accessions with the longest fiber (n = 50) compared with the accessions with the shortest fiber (n = 50). Centerline, median; box limits, first and third quartiles; whisker, 1.5× interquartile range. g, Module enrichment analysis of the 129 loci in f (one-sided Fisher’s exact test).
