Fig. 4: Variation in HvYDA1 and HvBRX-Solo causes similar expression changes in genes involved in epidermal development.
From: Conserved signalling components coordinate epidermal patterning and cuticle deposition in barley
a–d Analyses of the RNA-seq of basal leaf sections from BW111, BW122 and Bowman. a Venn diagram of the overlap of co-differentially expressed genes (co-DEGs) between BW111 versus Bowman and BW122 versus Bowman. b Semantic similarities between significantly enriched gene ontology (GO) categories in downregulated co-DEGs in BW111 and BW122 versus Bowman. Bubbles represent GO terms whose closeness corresponds with semantic similarity. Bubble colours represent p values and bubble sizes represent the number of DEGs carrying this term. Selected representative terms of each cluster are labelled. c, d Heatmaps based on expression fold changes of representative DEGs related to cuticular development (c) and epidermal cell development (d) in BW111 and BW122 versus Bowman (Full list of DEGs is shown in Supplementary Data 7). DEGs with expression fold change ≥ 2 and a Benjamini–Hochberg adjusted p-value ≤ 0.05 are highlighted by asterisks. Genes encoding barley orthologs of MAPK3, SCAR, PIN2 and COP1 showed fold changes between 1.5 and 2.0 (Supplementary Data 7, 8) and were also taken as DEGs. e qPCR validation of selected DEGs: MUTE, HORVU2Hr1G020990; ICE1, HORVU4Hr1G008480; HDG5, HORVU1Hr1G050620; MYB96, HORVU4Hr1G023510; ABCG11.3, HORVU2Hr1G090960; CER1, HORVU1Hr1G039820. Expression data are expressed by 2-ΔΔCT. Bars, error bars and points indicate means, standard deviations, and individual replicate values, respectively. N = 3 bio-replicates per genotype. Source data including p values of statistic tests of c–e are provided in the Source data file.
