Figure 3

Shared core sets of up- and down- regulated DDEGs identified in the reference-based transcriptomic analysis. (a) Venn diagram depicting the intersections of all sets of up-regulated DDEGs. (b) Venn diagram depicting the intersections of all sets of down-regulated DDEGs. c) Heatmap depicting the expression of the shared core sets of up- or down-regulated DDEGs (CUG and CDG respectively) in all tissues and treatments. In a) and (b): CUG = core of up-regulated genes in all tissues during stress treatments; CU10 = core of up-regulated genes in all tissues at 10 DASI; CU20 = core of up-regulated genes in all tissues at 20 DASI; CUL = core of up-regulated genes in L-10 and L-20; CUS = core of up-regulated genes in S-10 and S-20; CUR = core of up-regulated genes in R-10 and R-20; CDG = core of down-regulated genes in all tissues during stress treatments; CD10 = core of down-regulated genes in all tissues at 10 DASI; CD20 = core of down-regulated genes in all tissues at 20 DASI; CDL = core of down-regulated genes in L-10 and L-20; CDS = core of down-regulated genes in S-10 and S-20; CDR = core of down-regulated genes in R-10 and R-20. In (c) green circle = clade of genes relatively highly expressed under CN condition in leaves, sap, and roots; red circle = clade of the core set of 6 up-regulated DDEGs in all tissues and treatments (CUG); blue circle = clade of genes relatively highly expressed in leaves and roots, but lowly expressed in sap, under CN condition. In gene annotations in (c): “sc” = “evm.TU.supercontig_”. Heatmap color key indicates the mean-centered log2(TPM + 1) values of the mean of TPMs per sample duplicates. DDEG = Drought-responsive differentially expressed genes. Separate shared core sets are depicted in Supplementary Fig. S9. Samples names are described in Table 1.