Extended Data Fig. 2: Selection of genes with expression profiles and predicted functions that correlate with long-term JA-IR against herbivory (left) and long-term JA-IS against hemi-biotrophic (middle) and necrotrophic (right) pathogens.

a, Gene expression profiles were selected from the 2,409 genes with a statistically significant interaction between seedling and challenge treatment (P_adj < 0.01), using the criteria displayed above the heatmaps (letters before and after the underscore indicate seedling treatment and challenge, respectively), resulting in 832 (left), 904 (middle) and 395 (right) genes. Replicate samples (n = 4) for mRNA-seq analysis were collected from 5-week-old plants at 4 h after challenge with water (W) or 0.1 mM JA. Plants had been pre-treated with water or 1 mM JA at the seedling stage (2-week-old). Blue and red columns above the heatmaps indicate water and JA treatments, respectively, of seedlings (ST) and 5-week-old plants (Challenge). Heatmap-projected values represent per gene z-scores of transformed read counts from all biological replicates. Numbered boxes next to heatmaps indicate 10 distinct gene expression clusters. b, Selection of defence-related Gene Ontology (GO) terms enriched (P_adj < 0.05) within the 10 gene clusters shown in (a). For complete lists of enriched GO terms, see Supplementary Data 3, 7 and 11.