Fig. 6

Defense response network reprogramming in the two fruit ages. Weighted gene co-expression analysis (WGCNA) was used to analyze all expressed genes in inoculated samples. Separate signed networks were analyzed for susceptible (a) and resistant (b) fruit. Dendrograms cluster the genes based on their topological dissimilarity. The colored bars underneath the dendrograms show co-expression module assignment. c Module overlap between the susceptible and resistant networks. Each curve connecting two modules in the different network represents a shared group of genes. Curve width is proportionate to the number of genes. Curve color shows if the overlap between modules is significant based on Fisher’s exact test and an FDR of < 0.001. d Variance stabilized expression patterns of genes in Susceptible module 1 (S1) that are also co-expressed in resistant modules (R2, R3, R6, R8, R12 and R17; Module overlap curves marked with an asterisk in panel c)