Functional categories of differentially expressed genes grouped into clusters based on their expression profiles. Numbers of induced (red) and repressed (green) grapevine genes within each selected Gene Ontology (GO) functional category are reported for each cluster: (A) Genes modulated by Trichoderma harzianum T39 (T39) with comparable expression levels before and after Plasmopara viticola inoculation in T39-treated plants (cluster 1, solid bars) and genes initially modulated by T39 and further modulated by P. viticola inoculation in T39-treated plants (cluster 2, hatched bars); (B) Genes modulated exclusively by T39 treatment (cluster 3); (C) Genes similarly modulated by P. viticola in control and T39-treated plants with (cluster 4, solid bars) or without (cluster 5, hatched bars) direct modulation by T39 treatment; (D) Genes modulated by P. viticola with greater modulation (> 1.5-fold) in T39-treated than in control plants (ISR-primed genes) with (cluster 6, solid bars) or without (cluster 7, hatched bars) direct modulation by T39 treatment; (E) Genes modulated by P. viticola exclusively in control plants with (cluster 8, solid bars) or without (cluster 9, hatched bars) direct modulation by T39; (F) Genes modulated by P. viticola exclusively in T39-treated plants (cluster 10). For each cluster of differentially expressed genes, GO functional categories marked by an asterisk were differentially represented to the entire grapevine transcriptome, according to GOstat statistical analysis (P < 0.05) .
Perazzolli et al. BMC Genomics 2012 13:660 doi:10.1186/1471-2164-13-660