Figure 3

Comparison of metabolites and mRNAs with altered levels in Mediator mutants relative to Col-0 in mock-treated plants. (A) Upset diagram illustrating both the overlap and uniqueness of metabolites that display altered levels in mock-treated mutants relative to Col-0. Only metabolites that show statistically significant differences (log₂-FC > 0.5 or < − 0.5 and p < 0.05) at both the 24- and 72-h time points are included. The total number of metabolites that display altered levels in each mutant are represented as red (increased) and blue (decreased) bars to the left. (B) Metabolites that displayed statistically distinct levels in mock-treated mutants relative to mock-treated Col-0 were grouped into nineteen metabolite categories (see Supplementary Table 3). Sizes of circles represent the ratio of the number of metabolites in each category that display significantly different levels in mutants relative to Col-0 and the total amount of metabolites detected for each category in our full data set of 222 metabolites. Numbers to the right of each circle represent the total number of metabolites that show significantly changed levels in each mutant. (C) GO enrichment analysis of alterations in defined KEGG-pathways^50,51,52 of differentially expressed genes (DEGs) in each mutant relative to Col-0. The sizes of circles represent the significance (-log₁₀ of Benjamini–Hochberg adjusted p-value) of the enrichment for each GO and numbers to the right of circles represent the number of DEGs for each mutant in the respective GO.