FIG 3.

ChIP-seq and transcript analysis identify SomA target genes. (A and B) KEGG enrichment tables of downregulated (A) and upregulated (B) genes in the Tet-somA (OFF) versus Tet-somA (ON) mutant in the absence of CFW. (C and D) KEGG enrichment of downregulated (C) and upregulated (D) genes in the Tet-somA (OFF) mutant compared to the Tet-somA (ON) strain in the presence of CFW. False discovery rate values and gene numbers are represented using a gradient of color and bubble size, respectively. (E and F) Venn diagram of intersecting genes observed being differentially expressed (fold change > 2 and P < 0.05) in RNA-seq and genes identified as directly bound by SomA in ChIP-seq analyses in the absence (E) or in the presence (F) of CFW. (G) Genome browser images depicting the relative enrichment and transcript levels of two indicated glucose uptake and utilization genes based on ChIP-seq (blue) and RNA-seq (gray). ChIP1 and ChIP2 are two independent repetitions. Scale bar, 1 kb.