FIGURE 1: Transcriptome analysis of CFT073 reveals downregulation of the colibactin biosynthesis operon in response to D-Serine. Using read data from our previous transcriptomic study [21], we constructed track maps of the clb locus in CFT073 in the presence and absence of D-Serine. (A) Read density in the colibactin biosynthesis locus for representative samples of the untreated control (black) and D-Serine treated (red) CFT073 is indicated. Read tracks were normalized, exported from CLC Genomics Workbench and overlayed. Genomic coordinates are displayed above the read tracks and the corresponding genes within the colibactin biosynthesis operon (blue) beneath. (B) Heat map indicating the EdgeR calculated log₂ relative fold changes for each gene in the colibactin biosynthesis locus with corresponding colour key beneath. False discovery rate-corrected P values are indicated with significantly differentially expressed genes with *, ** and *** indicating P < 0.05, 0.01 and 0.001, respectively.

21. Connolly JPR, Turner NCA, Hallam JC, Rimbi PT, Flett T, McCormack MJ, Roe AJ, and O'Boyle N (2021). d-Serine induces distinct transcriptomes in diverse Escherichia coli pathotypes. Microbiology 167(10). 10.1099/mic.0.001093