Extended Data Fig. 4. Transcriptional changes associated with C. difficile – E. faecalis interactions.

(a) Pathway analysis of C. difficile transcripts significantly altered following co-culture as measured by RNA sequencing. For pathway analyses, blue bars represent transcripts that increased in abundance and red bars represent transcripts that decreased in abundance. (b) Volcano plot showing E. faecalis transcripts significantly altered following co-culture as measured by RNA sequencing. Red points represent genes associated with amino acid metabolism. Significance determined using two-sided Wald test and corrected for multiple comparisons using the Benjamini-Hochberg method. (c) Pathway analysis of E. faecalis transcripts significantly altered following co-culture as measured by RNA sequencing.