RNAseq analysis reveals the transcriptional programme of Clostridium difficile in a biologically relevant faecal–stress environment: implications for pathogenicity

RNAseq and LC/MS metabolomics analysis of C. difficile strain 630 grown in BHIS media with 50% (vol/vol) faecal water added, compared with control BHIS containing only the additional PBS used for prep of Faecal water. Cells grown in biological triplicates to late log phase (T=6h) prior to harvest. Goal was to determine changes in gene expression caused by exposure to Faecal water, and changes in the metabolite profile of faecal water containing medium when incubated with actively growing C. difficile cells Two condition experiment. BHIS-FW grown vs BHI-PBS grown cells. Biological replicates: 3 control replicates (BHIS-PBS), 3 experimental replicates (BHIS-FW), 6 x stranded RNAseq lib preps & 3 x MiSeq run performed