Genomic analysis of three Clostridioides difficile isolates from urban water sources

We investigated inflow of a wastewater treatment plant and sediment of an urban lake for the presence of Clostridioides difficile by cultivation and PCR. Among seven colonies we sequenced the complete genomes of three: two non-toxigenic isolates from wastewater and one toxigenic isolate from the urban lake. For all obtained isolates, a close genomic relationship with human-derived isolates was observed. •Toxin-positive C. difficile was isolated from sediment of an urban bathing lake.•Toxin-negative C. difficile strains were obtained from a wastewater treatment plant.•All isolates were highly related to clinical/human strains.