Systems biology analysis of the Clostridioides difficile core-genome contextualizes microenvironmental evolutionary pressures leading to genotypic and phenotypic divergence

摘要

The Savidge 630, Britton 630, and Britton 630Δerm are represented by red, green, and blue respectively. (A) Heat map of the maximal OD620 of C. difficile strains in Biolog phenotype microarray plates for which the fold change among the strains had the greatest standard deviation between the strains. Selected carbon substrates supporting differential fold change are shown. (n = 3 biological replicates per strain). (B) Venn diagram of 190 carbon substrates tested. All three strains shared 158 growth phenotypes, while 21 phenotypes were shared between Savidge 630 and Britton 630, 9 between Britton 630 and Britton 630Δerm, and 2 phenotypes between Britton 630Δerm and Savidge 630. (C) Venn diagram detailing the identified gene deletions of each strain versus the reference sequence. (D) Venn diagram detailing mutations of each strain versus the reference sequence.