Fig. 1

Phylogenetic based evolutionary history of DJ strains in the genus Clostridium. Species tree was constructed from a concatenated alignment of 175 single-copy panorthologs. Genomes are collapsed into clades if alignments are identical. Clades are highlighted in color if they contain strains from this study and numbers on the clades indicate the number of DJ genomes out of total genomes in the clade. All genomes in the tree that do not have the strain name suffix “DJ” are previously published reference genomes. Genomes that were created in this study have the DJ suffix in the strain name and are shown in bold, collapsed clades that contain DJ strains are shown in bold. C. difficile genomes are included as an outgroup, represented by a small arrowhead. Scale bar indicates substitutions per site. Bootstrap support values of below 100 are shown at the branches.