Fig. 2

Whole-sequence comparison of 71 plasmid CCs and structure of six crAssphage linear genomes. a Dendrogram of 71 plasmid CCs and 114 known plasmids that were relatively abundant in the human gut (see the “Methods” section). The phyla are shown in different colours (green for Firmicutes, purple for Actinobacteria, red for Proteobacteria, blue for Bacteroidetes, yellow for other phyla and grey for unknown hosts). Red squares in the outer circle indicate the plasmid CCs newly identified in this study. Blue circles on the edges show the presence of antibiotic resistance genes. b Putative genes shown by pentagons in the linearized genomes of five crAssphages identified in this study and NC_024711.1 [32]. The conserved genes are connected by grey rectangles, of which shades indicate the degree of sequence similarity between them. The left dendrogram shows a clustering of the six genomes based on overall similarity. To show the degree of conservation of each putative gene in the six genomes, six different colours are used. Brown genes are unique to only one genome, while blue genes are shared in common by all genomes. The red boxes at the ends indicate TDRs in the linear genomes