Fig. 2

Phylogenomics of Planctomycetes phyla. The left panel shows accurate whole-genome phylogenies through a maximum likelihood (phylogenomic) tree inferred from 138 genomes (complete and partial). The topology of the tree emphasizes the major phylogenomic groups found in lacustrine habitats (for details regarding tree inference see Methods). The names of the 60 metagenome-assembled genomes (MAGs), obtained in this study, are highlighted in boldface, while the culture-derived genomes (references) and other available MAGs are depicted in italic and roman type, respectively. The strength of support for internal nodes was assessed by performing bootstrap replicates, with the obtained values shown as colored circles (left legend). Ecological data (i.e., habitat of origin = H) and genomic characteristics (coding density = D, genome size = S, and completeness = C) are indicated by colored circles for each branch in the tree (top left legend). The relations between the genomic characteristics (i.e. estimated genome size, coding density, GC content, mean intergenic spacer length, genome completeness) of MAGs (Phycisphaerae and Planctomycetacia MAGs; see vertical taxonomic delineators) and reference Planctomycetes (31 culture-derived genomes) are shown by linear regressions in the 4 insets present in the right part of the figure. The lowermost insert (right side) shows the iRep values for Phycisphaerae (n = 4) and Planctomycetacia (n = 9) MAGs