Figure 2: Phylogenetic trees for the archaeal (green lines; top left) and bacterial (blue lines; bottom right) domains based on 122 and 120 single-copy marker genes, respectively.

The clades represented by the triangles are collapsed at the phylum (P) level except for phyla containing genomes from this study which are expanded at the class (C) level and highlighted in red. Certain phyla have genome representatives only at the phylum level (Thaumarchaeota, Marinimicrobia, Cyanobacteria, and Bdellovibrionaeota). Numbers in parentheses indicate the count of recovered genomes from a particular taxonomic level. Dashed lines indicate nodes for class level. Robustness of the tree is indicated by black circles (size of circles scaled from 80 to 100% bootstrap support values). Trees were inferred independently. The archaeal tree was rooted with the DPANN superphylum⁹ while the bacterial tree was ‘arbitrarily’ rooted with the phylum Chloroflexi⁴² but should be treated as unrooted.