Phylogenomic and pangenome analyses of Methylophilaceae; (A) phylogenomic maximum likelihood tree of genomes used in this study; the tree was constructed with IQ-TREE with ultrafast bootstrapping using 851 common proteins; seven Methylotenera spp. genomes were used to root the tree; numbers in brackets indicate the number of genomes in each collapsed branch; a full version of this tree can be found as Fig. S1; (B) pangenome analysis of the three “Ca. Methylopumilus” and OM43 species. Symbols represent the core (diamonds) and pangenome (circles) on a species level; OM43-a was not included in this analysis due to the availability of only one genome.