Fig. 5: Genomic relatedness (a), phylogenetic placement (b), and distribution of tungstoenzymes (c) in the family Wolframiiraptoraceae.

a Average amino acid identity (AAI) among designated type genomes for species-level groups within the family Wolframiiraptoraceae. The same color scheme used in b is used for taxa indicated with numbers. For full ANI and AAI matrices of the respective genera, see Supplementary Data 4. b A maximum-likelihood phylogeny was inferred from the concatenated, partitioned sequence alignment of 122 conserved archaeal marker sequences (ar122). Appropriate evolutionary models were applied for each partition. Branch support for the phylogeny was inferred from 1000 pseudoreplicates, using traditional bootstrapping and supported branches are indicated with filled circles at nodes. Species-level groups, as supported by phylogenetics, average nucleotide identity (ANI), and relative evolutionary divergence are indicated with different colors, with species belonging to the same genus indicated in different shades of the same color. Taxon names in bold and indicated with a star are the proposed nomenclatural types for the taxa. Gray taxon names represent medium-quality MAGs that are publicly available. c Summary of gene tree/species tree reconciliation analyses with predicted gains, transfers, and losses, for W-associated enzymes (ABC-type transporter A subunits and W-dependent oxidoreductases) within the family. Hypothesized evolutionary paths for the genes of interest are indicated in the colors used in the dot matrix on the right of the cladogram and numbered according to the dot matrix order. The consensus presence or absence profiles for species with multiple genome sequences available were determined by data as indicated for the majority of genomes in the species. Where genes encoding these proteins are present in some genomes within a taxon, colored dots are partially filled, while fully filled dots in the dot matrix indicate the presence in the majority of the genomes belonging to that taxon. For full ABC-type transporter phylogeny, including KOs K02020, K05772, and K15495, see Supplementary Figs. 10 and Fig. 5, and Supplementary Fig. 7 for phylogenies and structural modeling of W-dependent ferredoxin oxidoreductases.