Adam, Kolyfetis et al., 2021. Supplementary Data.

Compressed Supplementary Data files for (Adam, Kolyfetis, et al., 2021). File descriptions are given below and in more detail in the readme file.<br><br>Supplementary Data 1<br>Data regarding all DUF phylogenies (taxonomic distributions, HMM profiles, homology search outfiles with and without e-value threshold, alignments, trimmed alignments, phylogeny runs), plus local genome database records.<br><br>Supplementary Data 2Data regarding methanogenesis markers phylogenies from (Borrel et al., 2019) (HMM profiles, DIAMOND seed sequences, homology search outfiles with and without e-value threshold, alignments, trimmed alignments, and phylogeny runs).<br><br>Supplementary Data 3<br>Data regarding congruence tests and the supermatrix phylogeny of Mcr.<br><br>Supplementary Data 4<br>Data regarding congruence tests and the supermatrix phylogeny of Mtr.<br><br>Supplementary Data 5<br>Data regarding the phylogenetic runs for the taxonomic placement of NRA7 (Archaeoglobi) and Bathyarchaeota metagenomic bins. Also data regarding AAI/ANI, biogeography, and 16S analyses, plus CheckM outfiles.<br><br>Supplementary Data 6<br>Data regarding the results of the metabolic prediction (BlastKOALA/dbCAN2/HydDB/MEROPS) for the genomes studied.<br><br>Supplementary Data 7<br>Data regarding methanogenesis marker phylogenies from (Gao &amp; Gupta, 2007) and phylogenies of Wood-Ljungdahl pathway and methyltransferase proteins (HMM profiles, DIAMOND seed sequences, homology search outfiles with and without e-value threshold, alignments, trimmed alignments, and phylogeny runs).<br><br>Supplementary Data 8<br>Data regarding phylogenies of additional Eha, Ehb and Hcg proteins (HMM profiles, DIAMOND seed sequences, homology search outfiles with and without e-value threshold, alignments, trimmed alignments, and phylogeny runs).<br><br>Supplementary Data 9<br>Data regarding congruence tests and the supermatrix phylogenies of the Hcg proteins.<br>Supplementary Data 10<br>Data regarding congruence tests and the supermatrix phylogeny of Eha.<br><br>Supplementary Data 11<br>Data regarding congruence tests and the supermatrix phylogenies of Ehb.<br><br>Supplementary Data 12<br>Data regarding all rooting analyses on the supermatrices and the methyltransferases genes.<br><br>Supplementary Data 13<br>Data regarding gene and site concordance factor calculations for all supermatrices.<br><br>Supplementary Data 14<br>Data regarding site-specific rate calculations, benchmarks, and all related statistical tests. Transmembrane segment prediction runs and statistical tests for their relationship eith site-specific rates.<br><br>Supplementary Data 15<br>Data regarding all Ancestral Sequence Reconstruction runs, homology searches of the ancestral sequences, trimmed ancestral sequences, and homology modeling of McrA.<br><br>