BACTERIA,,,,,,,
Phylum,Family,Genus,Genomes,Putative TIR Domains,Genome sequencing projects (per phylum),%genomes with TIR,Figure II classification
Acidobacteria,Acidobacteriaceae,n/a,1,3,,,
,Solibacteraceae,Solibacter,1,7,,,
Total Acidobacteria,,,2,10,5,40,Occasionally
Actinobacteria,Coriobacteriaceae,Collinsella,2,2,,,
,Corynebacteriaceae,Corynebacterium,1,1,,,
,Frankiaceae,Frankia,3,60,,,
,Micrococcaceae,Arthrobacter,4,4,,,
,Micromonosporaceae,Salinispora,1,2,,,
,Mycobacteriaceae,Mycobacterium,2,2,,,
,Nocardiaceae,Rhodococcus,1,4,,,
,Nocardioidaceae,Nocardioides,1,2,,,
,Nocardiopsaceae,Thermobifida,1,1,,,
,Pseudonocardiaceae,Saccharopolyspora,1,1,,,
,Streptomycetaceae,Streptomyces,24,49,,,
,n/a,n/a,1,1,,,
Total Actinobacteria,,,42,129,269,15.6133829,Occasionally
Aquificae,Aquificaceae,Hydrogenivirga,1,1,,,
Total Aquificae,,,1,1,11,9.090909091,Rarely
Bacteroidetes,Bacteroidaceae,Bacteroides,9,11,,,
,Cyclobacteriaceae,Algoriphagus,3,3,,,
,Flavobacteriaceae,Kordia,1,1,,,
,,Polaribacter,1,1,,,
,,Psychroflexus,4,5,,,
,,Robiginitalea,1,1,,,
,Flexibacteraceae,Cytophaga,1,1,,,
,,Microscilla,2,3,,,
,Porphyromonadaceae,Parabacteroides,1,1,,,
,,Porphyromonas,2,4,,,
,Rikenellaceae,Alistipes,1,1,,,
,Sphingobacteriaceae,Pedobacter,1,1,,,
,n/a,n/a,2,2,,,
Total Bacteroidetes,,,29,35,118,24.57627119,Occasionally
Chlorobi,Chlorobiaceae,Chlorobaculum ,1,7,,,
,,Chlorobium ,3,22,,,
,,Chloroherpeton ,1,4,,,
,,Pelodictyon ,1,27,,,
,,Prosthecochloris ,1,18,,,
Total Chlorobi,,,7,78,12,58.33333333,Often
Chloroflexi,Chloroflexaceae,Chloroflexus,2,3,,,
Total Chloroflexi,,,2,3,21,9.523809524,Rarely
Cyanobacteria,Nostocaceae,Anabaena,1,4,,,
,,Nodularia,5,5,,,
,,Nostoc,11,27,,,
,Prochlorococcaceae,Prochlorococcus,1,1,,,
,n/a,Acaryochloris,3,10,,,
,,Crocosphaera,1,1,,,
,,Cyanothece,38,83,,,
,,Gloeobacter,1,1,,,
,,Lyngbya,1,1,,,
,,Microcystis,1,6,,,
,,Synechococcus,4,6,,,
,,Synechocystis,1,1,,,
,,Thermosynechococcus,1,1,,,
,,Trichodesmium,1,1,,,
Total Cyanobacteria,,,70,148,77,90.90909091,Often
Deinococcus-Thermus,Thermaceae,Thermus,2,2,,,
Total Deinococcus-Thermus,,,2,2,14,14.28571429,Occasionally
Firmicutes,Bacillaceae,Bacillus,15,15,,,
,,Geobacillus,2,2,,,
,Clostridiaceae,Alkaliphilus,1,1,,,
,,Clostridium,31,48,,,
,Enterococcaceae,Enterococcus,2,3,,,
,Erysipelotrichaceae,n/a,2,3,,,
,Eubacteriaceae,Anaerofustis,1,2,,,
,,Eubacterium,3,4,,,
,Halanaerobiaceae,Halothermothrix,1,1,,,
,Lachnospiraceae,Coprococcus,1,3,,,
,,Dorea,4,5,,,
,,Roseburia,1,1,,,
,Lactobacillaceae,Lactobacillus,1,1,,,
,Leuconostocaceae,Leuconostoc,1,2,,,
,Listeriaceae,Listeria,1,1,,,
,Peptococcaceae,Desulfitobacterium,3,4,,,
,Ruminococcaceae,Anaerotruncus,3,3,,,
,,Faecalibacterium,1,1,,,
,,Ruminococcus,2,2,,,
,Staphylococcaceae,Staphylococcus,2,2,,,
,Streptococcaceae,Streptococcus,3,3,,,
,Syntrophomonadaceae,Syntrophomonas,1,1,,,
,Veillonellaceae,Mitsuokella,1,1,,,
Total Firmicutes,,,83,109,643,12.90824261,Occasionally
Fusobacteria,Fusobacteriaceae,Fusobacterium,3,3,,,
Total Fusobacteria,,,3,3,28,10.71428571,Occasionally
Planctomycetes,Planctomycetaceae,Gemmata,1,1,,,
,,Planctomyces,3,3,,,
,,Rhodopirellula,1,5,,,
Total Planctomycetes,,,5,9,10,50,Often
Proteobacteria,Acetobacteraceae,Gluconacetobacter,2,2,,,
,Acidithiobacillaceae,Acidithiobacillus,1,1,,,
,Aeromonadaceae,Aeromonas,1,1,,,
,Alcaligenaceae,Bordetella,1,2,,,
,Alteromonadaceae,Marinobacter,2,2,,,
,,Saccharophagus,1,2,,,
,Aurantimonadaceae,Aurantimonas,1,1,,,
,Bartonellaceae,Bartonella,2,2,,,
,Beijerinckiaceae,Beijerinckia,2,4,,,
,Bradyrhizobiaceae,Bradyrhizobium,3,8,,,
,,Nitrobacter,3,4,,,
,,Oligotropha,2,2,,,
,,Rhodopseudomonas,6,10,,,
,Brucellaceae,Brucella,6,9,,,
,Burkholderiaceae,Burkholderia,11,12,,,
,,Ralstonia,2,2,,,
,Campylobacteraceae,Campylobacter,1,1,,,
,Caulobacteraceae,Caulobacter,2,3,,,
,Chromatiaceae,Nitrosococcus,1,1,,,
,Colwelliaceae,Colwellia,1,3,,,
,Comamonadaceae,Acidovorax,2,5,,,
,,Diaphorobacter,1,2,,,
,,Polaromonas,2,4,,,
,,Rhodoferax,1,3,,,
,Cystobacteraceae,Stigmatella,3,3,,,
,Desulfobacteraceae,Desulfatibacillum,3,4,,,
,,Desulfococcus,1,2,,,
,Desulfobulbaceae,Desulfotalea,1,1,,,
,Desulfovibrionaceae,Desulfovibrio,2,2,,,
,Desulfuromonadaceae,Desulfuromonas,1,1,,,
,Ectothiorhodospiraceae,Nitrococcus,1,1,,,
,Enterobacteriaceae,Escherichia,4,4,,,
,,Klebsiella,1,1,,,
,,Pectobacterium,1,1,,,
,,Providencia,1,1,,,
,,Salmonella,8,8,,,
,,Yersinia,5,7,,,
,Erythrobacteraceae,Erythrobacter,6,8,,,
,Geobacteraceae,Geobacter,8,19,,,
,Helicobacteraceae,Helicobacter,6,6,,,
,Hydrogenophilaceae,Thiobacillus,1,2,,,
,Hyphomonadaceae,Hyphomonas,1,2,,,
,,Maricaulis,1,1,,,
,Idiomarinaceae,Idiomarina,1,1,,,
,Mariprofundaceae,Mariprofundus,2,2,,,
,Methylobacteriaceae,Methylobacterium,11,23,,,
,Methylococcaceae,Methylococcus,1,1,,,
,Moraxellaceae,Acinetobacter,2,2,,,
,Moritellaceae,Moritella,2,3,,,
,Myxococcaceae,Anaeromyxobacter,2,6,,,
,,Myxococcus,1,1,,,
,Nannocystaceae,Plesiocystis,3,4,,,
,Neisseriaceae,Chromobacterium,1,1,,,
,Nitrosomonadaceae,Nitrosomonas,1,1,,,
,,Nitrosospira,1,1,,,
,Oxalobacteraceae,Herminiimonas,1,3,,,
,,Janthinobacterium,1,3,,,
,Pasteurellaceae,Actinobacillus,2,4,,,
,,Haemophilus,3,3,,,
,,Histophilus,1,1,,,
,Pelobacteraceae,Pelobacter,1,3,,,
,Phyllobacteriaceae,Parvibaculum,1,1,,,
,Piscirickettsiaceae,Thiomicrospira,1,3,,,
,Polyangiaceae,Sorangium,1,10,,,
,Pseudoalteromonadaceae,Pseudoalteromonas,4,6,,,
,Pseudomonadaceae,Pseudomonas,6,8,,,
,Psychromonadaceae,Psychromonas,1,2,,,
,Rhizobiaceae,Agrobacterium,1,1,,,
,,Rhizobium,4,7,,,
,,Sinorhizobium,2,2,,,
,Rhodobacteraceae,Paracoccus,1,1,,,
,,Rhodobacter,2,3,,,
,,Roseovarius,2,3,,,
,Rhodocyclaceae,Azoarcus,1,4,,,
,,Dechloromonas,1,5,,,
,,Thauera,4,6,,,
,Rhodospirillaceae,Magnetospirillum,1,2,,,
,,Rhodospirillum,1,1,,,
,Shewanellaceae,Shewanella,12,23,,,
,Sphingomonadaceae,Sphingomonas,2,3,,,
,,Zymomonas,1,1,,,
,Syntrophaceae,Syntrophus,1,4,,,
,Syntrophobacteraceae,Syntrophobacter,1,1,,,
,Thiotrichaceae,Beggiatoa,2,2,,,
,Vibrionaceae,Aliivibrio,3,3,,,
,,Photobacterium,2,2,,,
,,Vibrio,12,14,,,
,Xanthobacteraceae,Xanthobacter,2,3,,,
,Xanthomonadaceae,Xanthomonas,4,4,,,
,,Xylella,4,4,,,
,n/a,Congregibacter,2,2,,,
,,Endoriftia,1,1,,,
,,Leptothrix,1,3,,,
,,Magnetococcus,1,1,,,
,,Reinekea,2,2,,,
,,Sulfurovum,1,8,,,
,,n/a,5,5,,,
Total Proteobacteria,,,242,374,1062,22.78719397,Occasionally
Spirochaetes,Spirochaetaceae,Treponema,1,2,,,
Total Spirochaetes,,,1,2,52,1.923076923,Rarely
Tenericutes,Entomoplasmataceae,Mesoplasma,1,1,,,
,Mycoplasmataceae,Mycoplasma,2,2,,,
Total Tenericutes,,,3,3,9,33.33333333,Occasionally
Verrucomicrobia,Opitutaceae,Opitutus,1,3,,,
,Verrucomicrobia subdivision 3,n/a,3,3,,,
,Verrucomicrobiaceae,Verrucomicrobium,1,7,,,
,n/a,Chthoniobacter,3,3,,,
Total Verrucomicrobia,,,8,16,9,88.88888889,Often
Total Bacteria,,,500,922,2416,20.69536424,
,,,,,,,
ARCHAEA,,,,,,,
Phylum,Family,Genus,Genomes,Putative TIR Domains,Genome sequencing projects (per phylum),,
Crenarchaeota,Thermofilaceae,Thermofilum,1,1,,,
Total Crenarchaeota,,,1,1,46,2.173913043,Rarely
Euryarchaeota,Methanosarcinaceae,Methanococcoides,1,1,,,
Euryarchaeota,,Methanococcoides,1,1,,,
Euryarchaeota,,Methanosarcina,1,1,,,
Total Euryarchaeota,,,3,3,94,3.191489362,Rarely
Uncultured,n/a,n/a,2,2,,,
Total Archaea,,,6,7,142,4.225352113,Rarely
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