'The All-Species Living Tree' Project




'The All-Species Living Tree' Project logo


'The All-Species Living Tree' Project is a collaboration between various academic groups/institutes, such as ARB, SILVA rRNA database project, and LPSN, with the aim of assembling a database of 16S rRNA sequences of all validly published species of Bacteria and Archaea.[1] At one stage, 23S sequences were also collected,[2] but this has since stopped.[3]


Currently there are over 10,950 species in the aligned dataset and several more are being added either as new species are discovered or species that are not represented in the database are sequenced. Initially the latter group consisted of 7% of species.



Tree


See also: Bacterial phyla

The tree was created by maximum likelihood analysis without bootstrap: consequently accuracy is traded off for size and many phylum level clades are not correctly resolved (such as the Firmicutes). (Eukaryotes not present in analysis). This 16S rRNA-based phylogenetic tree is based on the ARB-SILVA release LTPs 121 (June 2015)[4][5] and contains all type species with validly published names.


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Domain Archaea






 

Thaumarchaeota


 
 






 

Crenarchaeota (Thermoprotei)


 

Euryarchaeota






 

Methanopyrus kandleri


 
 






 

Methanococcales


 
 







Eurythermea






 

Thermococcaceae


 
 

Thermoplasmata


 
 

Neobacteria






 

Methanobacteriales


 
 






 

Archaeoglobaceae


 

Halomebacteria






 

Methanomicrobia


 
 

Halobacteriaceae


 
 
 
 
 
 
 
 
 
Domain Bacteria






 

Thermotogales


 
 






 

Thermodesulfobiaceae (Firmicutes)


 
 






 

Synergistaceae Clostridiales Family XV Incertae Sedis (Firmicutes)


 
 






 

Caldisericum exile


 
 






 






 

Thermodesulfobacteriaceae


 
 

Aquificales


 
 
 







Firmicutes






 

Thermaerobacter


 
 






 






 

Caldicellulosiruptor


 
 






 

Thermoanaerobacteraceae


 
 






 

Thermanaeromonas toyohensis


 
 






 

Dictyoglomus


 
 

Thermoanaerobacterales Unnamed clade I (incl. Fervidicola)


 
 
 
 
 
 






 

Thermoanaerobacterales Unnamed clade II


 
 






 






 

Gelria glutamica


 
 






 

Clostridiales Family XVIII Incertae Sedis


 
 

Sulfobacillus


 
 
 
 






 

Clostridia s.s. (incl. Thermolithobacter, Negativicutes & Thermoanaerobacterales Unnamed clade III)


 
 

Bacilli (incl. Erysipelotrichia & Mollicutes)


 
 
 
 
 
 
 






 






 

Actinobacteria


 

Chloroflexi






 






 






 

Thermoflexus hugenholtzii


 
 

Dehalococcoidaceae


 
 
 






 

Caldilineaceae


 
 






 

Ardenticatena maritima


 
 

Anaerolineaceae


 
 
 
 
 






 

Ktedonobacteria


 
 






 

Thermomicrobia


 
 

Chloroflexi


 
 
 
 
 
 






 

Nitrospiraceae


 
 






 

Deinococci


 
 






 

Thermoanaerobaculum aquaticum


 
 






 






 






 






 

Caldithrix


 
 






 

Gemmatimonas aurantiaca


 
 

Fibrobacter


 
 
 

Planctobacteria







Planctomycetes






 

Phycisphaera mikrensis


 
 

Planctomycetales


 
 
 






 

Chlamydiales


 
 







Lentisphaerae






 

Oligosphaera ethanolica


 
 

Lentisphaeria


 
 

Verrucomicrobia






 

Opitutae


 
 

Verrucomicrobiales


 
 
 
 
 
 

Sphingobacteria







Chlorobi






 

Ignavibacteriaceae


 
 

Chlorobiaceae


 
 
 

Bacteroidetes


 
 
 
 







Thiobacteria






 

Deltaproteobacteria


 
 






 

Deferrisoma carnini


 
 






 

Desulfovibrionales


 
 






 

Desulfurellaceae


 
 

Epsilonproteobacteria


 
 
 
 
 
 






 







Acidobacteria






 

Holophagae


 
 






 

Bryobacter aggregatus


 
 

Acidobacteriaceae


 
 
 
 






 






 

Chrysiogenaceae


 
 

Deferribacteraceae


 
 
 






 

Spirochaetales


 
 






 

Fusobacteriales


 
 






 

Elusimicrobium minutum


 
 

Armatimonadetes


 
 
 
 
 
 
 






 

Mariprofundus ferrooxydans


 

Rhodobacteria






 

Alphaproteobacteria


 

Chromatibacteria






 

Gammaproteobacteria (paraphyletic)


 
 

Betaproteobacteria


 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 


References




  1. ^ Yarza, P.; Richter, M.; Peplies, J. R.; Euzeby, J.; Amann, R.; Schleifer, K. H.; Ludwig, W.; Glöckner, F. O.; Rosselló-Móra, R. (2008). "The All-Species Living Tree project: A 16S rRNA-based phylogenetic tree of all sequenced type strains". Systematic and Applied Microbiology. 31 (4): 241–250. doi:10.1016/j.syapm.2008.07.001. PMID 18692976. 


  2. ^ Yarza, Pablo; Ludwig, Wolfgang; Euzéby, Jean; Amann, Rudolf; Schleifer, Karl-Heinz; Glöckner, Frank Oliver; Rosselló-Móra, Ramon (2010). "Update of the All-Species Living Tree Project based on 16S and 23S rRNA sequence analyses". Systematic and Applied Microbiology. 33 (6): 291–299. doi:10.1016/j.syapm.2010.08.001. PMID 20817437. 


  3. ^ Munoz, R. L.; Yarza, P.; Ludwig, W.; Euzéby, J.; Amann, R.; Schleifer, K. H.; Oliver Glöckner, F.; Rosselló-Móra, R. (2011). "Release LTPs104 of the All-Species Living Tree". Systematic and Applied Microbiology. 34 (3): 169–170. doi:10.1016/j.syapm.2011.03.001. PMID 21497273. 


  4. ^ "ARB-SILVA release LTPs 121: overview" (PDF). 


  5. ^ "ARB-SILVA release LTPs 121: full tree" (PDF). 




External links


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