The All-Species Living Tree' Project is a collaboration between various academic groups/institutes, such as ARB, SILVA rRNA database project, and

LPSN List of Prokaryotic names with Standing in Nomenclature (LPSN) is an online database that maintains information on the naming and taxonomy of prokaryotes, following the taxonomy requirements and rulings of the International Code of Nomenclatu ...

, with the aim of assembling a database of

16S rRNA 16S rRNA may refer to: * 16S ribosomal RNA 16 S ribosomal RNA (or 16 S rRNA) is the RNA component of the 30S subunit of a prokaryotic ribosome ( SSU rRNA). It binds to the Shine-Dalgarno sequence and provides most of the SSU structure. The ...

sequences of all validly published species of ''

Bacteria Bacteria (; singular: bacterium) are ubiquitous, mostly free-living organisms often consisting of one biological cell. They constitute a large domain of prokaryotic microorganisms. Typically a few micrometres in length, bacteria were am ...

'' and '' Archaea''. At one stage,

23S The 23S rRNA is a 2,904 nucleotide long (in ''Escherichia coli, E. coli'') component of the large subunit (50S) of the bacterial/archean ribosome and makes up the peptidyl transferase center (PTC). The 23S rRNA is divided into six secondary st ...

sequences were also collected, but this has since stopped. 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. Similar (and more recent) projects include the Genomic Encyclopedia of Bacteria and Archaea (GEBA), which focused on whole genome sequencing of bacteria and archaea.

Tree

The tree was created by

maximum likelihood In statistics, maximum likelihood estimation (MLE) is a method of estimating the parameters of an assumed probability distribution, given some observed data. This is achieved by maximizing a likelihood function so that, under the assumed sta ...

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 phylogeny is a summary of the 16S rRNA based LTP_01_2022 and contains all type species with validly published names up to January 2022.

Branching order of bacterial phyla (Cavalier-Smith, 2002) There are several models of the Branching order of bacterial phyla, one of these was proposed in 2002 and 2004 by Thomas Cavalier-Smith. In this frame of work, the branching order of the major lineage of bacteria are determined based on some mor ...

Branching order of bacterial phyla (Rappe and Giovanoni, 2003) There are several models of the Branching order of bacterial phyla, the most cited of these was proposed in 1987 paper by Carl Woese. This cladogram was later expanded by Rappé and Giovanoni in 2003 to include newly discovered phyla. Clear na ...

Branching order of bacterial phyla (Battistuzzi et al.,2004) There are several models of the Branching order of bacterial phyla, one of these was proposed in 2004 by Battistuzzi and Hedges, note the coinage of the taxa Terrabacteria and Hydrobacteria. See also * Branching order of bacterial phyla (Woes ...

Branching order of bacterial phyla (Ciccarelli et al., 2006) There are several models of the Branching order of bacterial phyla, one of these was proposed in 2006 by Ciccarelli ''et al.'' for their iTOL project. This tree is based on a concatenated set of conserved protein and not 16S rRNA (cf. Branchi ...

* Branching order of bacterial phyla (Genome Taxonomy Database, 2018) *

Bacterial phyla Bacterial phyla constitute the major lineages of the domain ''Bacteria''. While the exact definition of a bacterial phylum is debated, a popular definition is that a bacterial phylum is a monophyletic lineage of bacteria whose 16S rRNA genes s ...

List of Archaea genera This article lists the genera of the Archaea. The currently accepted taxonomy is based on the List of Prokaryotic names with Standing in Nomenclature (LPSN) and National Center for Biotechnology Information (NCBI). Phylogeny National Center for ...

List of bacteria genera This article lists the genera of the bacteria. The currently accepted taxonomy is based on the List of Prokaryotic names with Standing in Nomenclature (LPSN) and National Center for Biotechnology Information (NCBI). However many taxonomic names are ...

List of bacterial orders This article lists the orders of the Bacteria. The currently accepted taxonomy is based on the List of Prokaryotic names with Standing in Nomenclature (LPSN) and National Center for Biotechnology Information (NCBI) and the phylogeny is based on 16S ...

, list of accepted bacterial and archaeal names

References

External links

* http://www.arb-silva.de/projects/living-tree/ {{DEFAULTSORT:All-Species Living Tree Project Bacteria Bacteriology Microbiology Taxonomy (biology) Systems of bacterial taxonomy