Toward Automatic Reconstruction of a Highly Resolved Tree of Life

by: Francesca D Ciccarelli, Tobias Doerks, Christian von Mering, Christopher J Creevey, Berend Snel, Peer Bork

Science, Vol. 311, No. 5765. (3 March 2006), pp. 1283-1287.

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Abstract

We have developed an automatable procedure for reconstructing the tree of life with branch lengths comparable across all three domains. The tree has its basis in a concatenation of 31 orthologs occurring in 191 species with sequenced genomes. It revealed interdomain discrepancies in taxonomic classification. Systematic detection and subsequent exclusion of products of horizontal gene transfer increased phylogenetic resolution, allowing us to confirm accepted relationships and resolve disputed and preliminary classifications. For example, we place the phylum Acidobacteria as a sister group of delta-Proteobacteria, support a Gram-positive origin of Bacteria, and suggest a thermophilic last universal common ancestor.

@article{citeulike:527948, abstract = {We have developed an automatable procedure for reconstructing the tree of life with branch lengths comparable across all three domains. The tree has its basis in a concatenation of 31 orthologs occurring in 191 species with sequenced genomes. It revealed interdomain discrepancies in taxonomic classification. Systematic detection and subsequent exclusion of products of horizontal gene transfer increased phylogenetic resolution, allowing us to confirm accepted relationships and resolve disputed and preliminary classifications. For example, we place the phylum Acidobacteria as a sister group of {delta}-Proteobacteria, support a Gram-positive origin of Bacteria, and suggest a thermophilic last universal common ancestor.}, author = {Ciccarelli, Francesca D. and Doerks, Tobias and von Mering, Christian and Creevey, Christopher J. and Snel, Berend and Bork, Peer }, citeulike-article-id = {527948}, doi = {http://dx.doi.org/10.1126/science.1123061}, journal = {Science}, keywords = {concatonation, life, phylogeny, reconstruction, tree}, month = {March}, number = {5765}, pages = {1283--1287}, posted-at = {2006-03-21 19:02:31}, priority = {4}, title = {Toward Automatic Reconstruction of a Highly Resolved Tree of Life}, url = {http://dx.doi.org/10.1126/science.1123061}, volume = {311}, year = {2006} }

RIS record

TY - JOUR ID - citeulike:527948 L3 - citeulike-article-id:527948 TI - Toward Automatic Reconstruction of a Highly Resolved Tree of Life JF - Science VL - 311 IS - 5765 SP - 1283 EP - 1287 N2 - We have developed an automatable procedure for reconstructing the tree of life with branch lengths comparable across all three domains. The tree has its basis in a concatenation of 31 orthologs occurring in 191 species with sequenced genomes. It revealed interdomain discrepancies in taxonomic classification. Systematic detection and subsequent exclusion of products of horizontal gene transfer increased phylogenetic resolution, allowing us to confirm accepted relationships and resolve disputed and preliminary classifications. For example, we place the phylum Acidobacteria as a sister group of {delta}-Proteobacteria, support a Gram-positive origin of Bacteria, and suggest a thermophilic last universal common ancestor. KW - concatonation KW - life KW - phylogeny KW - reconstruction KW - tree AU - Ciccarelli, Francesca AU - Doerks, Tobias AU - von Mering, Christian AU - Creevey, Christopher AU - Snel, Berend AU - Bork, Peer PY - 2006/03/03/ UR - http://dx.doi.org/10.1126/science.1123061 ER -

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