A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea

Wu, Dongying, Hugenholtz, Philip, Mavromatis, Konstantinos, Pukall, Ru¨diger, Dalin, Eileen, Ivanova, Natalia N., Kunin, Victor, Goodwin, Lynne, Wu, Martin, Tindall, Brian J., Hooper, Sean D., Pati, Amrita, Lykidis, Athanasios, Spring, Stefan, Anderson, Iain J., D'haeseleer, Patrik, Zemla, Adam, Singer, Mitchell, Lapidus, Alla, Nolan, Matt, Copeland, Alex, Han, Cliff, Chen, Feng, Cheng, Jan-Fang, Lucas, Susan, Kerfeld, Cheryl, Lang, Elke, Gronow, Sabine, Chain, Patrick, Bruce, David, Rubin, Edward M., Kyrpides, Nikos C., Klenk, Hans-Peter and Elsen, Jonathan A. (2009) A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea. Nature, 462 7276: 1056-1060. doi:10.1038/nature08656

Author Wu, Dongying
Hugenholtz, Philip
Mavromatis, Konstantinos
Pukall, Ru¨diger
Dalin, Eileen
Ivanova, Natalia N.
Kunin, Victor
Goodwin, Lynne
Wu, Martin
Tindall, Brian J.
Hooper, Sean D.
Pati, Amrita
Lykidis, Athanasios
Spring, Stefan
Anderson, Iain J.
D'haeseleer, Patrik
Zemla, Adam
Singer, Mitchell
Lapidus, Alla
Nolan, Matt
Copeland, Alex
Han, Cliff
Chen, Feng
Cheng, Jan-Fang
Lucas, Susan
Kerfeld, Cheryl
Lang, Elke
Gronow, Sabine
Chain, Patrick
Bruce, David
Rubin, Edward M.
Kyrpides, Nikos C.
Klenk, Hans-Peter
Elsen, Jonathan A.
Title A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea
Journal name Nature   Check publisher's open access policy
ISSN 0028-0836
Publication date 2009-12-24
Year available 2009
Sub-type Article (original research)
DOI 10.1038/nature08656
Open Access Status Not yet assessed
Volume 462
Issue 7276
Start page 1056
End page 1060
Total pages 5
Place of publication London, United Kingdom
Publisher Nature Publishing Group
Language eng
Abstract Sequencing of bacterial and archaeal genomes has revolutionized our understanding of the many roles played by microorganisms. There are now nearly 1,000 completed bacterial and archaeal genomes available, most of which were chosen for sequencing on the basis of their physiology. As a result, the perspective provided by the currently available genomes is limited by a highly biased phylogenetic distribution. To explore the value added by choosing microbial genomes for sequencing on the basis of their evolutionary relationships, we have sequenced and analysed the genomes of 56 culturable species of Bacteria and Archaea selected to maximize phylogenetic coverage. Analysis of these genomes demonstrated pronounced benefits (compared to an equivalent set of genomes randomly selected from the existing database) in diverse areas including the reconstruction of phylogenetic history, the discovery of new protein families and biological properties, and the prediction of functions for known genes from other organisms. Our results strongly support the need for systematic phylogenomic efforts to compile a phylogeny-driven Genomic Encyclopedia of Bacteria and Archaea in order to derive maximum knowledge from existing microbial genome data as well as from genome sequences to come. © 2009 Macmillan Publishers Limited. All rights reserved.
Keyword Multidisciplinary Sciences
Science & Technology - Other Topics
Q-Index Code C1
Q-Index Status Provisional Code
Grant ID DE-AC02-05CH11231
Institutional Status Non-UQ
Additional Notes Published under Letters

Document type: Journal Article
Sub-type: Article (original research)
Collection: Institute for Molecular Bioscience - Publications
Version Filter Type
Citation counts: TR Web of Science Citation Count  Cited 601 times in Thomson Reuters Web of Science Article | Citations
Scopus Citation Count Cited 652 times in Scopus Article | Citations
Google Scholar Search Google Scholar
Created: Thu, 24 Mar 2011, 21:07:38 EST by Susan Allen on behalf of Institute for Molecular Bioscience