Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains.
Microbes hold the key to life. They hold the secrets to our past (as the descendants of the earliest forms of life) and the prospects for our future (as we mine their genes for solutions to some of the planet's most pressing problems, from global warming to antibiotic resistance). However, the...
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2014
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oai:doaj.org-article:6c5f121a06c94e9989d2f977c58a9ba22021-11-25T05:33:00ZGenomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains.1544-91731545-788510.1371/journal.pbio.1001920https://doaj.org/article/6c5f121a06c94e9989d2f977c58a9ba22014-08-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/25093819/pdf/?tool=EBIhttps://doaj.org/toc/1544-9173https://doaj.org/toc/1545-7885Microbes hold the key to life. They hold the secrets to our past (as the descendants of the earliest forms of life) and the prospects for our future (as we mine their genes for solutions to some of the planet's most pressing problems, from global warming to antibiotic resistance). However, the piecemeal approach that has defined efforts to study microbial genetic diversity for over 20 years and in over 30,000 genome projects risks squandering that promise. These efforts have covered less than 20% of the diversity of the cultured archaeal and bacterial species, which represent just 15% of the overall known prokaryotic diversity. Here we call for the funding of a systematic effort to produce a comprehensive genomic catalog of all cultured Bacteria and Archaea by sequencing, where available, the type strain of each species with a validly published name (currently∼11,000). This effort will provide an unprecedented level of coverage of our planet's genetic diversity, allow for the large-scale discovery of novel genes and functions, and lead to an improved understanding of microbial evolution and function in the environment.Nikos C KyrpidesPhilip HugenholtzJonathan A EisenTanja WoykeMarkus GökerCharles T ParkerRudolf AmannBrian J BeckPatrick S G ChainJongsik ChunRita R ColwellAntoine DanchinPeter DawyndtTom DedeurwaerdereEdward F DeLongJohn C DetterPaul De VosTimothy J DonohueXiu-Zhu DongDusko S EhrlichClaire FraserRichard GibbsJack GilbertPaul GilnaFrank Oliver GlöcknerJanet K JanssonJay D KeaslingRob KnightDavid LabedaAlla LapidusJung-Sook LeeWen-Jun LiJuncai MaVictor MarkowitzEdward R B MooreMark MorrisonFolker MeyerKaren E NelsonMoriya OhkumaChristos A OuzounisNorman PaceJulian ParkhillNan QinRamon Rossello-MoraJohannes SikorskiDavid SmithMitch SoginRick StevensUli StinglKen-Ichiro SuzukiDorothea TaylorJim M TiedjeBrian TindallMichael WagnerGeorge WeinstockJean WeissenbachOwen WhiteJun WangLixin ZhangYu-Guang ZhouDawn FieldWilliam B WhitmanGeorge M GarrityHans-Peter KlenkPublic Library of Science (PLoS)articleBiology (General)QH301-705.5ENPLoS Biology, Vol 12, Iss 8, p e1001920 (2014) |
| institution |
DOAJ |
| collection |
DOAJ |
| language |
EN |
| topic |
Biology (General) QH301-705.5 |
| spellingShingle |
Biology (General) QH301-705.5 Nikos C Kyrpides Philip Hugenholtz Jonathan A Eisen Tanja Woyke Markus Göker Charles T Parker Rudolf Amann Brian J Beck Patrick S G Chain Jongsik Chun Rita R Colwell Antoine Danchin Peter Dawyndt Tom Dedeurwaerdere Edward F DeLong John C Detter Paul De Vos Timothy J Donohue Xiu-Zhu Dong Dusko S Ehrlich Claire Fraser Richard Gibbs Jack Gilbert Paul Gilna Frank Oliver Glöckner Janet K Jansson Jay D Keasling Rob Knight David Labeda Alla Lapidus Jung-Sook Lee Wen-Jun Li Juncai Ma Victor Markowitz Edward R B Moore Mark Morrison Folker Meyer Karen E Nelson Moriya Ohkuma Christos A Ouzounis Norman Pace Julian Parkhill Nan Qin Ramon Rossello-Mora Johannes Sikorski David Smith Mitch Sogin Rick Stevens Uli Stingl Ken-Ichiro Suzuki Dorothea Taylor Jim M Tiedje Brian Tindall Michael Wagner George Weinstock Jean Weissenbach Owen White Jun Wang Lixin Zhang Yu-Guang Zhou Dawn Field William B Whitman George M Garrity Hans-Peter Klenk Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains. |
| description |
Microbes hold the key to life. They hold the secrets to our past (as the descendants of the earliest forms of life) and the prospects for our future (as we mine their genes for solutions to some of the planet's most pressing problems, from global warming to antibiotic resistance). However, the piecemeal approach that has defined efforts to study microbial genetic diversity for over 20 years and in over 30,000 genome projects risks squandering that promise. These efforts have covered less than 20% of the diversity of the cultured archaeal and bacterial species, which represent just 15% of the overall known prokaryotic diversity. Here we call for the funding of a systematic effort to produce a comprehensive genomic catalog of all cultured Bacteria and Archaea by sequencing, where available, the type strain of each species with a validly published name (currently∼11,000). This effort will provide an unprecedented level of coverage of our planet's genetic diversity, allow for the large-scale discovery of novel genes and functions, and lead to an improved understanding of microbial evolution and function in the environment. |
| format |
article |
| author |
Nikos C Kyrpides Philip Hugenholtz Jonathan A Eisen Tanja Woyke Markus Göker Charles T Parker Rudolf Amann Brian J Beck Patrick S G Chain Jongsik Chun Rita R Colwell Antoine Danchin Peter Dawyndt Tom Dedeurwaerdere Edward F DeLong John C Detter Paul De Vos Timothy J Donohue Xiu-Zhu Dong Dusko S Ehrlich Claire Fraser Richard Gibbs Jack Gilbert Paul Gilna Frank Oliver Glöckner Janet K Jansson Jay D Keasling Rob Knight David Labeda Alla Lapidus Jung-Sook Lee Wen-Jun Li Juncai Ma Victor Markowitz Edward R B Moore Mark Morrison Folker Meyer Karen E Nelson Moriya Ohkuma Christos A Ouzounis Norman Pace Julian Parkhill Nan Qin Ramon Rossello-Mora Johannes Sikorski David Smith Mitch Sogin Rick Stevens Uli Stingl Ken-Ichiro Suzuki Dorothea Taylor Jim M Tiedje Brian Tindall Michael Wagner George Weinstock Jean Weissenbach Owen White Jun Wang Lixin Zhang Yu-Guang Zhou Dawn Field William B Whitman George M Garrity Hans-Peter Klenk |
| author_facet |
Nikos C Kyrpides Philip Hugenholtz Jonathan A Eisen Tanja Woyke Markus Göker Charles T Parker Rudolf Amann Brian J Beck Patrick S G Chain Jongsik Chun Rita R Colwell Antoine Danchin Peter Dawyndt Tom Dedeurwaerdere Edward F DeLong John C Detter Paul De Vos Timothy J Donohue Xiu-Zhu Dong Dusko S Ehrlich Claire Fraser Richard Gibbs Jack Gilbert Paul Gilna Frank Oliver Glöckner Janet K Jansson Jay D Keasling Rob Knight David Labeda Alla Lapidus Jung-Sook Lee Wen-Jun Li Juncai Ma Victor Markowitz Edward R B Moore Mark Morrison Folker Meyer Karen E Nelson Moriya Ohkuma Christos A Ouzounis Norman Pace Julian Parkhill Nan Qin Ramon Rossello-Mora Johannes Sikorski David Smith Mitch Sogin Rick Stevens Uli Stingl Ken-Ichiro Suzuki Dorothea Taylor Jim M Tiedje Brian Tindall Michael Wagner George Weinstock Jean Weissenbach Owen White Jun Wang Lixin Zhang Yu-Guang Zhou Dawn Field William B Whitman George M Garrity Hans-Peter Klenk |
| author_sort |
Nikos C Kyrpides |
| title |
Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains. |
| title_short |
Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains. |
| title_full |
Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains. |
| title_fullStr |
Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains. |
| title_full_unstemmed |
Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains. |
| title_sort |
genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains. |
| publisher |
Public Library of Science (PLoS) |
| publishDate |
2014 |
| url |
https://doaj.org/article/6c5f121a06c94e9989d2f977c58a9ba2 |
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