Genomic Encyclopedia of Bacteria and Archaea: Sequencing a Myriad of Type Strains

Handle URI:
http://hdl.handle.net/10754/334608
Title:
Genomic Encyclopedia of Bacteria and Archaea: Sequencing a Myriad of Type Strains
Authors:
Kyrpides, Nikos C.; Hugenholtz, Philip; Eisen, Jonathan A.; Woyke, Tanja; Göker, Markus; Parker, Charles T.; Amann, Rudolf; Beck, Brian J.; Chain, Patrick S. G.; Chun, Jongsik; Colwell, Rita R.; Danchin, Antoine; Dawyndt, Peter; Dedeurwaerdere, Tom; DeLong, Edward F.; Detter, John C.; De Vos, Paul; Donohue, Timothy J.; Dong, Xiu-Zhu; Ehrlich, Dusko S.; Fraser, Claire; Gibbs, Richard; Gilbert, Jack; Gilna, Paul; Glöckner, Frank Oliver; Jansson, Janet K.; Keasling, Jay D.; Knight, Rob; Labeda, David; Lapidus, Alla; Lee, Jung-Sook; Li, Wen-Jun; MA, Juncai; Markowitz, Victor; Moore, Edward R. B.; Morrison, Mark; Meyer, Folker; Nelson, Karen E.; Ohkuma, Moriya; Ouzounis, Christos A.; Pace, Norman; Parkhill, Julian; Qin, Nan; Rossello-Mora, Ramon; Sikorski, Johannes; Smith, David; Sogin, Mitch; Stevens, Rick; Stingl, Ulrich ( 0000-0002-0684-2597 ) ; Suzuki, Ken-ichiro; Taylor, Dorothea; Tiedje, Jim M.; Tindall, Brian; Wagner, Michael; Weinstock, George; Weissenbach, Jean; White, Owen; Wang, Jun; Zhang, Lixin; Zhou, Yu-Guang; Field, Dawn; Whitman, William B.; Garrity, George M.; Klenk, Hans Peter
Abstract:
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.
KAUST Department:
Red Sea Research Center (RSRC)
Citation:
Kyrpides NC, Hugenholtz P, Eisen JA, Woyke T, Gker M, et al. (2014) Genomic Encyclopedia of Bacteria and Archaea: Sequencing a Myriad of Type Strains. PLoS Biology 12: e1001920. doi:10.1371/journal.pbio.1001920.
Publisher:
Public Library of Science
Journal:
PLoS Biology
Issue Date:
5-Aug-2014
DOI:
10.1371/journal.pbio.1001920
PubMed ID:
25093819
PubMed Central ID:
PMC4122341
Type:
Article
ISSN:
1544-9173
Appears in Collections:
Articles; Red Sea Research Center (RSRC)

Full metadata record

DC FieldValue Language
dc.contributor.authorKyrpides, Nikos C.en
dc.contributor.authorHugenholtz, Philipen
dc.contributor.authorEisen, Jonathan A.en
dc.contributor.authorWoyke, Tanjaen
dc.contributor.authorGöker, Markusen
dc.contributor.authorParker, Charles T.en
dc.contributor.authorAmann, Rudolfen
dc.contributor.authorBeck, Brian J.en
dc.contributor.authorChain, Patrick S. G.en
dc.contributor.authorChun, Jongsiken
dc.contributor.authorColwell, Rita R.en
dc.contributor.authorDanchin, Antoineen
dc.contributor.authorDawyndt, Peteren
dc.contributor.authorDedeurwaerdere, Tomen
dc.contributor.authorDeLong, Edward F.en
dc.contributor.authorDetter, John C.en
dc.contributor.authorDe Vos, Paulen
dc.contributor.authorDonohue, Timothy J.en
dc.contributor.authorDong, Xiu-Zhuen
dc.contributor.authorEhrlich, Dusko S.en
dc.contributor.authorFraser, Claireen
dc.contributor.authorGibbs, Richarden
dc.contributor.authorGilbert, Jacken
dc.contributor.authorGilna, Paulen
dc.contributor.authorGlöckner, Frank Oliveren
dc.contributor.authorJansson, Janet K.en
dc.contributor.authorKeasling, Jay D.en
dc.contributor.authorKnight, Roben
dc.contributor.authorLabeda, Daviden
dc.contributor.authorLapidus, Allaen
dc.contributor.authorLee, Jung-Sooken
dc.contributor.authorLi, Wen-Junen
dc.contributor.authorMA, Juncaien
dc.contributor.authorMarkowitz, Victoren
dc.contributor.authorMoore, Edward R. B.en
dc.contributor.authorMorrison, Marken
dc.contributor.authorMeyer, Folkeren
dc.contributor.authorNelson, Karen E.en
dc.contributor.authorOhkuma, Moriyaen
dc.contributor.authorOuzounis, Christos A.en
dc.contributor.authorPace, Normanen
dc.contributor.authorParkhill, Julianen
dc.contributor.authorQin, Nanen
dc.contributor.authorRossello-Mora, Ramonen
dc.contributor.authorSikorski, Johannesen
dc.contributor.authorSmith, Daviden
dc.contributor.authorSogin, Mitchen
dc.contributor.authorStevens, Ricken
dc.contributor.authorStingl, Ulrichen
dc.contributor.authorSuzuki, Ken-ichiroen
dc.contributor.authorTaylor, Dorotheaen
dc.contributor.authorTiedje, Jim M.en
dc.contributor.authorTindall, Brianen
dc.contributor.authorWagner, Michaelen
dc.contributor.authorWeinstock, Georgeen
dc.contributor.authorWeissenbach, Jeanen
dc.contributor.authorWhite, Owenen
dc.contributor.authorWang, Junen
dc.contributor.authorZhang, Lixinen
dc.contributor.authorZhou, Yu-Guangen
dc.contributor.authorField, Dawnen
dc.contributor.authorWhitman, William B.en
dc.contributor.authorGarrity, George M.en
dc.contributor.authorKlenk, Hans Peteren
dc.date.accessioned2014-11-11T14:31:51Z-
dc.date.available2014-11-11T14:31:51Z-
dc.date.issued2014-08-05en
dc.identifier.citationKyrpides NC, Hugenholtz P, Eisen JA, Woyke T, Gker M, et al. (2014) Genomic Encyclopedia of Bacteria and Archaea: Sequencing a Myriad of Type Strains. PLoS Biology 12: e1001920. doi:10.1371/journal.pbio.1001920.en
dc.identifier.issn1544-9173en
dc.identifier.pmid25093819en
dc.identifier.doi10.1371/journal.pbio.1001920en
dc.identifier.urihttp://hdl.handle.net/10754/334608en
dc.description.abstractMicrobes 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.en
dc.language.isoenen
dc.publisherPublic Library of Scienceen
dc.rightsThis is an open-access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.en
dc.rightsArchived with thanks to PLoS Biologyen
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/en
dc.titleGenomic Encyclopedia of Bacteria and Archaea: Sequencing a Myriad of Type Strainsen
dc.typeArticleen
dc.contributor.departmentRed Sea Research Center (RSRC)en
dc.identifier.journalPLoS Biologyen
dc.identifier.pmcidPMC4122341en
dc.eprint.versionPublisher's Version/PDFen
dc.contributor.affiliationKing Abdullah University of Science and Technology (KAUST)en

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