Phytozome: a comparative platform for green plant genomics
Identifieur interne : 001671 ( Main/Exploration ); précédent : 001670; suivant : 001672Phytozome: a comparative platform for green plant genomics
Auteurs : David M. Goodstein [États-Unis] ; Shengqiang Shu [États-Unis] ; Russell Howson [États-Unis] ; Rochak Neupane [États-Unis] ; Richard D. Hayes [États-Unis] ; Joni Fazo [États-Unis] ; Therese Mitros [États-Unis] ; William Dirks [États-Unis] ; Uffe Hellsten [États-Unis] ; Nicholas Putnam [États-Unis] ; Daniel S. Rokhsar [États-Unis]Source :
- Nucleic Acids Research [ 0305-1048 ] ; 2011.
Abstract
The number of sequenced plant genomes and associated genomic resources is growing rapidly with the advent of both an increased focus on plant genomics from funding agencies, and the application of inexpensive next generation sequencing. To interact with this increasing body of data, we have developed Phytozome (
Url:
DOI: 10.1093/nar/gkr944
PubMed: 22110026
PubMed Central: 3245001
Affiliations:
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Goodstein</name><affiliation wicri:level="2"><nlm:aff wicri:cut=" and" id="gkr944-AFF1">U.S. Department of Energy, Joint Genome Institute, Walnut Creek, CA 94598</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Californie</region></placeName><wicri:cityArea>U.S. Department of Energy, Joint Genome Institute, Walnut Creek</wicri:cityArea></affiliation></author><author><name sortKey="Shu, Shengqiang" sort="Shu, Shengqiang" uniqKey="Shu S" first="Shengqiang" last="Shu">Shengqiang Shu</name><affiliation wicri:level="2"><nlm:aff wicri:cut=" and" id="gkr944-AFF1">U.S. Department of Energy, Joint Genome Institute, Walnut Creek, CA 94598</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Californie</region></placeName><wicri:cityArea>U.S. Department of Energy, Joint Genome Institute, Walnut Creek</wicri:cityArea></affiliation></author><author><name sortKey="Howson, Russell" sort="Howson, Russell" uniqKey="Howson R" first="Russell" last="Howson">Russell Howson</name><affiliation wicri:level="1"><nlm:aff id="gkr944-AFF1">The Center for Integrative Genomics, University of California, Berkeley, California 94720, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>The Center for Integrative Genomics, University of California, Berkeley, California 94720</wicri:regionArea><wicri:noRegion>California 94720</wicri:noRegion></affiliation></author><author><name sortKey="Neupane, Rochak" sort="Neupane, Rochak" uniqKey="Neupane R" first="Rochak" last="Neupane">Rochak Neupane</name><affiliation wicri:level="1"><nlm:aff id="gkr944-AFF1">The Center for Integrative Genomics, University of California, Berkeley, California 94720, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>The Center for Integrative Genomics, University of California, Berkeley, California 94720</wicri:regionArea><wicri:noRegion>California 94720</wicri:noRegion></affiliation></author><author><name sortKey="Hayes, Richard D" sort="Hayes, Richard D" uniqKey="Hayes R" first="Richard D." last="Hayes">Richard D. 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Goodstein</name><affiliation wicri:level="2"><nlm:aff wicri:cut=" and" id="gkr944-AFF1">U.S. Department of Energy, Joint Genome Institute, Walnut Creek, CA 94598</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Californie</region></placeName><wicri:cityArea>U.S. Department of Energy, Joint Genome Institute, Walnut Creek</wicri:cityArea></affiliation></author><author><name sortKey="Shu, Shengqiang" sort="Shu, Shengqiang" uniqKey="Shu S" first="Shengqiang" last="Shu">Shengqiang Shu</name><affiliation wicri:level="2"><nlm:aff wicri:cut=" and" id="gkr944-AFF1">U.S. Department of Energy, Joint Genome Institute, Walnut Creek, CA 94598</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Californie</region></placeName><wicri:cityArea>U.S. Department of Energy, Joint Genome Institute, Walnut Creek</wicri:cityArea></affiliation></author><author><name sortKey="Howson, Russell" sort="Howson, Russell" uniqKey="Howson R" first="Russell" last="Howson">Russell Howson</name><affiliation wicri:level="1"><nlm:aff id="gkr944-AFF1">The Center for Integrative Genomics, University of California, Berkeley, California 94720, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>The Center for Integrative Genomics, University of California, Berkeley, California 94720</wicri:regionArea><wicri:noRegion>California 94720</wicri:noRegion></affiliation></author><author><name sortKey="Neupane, Rochak" sort="Neupane, Rochak" uniqKey="Neupane R" first="Rochak" last="Neupane">Rochak Neupane</name><affiliation wicri:level="1"><nlm:aff id="gkr944-AFF1">The Center for Integrative Genomics, University of California, Berkeley, California 94720, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>The Center for Integrative Genomics, University of California, Berkeley, California 94720</wicri:regionArea><wicri:noRegion>California 94720</wicri:noRegion></affiliation></author><author><name sortKey="Hayes, Richard D" sort="Hayes, Richard D" uniqKey="Hayes R" first="Richard D." last="Hayes">Richard D. Hayes</name><affiliation wicri:level="2"><nlm:aff wicri:cut=" and" id="gkr944-AFF1">U.S. Department of Energy, Joint Genome Institute, Walnut Creek, CA 94598</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Californie</region></placeName><wicri:cityArea>U.S. Department of Energy, Joint Genome Institute, Walnut Creek</wicri:cityArea></affiliation></author><author><name sortKey="Fazo, Joni" sort="Fazo, Joni" uniqKey="Fazo J" first="Joni" last="Fazo">Joni Fazo</name><affiliation wicri:level="2"><nlm:aff wicri:cut=" and" id="gkr944-AFF1">U.S. Department of Energy, Joint Genome Institute, Walnut Creek, CA 94598</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Californie</region></placeName><wicri:cityArea>U.S. Department of Energy, Joint Genome Institute, Walnut Creek</wicri:cityArea></affiliation></author><author><name sortKey="Mitros, Therese" sort="Mitros, Therese" uniqKey="Mitros T" first="Therese" last="Mitros">Therese Mitros</name><affiliation wicri:level="1"><nlm:aff id="gkr944-AFF1">The Center for Integrative Genomics, University of California, Berkeley, California 94720, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>The Center for Integrative Genomics, University of California, Berkeley, California 94720</wicri:regionArea><wicri:noRegion>California 94720</wicri:noRegion></affiliation></author><author><name sortKey="Dirks, William" sort="Dirks, William" uniqKey="Dirks W" first="William" last="Dirks">William Dirks</name><affiliation wicri:level="1"><nlm:aff id="gkr944-AFF1">The Center for Integrative Genomics, University of California, Berkeley, California 94720, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>The Center for Integrative Genomics, University of California, Berkeley, California 94720</wicri:regionArea><wicri:noRegion>California 94720</wicri:noRegion></affiliation></author><author><name sortKey="Hellsten, Uffe" sort="Hellsten, Uffe" uniqKey="Hellsten U" first="Uffe" last="Hellsten">Uffe Hellsten</name><affiliation wicri:level="2"><nlm:aff wicri:cut=" and" id="gkr944-AFF1">U.S. Department of Energy, Joint Genome Institute, Walnut Creek, CA 94598</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Californie</region></placeName><wicri:cityArea>U.S. Department of Energy, Joint Genome Institute, Walnut Creek</wicri:cityArea></affiliation></author><author><name sortKey="Putnam, Nicholas" sort="Putnam, Nicholas" uniqKey="Putnam N" first="Nicholas" last="Putnam">Nicholas Putnam</name><affiliation wicri:level="2"><nlm:aff wicri:cut=" and" id="gkr944-AFF1">U.S. Department of Energy, Joint Genome Institute, Walnut Creek, CA 94598</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Californie</region></placeName><wicri:cityArea>U.S. Department of Energy, Joint Genome Institute, Walnut Creek</wicri:cityArea></affiliation></author><author><name sortKey="Rokhsar, Daniel S" sort="Rokhsar, Daniel S" uniqKey="Rokhsar D" first="Daniel S." last="Rokhsar">Daniel S. Rokhsar</name><affiliation wicri:level="2"><nlm:aff wicri:cut=" and" id="gkr944-AFF1">U.S. Department of Energy, Joint Genome Institute, Walnut Creek, CA 94598</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Californie</region></placeName><wicri:cityArea>U.S. Department of Energy, Joint Genome Institute, Walnut Creek</wicri:cityArea></affiliation><affiliation wicri:level="1"><nlm:aff id="gkr944-AFF1">The Center for Integrative Genomics, University of California, Berkeley, California 94720, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>The Center for Integrative Genomics, University of California, Berkeley, California 94720</wicri:regionArea><wicri:noRegion>California 94720</wicri:noRegion></affiliation></author></analytic><series><title level="j">Nucleic Acids Research</title><idno type="ISSN">0305-1048</idno><idno type="eISSN">1362-4962</idno><imprint><date when="2011">2011</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>The number of sequenced plant genomes and associated genomic resources is growing rapidly with the advent of both an increased focus on plant genomics from funding agencies, and the application of inexpensive next generation sequencing. To interact with this increasing body of data, we have developed Phytozome (<ext-link ext-link-type="uri" xlink:href="http://www.phytozome.net">http://www.phytozome.net</ext-link>), a comparative hub for plant genome and gene family data and analysis. Phytozome provides a view of the evolutionary history of every plant gene at the level of sequence, gene structure, gene family and genome organization, while at the same time providing access to the sequences and functional annotations of a growing number (currently 25) of complete plant genomes, including all the land plants and selected algae sequenced at the Joint Genome Institute, as well as selected species sequenced elsewhere. Through a comprehensive plant genome database and web portal, these data and analyses are available to the broader plant science research community, providing powerful comparative genomics tools that help to link model systems with other plants of economic and ecological importance.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Swarbreck, D" uniqKey="Swarbreck D">D Swarbreck</name></author><author><name sortKey="Wilks, C" uniqKey="Wilks C">C Wilks</name></author><author><name sortKey="Lamesch, P" uniqKey="Lamesch P">P Lamesch</name></author><author><name sortKey="Berardini, Tz" uniqKey="Berardini T">TZ Berardini</name></author><author><name sortKey="Garcia Hernandez, M" uniqKey="Garcia Hernandez M">M Garcia-Hernandez</name></author><author><name sortKey="Foerster, H" uniqKey="Foerster H">H Foerster</name></author><author><name sortKey="Li, D" uniqKey="Li D">D Li</name></author><author><name sortKey="Meyer, T" uniqKey="Meyer T">T 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sortKey="Ronning, Cm" uniqKey="Ronning C">CM Ronning</name></author><author><name sortKey="Rusch, Db" uniqKey="Rusch D">DB Rusch</name></author><author><name sortKey="Town, Cd" uniqKey="Town C">CD Town</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Slater, Gs" uniqKey="Slater G">GS Slater</name></author><author><name sortKey="Birney, E" uniqKey="Birney E">E Birney</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Yeh, Rf" uniqKey="Yeh R">RF Yeh</name></author><author><name sortKey="Lim, Lp" uniqKey="Lim L">LP Lim</name></author><author><name sortKey="Burge, Cb" uniqKey="Burge C">CB Burge</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Salamov, Aa" uniqKey="Salamov A">AA Salamov</name></author><author><name sortKey="Solovyev, Vv" uniqKey="Solovyev V">VV Solovyev</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>États-Unis</li></country><region><li>Californie</li></region></list><tree><country name="États-Unis"><region name="Californie"><name sortKey="Goodstein, David M" sort="Goodstein, David M" uniqKey="Goodstein D" first="David M." last="Goodstein">David M. Goodstein</name></region><name sortKey="Dirks, William" sort="Dirks, William" uniqKey="Dirks W" first="William" last="Dirks">William Dirks</name><name sortKey="Fazo, Joni" sort="Fazo, Joni" uniqKey="Fazo J" first="Joni" last="Fazo">Joni Fazo</name><name sortKey="Hayes, Richard D" sort="Hayes, Richard D" uniqKey="Hayes R" first="Richard D." last="Hayes">Richard D. Hayes</name><name sortKey="Hellsten, Uffe" sort="Hellsten, Uffe" uniqKey="Hellsten U" first="Uffe" last="Hellsten">Uffe Hellsten</name><name sortKey="Howson, Russell" sort="Howson, Russell" uniqKey="Howson R" first="Russell" last="Howson">Russell Howson</name><name sortKey="Mitros, Therese" sort="Mitros, Therese" uniqKey="Mitros T" first="Therese" last="Mitros">Therese Mitros</name><name sortKey="Neupane, Rochak" sort="Neupane, Rochak" uniqKey="Neupane R" first="Rochak" last="Neupane">Rochak Neupane</name><name sortKey="Putnam, Nicholas" sort="Putnam, Nicholas" uniqKey="Putnam N" first="Nicholas" last="Putnam">Nicholas Putnam</name><name sortKey="Rokhsar, Daniel S" sort="Rokhsar, Daniel S" uniqKey="Rokhsar D" first="Daniel S." last="Rokhsar">Daniel S. Rokhsar</name><name sortKey="Rokhsar, Daniel S" sort="Rokhsar, Daniel S" uniqKey="Rokhsar D" first="Daniel S." last="Rokhsar">Daniel S. Rokhsar</name><name sortKey="Shu, Shengqiang" sort="Shu, Shengqiang" uniqKey="Shu S" first="Shengqiang" last="Shu">Shengqiang Shu</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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