The Sorghum bicolor genome and the diversification of grasses.
Identifieur interne : 003465 ( Main/Exploration ); précédent : 003464; suivant : 003466The Sorghum bicolor genome and the diversification of grasses.
Auteurs : Andrew H. Paterson [États-Unis] ; John E. Bowers ; Rémy Bruggmann ; Inna Dubchak ; Jane Grimwood ; Heidrun Gundlach ; Georg Haberer ; Uffe Hellsten ; Therese Mitros ; Alexander Poliakov ; Jeremy Schmutz ; Manuel Spannagl ; Haibao Tang ; Xiyin Wang ; Thomas Wicker ; Arvind K. Bharti ; Jarrod Chapman ; F Alex Feltus ; Udo Gowik ; Igor V. Grigoriev ; Eric Lyons ; Christopher A. Maher ; Mihaela Martis ; Apurva Narechania ; Robert P. Otillar ; Bryan W. Penning ; Asaf A. Salamov ; Yu Wang ; Lifang Zhang ; Nicholas C. Carpita ; Michael Freeling ; Alan R. Gingle ; C Thomas Hash ; Beat Keller ; Patricia Klein ; Stephen Kresovich ; Maureen C. Mccann ; Ray Ming ; Daniel G. Peterson ; Mehboob-ur-Rahman ; Doreen Ware ; Peter Westhoff ; Klaus F X. Mayer ; Joachim Messing ; Daniel S. RokhsarSource :
- Nature [ 1476-4687 ] ; 2009.
Descripteurs français
- KwdFr :
- Alignement de séquences (MeSH), Analyse de séquence d'ADN (MeSH), Arabidopsis (génétique), Chromosomes de plante (génétique), Duplication de gène (MeSH), Délétion de séquence (génétique), Gènes de plante (MeSH), Génome végétal (génétique), Oryza (génétique), Poaceae (génétique), Populus (génétique), Recombinaison génétique (génétique), Sorghum (génétique), Zea mays (génétique), Évolution moléculaire (MeSH).
- MESH :
English descriptors
- KwdEn :
- Arabidopsis (genetics), Chromosomes, Plant (genetics), Evolution, Molecular (MeSH), Gene Duplication (MeSH), Genes, Plant (MeSH), Genome, Plant (genetics), Oryza (genetics), Poaceae (genetics), Populus (genetics), Recombination, Genetic (genetics), Sequence Alignment (MeSH), Sequence Analysis, DNA (MeSH), Sequence Deletion (genetics), Sorghum (genetics), Zea mays (genetics).
- MESH :
Abstract
Sorghum, an African grass related to sugar cane and maize, is grown for food, feed, fibre and fuel. We present an initial analysis of the approximately 730-megabase Sorghum bicolor (L.) Moench genome, placing approximately 98% of genes in their chromosomal context using whole-genome shotgun sequence validated by genetic, physical and syntenic information. Genetic recombination is largely confined to about one-third of the sorghum genome with gene order and density similar to those of rice. Retrotransposon accumulation in recombinationally recalcitrant heterochromatin explains the approximately 75% larger genome size of sorghum compared with rice. Although gene and repetitive DNA distributions have been preserved since palaeopolyploidization approximately 70 million years ago, most duplicated gene sets lost one member before the sorghum-rice divergence. Concerted evolution makes one duplicated chromosomal segment appear to be only a few million years old. About 24% of genes are grass-specific and 7% are sorghum-specific. Recent gene and microRNA duplications may contribute to sorghum's drought tolerance.
DOI: 10.1038/nature07723
PubMed: 19189423
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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Salamov</name></author><author><name sortKey="Wang, Yu" sort="Wang, Yu" uniqKey="Wang Y" first="Yu" last="Wang">Yu Wang</name></author><author><name sortKey="Zhang, Lifang" sort="Zhang, Lifang" uniqKey="Zhang L" first="Lifang" last="Zhang">Lifang Zhang</name></author><author><name sortKey="Carpita, Nicholas C" sort="Carpita, Nicholas C" uniqKey="Carpita N" first="Nicholas C" last="Carpita">Nicholas C. Carpita</name></author><author><name sortKey="Freeling, Michael" sort="Freeling, Michael" uniqKey="Freeling M" first="Michael" last="Freeling">Michael Freeling</name></author><author><name sortKey="Gingle, Alan R" sort="Gingle, Alan R" uniqKey="Gingle A" first="Alan R" last="Gingle">Alan R. 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Paterson</name><affiliation wicri:level="1"><nlm:affiliation>Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia 30602, USA. paterson@uga.edu</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia 30602</wicri:regionArea><wicri:noRegion>Georgia 30602</wicri:noRegion></affiliation></author><author><name sortKey="Bowers, John E" sort="Bowers, John E" uniqKey="Bowers J" first="John E" last="Bowers">John E. Bowers</name></author><author><name sortKey="Bruggmann, Remy" sort="Bruggmann, Remy" uniqKey="Bruggmann R" first="Rémy" last="Bruggmann">Rémy Bruggmann</name></author><author><name sortKey="Dubchak, Inna" sort="Dubchak, Inna" uniqKey="Dubchak I" first="Inna" last="Dubchak">Inna Dubchak</name></author><author><name sortKey="Grimwood, Jane" sort="Grimwood, Jane" uniqKey="Grimwood J" first="Jane" last="Grimwood">Jane Grimwood</name></author><author><name sortKey="Gundlach, Heidrun" sort="Gundlach, Heidrun" uniqKey="Gundlach H" first="Heidrun" last="Gundlach">Heidrun Gundlach</name></author><author><name sortKey="Haberer, Georg" sort="Haberer, Georg" uniqKey="Haberer G" first="Georg" last="Haberer">Georg Haberer</name></author><author><name sortKey="Hellsten, Uffe" sort="Hellsten, Uffe" uniqKey="Hellsten U" first="Uffe" last="Hellsten">Uffe Hellsten</name></author><author><name sortKey="Mitros, Therese" sort="Mitros, Therese" uniqKey="Mitros T" first="Therese" last="Mitros">Therese Mitros</name></author><author><name sortKey="Poliakov, Alexander" sort="Poliakov, Alexander" uniqKey="Poliakov A" first="Alexander" last="Poliakov">Alexander Poliakov</name></author><author><name sortKey="Schmutz, Jeremy" sort="Schmutz, Jeremy" uniqKey="Schmutz J" first="Jeremy" last="Schmutz">Jeremy Schmutz</name></author><author><name sortKey="Spannagl, Manuel" sort="Spannagl, Manuel" uniqKey="Spannagl M" first="Manuel" last="Spannagl">Manuel Spannagl</name></author><author><name sortKey="Tang, Haibao" sort="Tang, Haibao" uniqKey="Tang H" first="Haibao" last="Tang">Haibao Tang</name></author><author><name sortKey="Wang, Xiyin" sort="Wang, Xiyin" uniqKey="Wang X" first="Xiyin" last="Wang">Xiyin Wang</name></author><author><name sortKey="Wicker, Thomas" sort="Wicker, Thomas" uniqKey="Wicker T" first="Thomas" last="Wicker">Thomas Wicker</name></author><author><name sortKey="Bharti, Arvind K" sort="Bharti, Arvind K" uniqKey="Bharti A" first="Arvind K" last="Bharti">Arvind K. Bharti</name></author><author><name sortKey="Chapman, Jarrod" sort="Chapman, Jarrod" uniqKey="Chapman J" first="Jarrod" last="Chapman">Jarrod Chapman</name></author><author><name sortKey="Feltus, F Alex" sort="Feltus, F Alex" uniqKey="Feltus F" first="F Alex" last="Feltus">F Alex Feltus</name></author><author><name sortKey="Gowik, Udo" sort="Gowik, Udo" uniqKey="Gowik U" first="Udo" last="Gowik">Udo Gowik</name></author><author><name sortKey="Grigoriev, Igor V" sort="Grigoriev, Igor V" uniqKey="Grigoriev I" first="Igor V" last="Grigoriev">Igor V. Grigoriev</name></author><author><name sortKey="Lyons, Eric" sort="Lyons, Eric" uniqKey="Lyons E" first="Eric" last="Lyons">Eric Lyons</name></author><author><name sortKey="Maher, Christopher A" sort="Maher, Christopher A" uniqKey="Maher C" first="Christopher A" last="Maher">Christopher A. Maher</name></author><author><name sortKey="Martis, Mihaela" sort="Martis, Mihaela" uniqKey="Martis M" first="Mihaela" last="Martis">Mihaela Martis</name></author><author><name sortKey="Narechania, Apurva" sort="Narechania, Apurva" uniqKey="Narechania A" first="Apurva" last="Narechania">Apurva Narechania</name></author><author><name sortKey="Otillar, Robert P" sort="Otillar, Robert P" uniqKey="Otillar R" first="Robert P" last="Otillar">Robert P. Otillar</name></author><author><name sortKey="Penning, Bryan W" sort="Penning, Bryan W" uniqKey="Penning B" first="Bryan W" last="Penning">Bryan W. Penning</name></author><author><name sortKey="Salamov, Asaf A" sort="Salamov, Asaf A" uniqKey="Salamov A" first="Asaf A" last="Salamov">Asaf A. Salamov</name></author><author><name sortKey="Wang, Yu" sort="Wang, Yu" uniqKey="Wang Y" first="Yu" last="Wang">Yu Wang</name></author><author><name sortKey="Zhang, Lifang" sort="Zhang, Lifang" uniqKey="Zhang L" first="Lifang" last="Zhang">Lifang Zhang</name></author><author><name sortKey="Carpita, Nicholas C" sort="Carpita, Nicholas C" uniqKey="Carpita N" first="Nicholas C" last="Carpita">Nicholas C. Carpita</name></author><author><name sortKey="Freeling, Michael" sort="Freeling, Michael" uniqKey="Freeling M" first="Michael" last="Freeling">Michael Freeling</name></author><author><name sortKey="Gingle, Alan R" sort="Gingle, Alan R" uniqKey="Gingle A" first="Alan R" last="Gingle">Alan R. Gingle</name></author><author><name sortKey="Hash, C Thomas" sort="Hash, C Thomas" uniqKey="Hash C" first="C Thomas" last="Hash">C Thomas Hash</name></author><author><name sortKey="Keller, Beat" sort="Keller, Beat" uniqKey="Keller B" first="Beat" last="Keller">Beat Keller</name></author><author><name sortKey="Klein, Patricia" sort="Klein, Patricia" uniqKey="Klein P" first="Patricia" last="Klein">Patricia Klein</name></author><author><name sortKey="Kresovich, Stephen" sort="Kresovich, Stephen" uniqKey="Kresovich S" first="Stephen" last="Kresovich">Stephen Kresovich</name></author><author><name sortKey="Mccann, Maureen C" sort="Mccann, Maureen C" uniqKey="Mccann M" first="Maureen C" last="Mccann">Maureen C. Mccann</name></author><author><name sortKey="Ming, Ray" sort="Ming, Ray" uniqKey="Ming R" first="Ray" last="Ming">Ray Ming</name></author><author><name sortKey="Peterson, Daniel G" sort="Peterson, Daniel G" uniqKey="Peterson D" first="Daniel G" last="Peterson">Daniel G. Peterson</name></author><author><name sortKey="Mehboob Ur Rahman" sort="Mehboob Ur Rahman" uniqKey="Mehboob Ur Rahman" last="Mehboob-Ur-Rahman">Mehboob-ur-Rahman</name></author><author><name sortKey="Ware, Doreen" sort="Ware, Doreen" uniqKey="Ware D" first="Doreen" last="Ware">Doreen Ware</name></author><author><name sortKey="Westhoff, Peter" sort="Westhoff, Peter" uniqKey="Westhoff P" first="Peter" last="Westhoff">Peter Westhoff</name></author><author><name sortKey="Mayer, Klaus F X" sort="Mayer, Klaus F X" uniqKey="Mayer K" first="Klaus F X" last="Mayer">Klaus F X. Mayer</name></author><author><name sortKey="Messing, Joachim" sort="Messing, Joachim" uniqKey="Messing J" first="Joachim" last="Messing">Joachim Messing</name></author><author><name sortKey="Rokhsar, Daniel S" sort="Rokhsar, Daniel S" uniqKey="Rokhsar D" first="Daniel S" last="Rokhsar">Daniel S. Rokhsar</name></author></analytic><series><title level="j">Nature</title><idno type="eISSN">1476-4687</idno><imprint><date when="2009" type="published">2009</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Arabidopsis (genetics)</term><term>Chromosomes, Plant (genetics)</term><term>Evolution, Molecular (MeSH)</term><term>Gene Duplication (MeSH)</term><term>Genes, Plant (MeSH)</term><term>Genome, Plant (genetics)</term><term>Oryza (genetics)</term><term>Poaceae (genetics)</term><term>Populus (genetics)</term><term>Recombination, Genetic (genetics)</term><term>Sequence Alignment (MeSH)</term><term>Sequence Analysis, DNA (MeSH)</term><term>Sequence Deletion (genetics)</term><term>Sorghum (genetics)</term><term>Zea mays (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Alignement de séquences (MeSH)</term><term>Analyse de séquence d'ADN (MeSH)</term><term>Arabidopsis (génétique)</term><term>Chromosomes de plante (génétique)</term><term>Duplication de gène (MeSH)</term><term>Délétion de séquence (génétique)</term><term>Gènes de plante (MeSH)</term><term>Génome végétal (génétique)</term><term>Oryza (génétique)</term><term>Poaceae (génétique)</term><term>Populus (génétique)</term><term>Recombinaison génétique (génétique)</term><term>Sorghum (génétique)</term><term>Zea mays (génétique)</term><term>Évolution moléculaire (MeSH)</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Arabidopsis</term><term>Chromosomes, Plant</term><term>Genome, Plant</term><term>Oryza</term><term>Poaceae</term><term>Populus</term><term>Recombination, Genetic</term><term>Sequence Deletion</term><term>Sorghum</term><term>Zea mays</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Arabidopsis</term><term>Chromosomes de plante</term><term>Délétion de séquence</term><term>Génome végétal</term><term>Oryza</term><term>Poaceae</term><term>Populus</term><term>Recombinaison génétique</term><term>Sorghum</term><term>Zea mays</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Evolution, Molecular</term><term>Gene Duplication</term><term>Genes, Plant</term><term>Sequence Alignment</term><term>Sequence Analysis, DNA</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Alignement de séquences</term><term>Analyse de séquence d'ADN</term><term>Duplication de gène</term><term>Gènes de plante</term><term>Évolution moléculaire</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Sorghum, an African grass related to sugar cane and maize, is grown for food, feed, fibre and fuel. We present an initial analysis of the approximately 730-megabase Sorghum bicolor (L.) Moench genome, placing approximately 98% of genes in their chromosomal context using whole-genome shotgun sequence validated by genetic, physical and syntenic information. Genetic recombination is largely confined to about one-third of the sorghum genome with gene order and density similar to those of rice. Retrotransposon accumulation in recombinationally recalcitrant heterochromatin explains the approximately 75% larger genome size of sorghum compared with rice. Although gene and repetitive DNA distributions have been preserved since palaeopolyploidization approximately 70 million years ago, most duplicated gene sets lost one member before the sorghum-rice divergence. Concerted evolution makes one duplicated chromosomal segment appear to be only a few million years old. About 24% of genes are grass-specific and 7% are sorghum-specific. Recent gene and microRNA duplications may contribute to sorghum's drought tolerance.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">19189423</PMID><DateCompleted><Year>2009</Year><Month>03</Month><Day>11</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print"><Journal><ISSN IssnType="Electronic">1476-4687</ISSN><JournalIssue CitedMedium="Internet"><Volume>457</Volume><Issue>7229</Issue><PubDate><Year>2009</Year><Month>Jan</Month><Day>29</Day></PubDate></JournalIssue><Title>Nature</Title><ISOAbbreviation>Nature</ISOAbbreviation></Journal><ArticleTitle>The Sorghum bicolor genome and the diversification of grasses.</ArticleTitle><Pagination><MedlinePgn>551-6</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1038/nature07723</ELocationID><Abstract><AbstractText>Sorghum, an African grass related to sugar cane and maize, is grown for food, feed, fibre and fuel. We present an initial analysis of the approximately 730-megabase Sorghum bicolor (L.) Moench genome, placing approximately 98% of genes in their chromosomal context using whole-genome shotgun sequence validated by genetic, physical and syntenic information. Genetic recombination is largely confined to about one-third of the sorghum genome with gene order and density similar to those of rice. Retrotransposon accumulation in recombinationally recalcitrant heterochromatin explains the approximately 75% larger genome size of sorghum compared with rice. Although gene and repetitive DNA distributions have been preserved since palaeopolyploidization approximately 70 million years ago, most duplicated gene sets lost one member before the sorghum-rice divergence. Concerted evolution makes one duplicated chromosomal segment appear to be only a few million years old. About 24% of genes are grass-specific and 7% are sorghum-specific. Recent gene and microRNA duplications may contribute to sorghum's drought tolerance.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Paterson</LastName><ForeName>Andrew H</ForeName><Initials>AH</Initials><AffiliationInfo><Affiliation>Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia 30602, USA. paterson@uga.edu</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Bowers</LastName><ForeName>John E</ForeName><Initials>JE</Initials></Author><Author ValidYN="Y"><LastName>Bruggmann</LastName><ForeName>Rémy</ForeName><Initials>R</Initials></Author><Author ValidYN="Y"><LastName>Dubchak</LastName><ForeName>Inna</ForeName><Initials>I</Initials></Author><Author ValidYN="Y"><LastName>Grimwood</LastName><ForeName>Jane</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Gundlach</LastName><ForeName>Heidrun</ForeName><Initials>H</Initials></Author><Author ValidYN="Y"><LastName>Haberer</LastName><ForeName>Georg</ForeName><Initials>G</Initials></Author><Author ValidYN="Y"><LastName>Hellsten</LastName><ForeName>Uffe</ForeName><Initials>U</Initials></Author><Author ValidYN="Y"><LastName>Mitros</LastName><ForeName>Therese</ForeName><Initials>T</Initials></Author><Author ValidYN="Y"><LastName>Poliakov</LastName><ForeName>Alexander</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Schmutz</LastName><ForeName>Jeremy</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Spannagl</LastName><ForeName>Manuel</ForeName><Initials>M</Initials></Author><Author ValidYN="Y"><LastName>Tang</LastName><ForeName>Haibao</ForeName><Initials>H</Initials></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Xiyin</ForeName><Initials>X</Initials></Author><Author ValidYN="Y"><LastName>Wicker</LastName><ForeName>Thomas</ForeName><Initials>T</Initials></Author><Author 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ValidYN="Y"><LastName>Keller</LastName><ForeName>Beat</ForeName><Initials>B</Initials></Author><Author ValidYN="Y"><LastName>Klein</LastName><ForeName>Patricia</ForeName><Initials>P</Initials></Author><Author ValidYN="Y"><LastName>Kresovich</LastName><ForeName>Stephen</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>McCann</LastName><ForeName>Maureen C</ForeName><Initials>MC</Initials></Author><Author ValidYN="Y"><LastName>Ming</LastName><ForeName>Ray</ForeName><Initials>R</Initials></Author><Author ValidYN="Y"><LastName>Peterson</LastName><ForeName>Daniel G</ForeName><Initials>DG</Initials></Author><Author ValidYN="Y"><LastName>Mehboob-ur-Rahman</LastName></Author><Author ValidYN="Y"><LastName>Ware</LastName><ForeName>Doreen</ForeName><Initials>D</Initials></Author><Author ValidYN="Y"><LastName>Westhoff</LastName><ForeName>Peter</ForeName><Initials>P</Initials></Author><Author ValidYN="Y"><LastName>Mayer</LastName><ForeName>Klaus F X</ForeName><Initials>KF</Initials></Author><Author ValidYN="Y"><LastName>Messing</LastName><ForeName>Joachim</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Rokhsar</LastName><ForeName>Daniel S</ForeName><Initials>DS</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType><PublicationType UI="D013486">Research Support, U.S. Gov't, Non-P.H.S.</PublicationType></PublicationTypeList></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Nature</MedlineTA><NlmUniqueID>0410462</NlmUniqueID><ISSNLinking>0028-0836</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><CommentsCorrectionsList><CommentsCorrections RefType="CommentIn"><RefSource>Nature. 2009 Jan 29;457(7229):547-8</RefSource><PMID Version="1">19177121</PMID></CommentsCorrections></CommentsCorrectionsList><MeshHeadingList><MeshHeading><DescriptorName UI="D017360" MajorTopicYN="N">Arabidopsis</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D032461" MajorTopicYN="N">Chromosomes, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D019143" MajorTopicYN="Y">Evolution, Molecular</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D020440" MajorTopicYN="N">Gene Duplication</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017343" MajorTopicYN="N">Genes, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018745" MajorTopicYN="N">Genome, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012275" 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