AspWood: High-Spatial-Resolution Transcriptome Profiles Reveal Uncharacterized Modularity of Wood Formation in Populus tremula.
Identifieur interne : 001518 ( Main/Exploration ); précédent : 001517; suivant : 001519AspWood: High-Spatial-Resolution Transcriptome Profiles Reveal Uncharacterized Modularity of Wood Formation in Populus tremula.
Auteurs : David Sundell [Suède] ; Nathaniel R. Street [Suède] ; Manoj Kumar [Suède] ; Ewa J. Mellerowicz [Suède] ; Melis Kucukoglu [Suède] ; Christoffer Johnsson [Suède] ; Vikash Kumar [Suède] ; Chanaka Mannapperuma [Suède] ; Nicolas Delhomme [Suède] ; Ove Nilsson [Suède] ; Hannele Tuominen [Suède] ; Edouard Pesquet [Suède] ; Urs Fischer [Suède] ; Totte Niittyl [Suède] ; Björn Sundberg [Suède] ; Torgeir R. Hvidsten [Suède, Norvège]Source :
- The Plant cell [ 1532-298X ] ; 2017.
Descripteurs français
- KwdFr :
- Bois (croissance et développement), Bois (cytologie), Bois (génétique), Internet (MeSH), Méristème (génétique), Paroi cellulaire (génétique), Paroi cellulaire (métabolisme), Polyosides (génétique), Polyosides (métabolisme), Populus (croissance et développement), Populus (cytologie), Populus (génétique), Régulation de l'expression des gènes végétaux (MeSH), Transcriptome (MeSH), Xylème (génétique).
- MESH :
- croissance et développement : Bois, Populus.
- cytologie : Bois, Populus.
- génétique : Bois, Méristème, Paroi cellulaire, Polyosides, Populus, Xylème.
- métabolisme : Paroi cellulaire, Polyosides.
- Internet, Régulation de l'expression des gènes végétaux, Transcriptome.
English descriptors
- KwdEn :
- Cell Wall (genetics), Cell Wall (metabolism), Gene Expression Regulation, Plant (MeSH), Internet (MeSH), Meristem (genetics), Polysaccharides (genetics), Polysaccharides (metabolism), Populus (cytology), Populus (genetics), Populus (growth & development), Transcriptome (MeSH), Wood (cytology), Wood (genetics), Wood (growth & development), Xylem (genetics).
- MESH :
- chemical , genetics : Polysaccharides.
- cytology : Populus, Wood.
- genetics : Cell Wall, Meristem, Populus, Wood, Xylem.
- growth & development : Populus, Wood.
- metabolism : Cell Wall, Polysaccharides.
- Gene Expression Regulation, Plant, Internet, Transcriptome.
Abstract
Trees represent the largest terrestrial carbon sink and a renewable source of ligno-cellulose. There is significant scope for yield and quality improvement in these largely undomesticated species, and efforts to engineer elite varieties will benefit from improved understanding of the transcriptional network underlying cambial growth and wood formation. We generated high-spatial-resolution RNA sequencing data spanning the secondary phloem, vascular cambium, and wood-forming tissues of Populus tremula The transcriptome comprised 28,294 expressed, annotated genes, 78 novel protein-coding genes, and 567 putative long intergenic noncoding RNAs. Most paralogs originating from the Salicaceae whole-genome duplication had diverged expression, with the exception of those highly expressed during secondary cell wall deposition. Coexpression network analyses revealed that regulation of the transcriptome underlying cambial growth and wood formation comprises numerous modules forming a continuum of active processes across the tissues. A comparative analysis revealed that a majority of these modules are conserved in Picea abies The high spatial resolution of our data enabled identification of novel roles for characterized genes involved in xylan and cellulose biosynthesis, regulators of xylem vessel and fiber differentiation and lignification. An associated web resource (AspWood, http://aspwood.popgenie.org) provides interactive tools for exploring the expression profiles and coexpression network.
DOI: 10.1105/tpc.17.00153
PubMed: 28655750
PubMed Central: PMC5559752
Affiliations:
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Nicolas" uniqKey="Delhomme N" first="Nicolas" last="Delhomme">Nicolas Delhomme</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Nilsson, Ove" sort="Nilsson, Ove" uniqKey="Nilsson O" first="Ove" last="Nilsson">Ove Nilsson</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 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Center, Department of Plant Physiology, Umeå University, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation><affiliation wicri:level="4"><nlm:affiliation>Department of Ecology, Environment and Plant Sciences, Stockholm University, 106 91 Stockholm, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Department of Ecology, Environment and Plant Sciences, Stockholm University, 106 91 Stockholm</wicri:regionArea><orgName type="university">Université de Stockholm</orgName><placeName><settlement type="city">Stockholm</settlement><region nuts="1">Svealand</region><region nuts="1">Comté de Stockholm</region></placeName></affiliation></author><author><name sortKey="Fischer, Urs" sort="Fischer, Urs" uniqKey="Fischer U" first="Urs" last="Fischer">Urs Fischer</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Niittyl, Totte" sort="Niittyl, Totte" uniqKey="Niittyl T" first="Totte" last="Niittyl">Totte Niittyl</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Sundberg, Bjorn" sort="Sundberg, Bjorn" uniqKey="Sundberg B" first="Björn" last="Sundberg">Björn Sundberg</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Hvidsten, Torgeir R" sort="Hvidsten, Torgeir R" uniqKey="Hvidsten T" first="Torgeir R" last="Hvidsten">Torgeir R. Hvidsten</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden torgeir.hvidsten@umu.se.</nlm:affiliation><country wicri:rule="url">Suède</country><wicri:regionArea>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Department of Chemistry, Biotechnology and Food Sciences, Norwegian University of Life Sciences, 1433 Ås, Norway.</nlm:affiliation><country xml:lang="fr">Norvège</country><wicri:regionArea>Department of Chemistry, Biotechnology and Food Sciences, Norwegian University of Life Sciences, 1433 Ås</wicri:regionArea><wicri:noRegion>1433 Ås</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2017">2017</date><idno type="RBID">pubmed:28655750</idno><idno type="pmid">28655750</idno><idno type="doi">10.1105/tpc.17.00153</idno><idno type="pmc">PMC5559752</idno><idno type="wicri:Area/Main/Corpus">001270</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">001270</idno><idno type="wicri:Area/Main/Curation">001270</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">001270</idno><idno type="wicri:Area/Main/Exploration">001270</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">AspWood: High-Spatial-Resolution Transcriptome Profiles Reveal Uncharacterized Modularity of Wood Formation in <i>Populus tremula</i>.</title><author><name sortKey="Sundell, David" sort="Sundell, David" uniqKey="Sundell D" first="David" last="Sundell">David Sundell</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Street, Nathaniel R" sort="Street, Nathaniel R" uniqKey="Street N" first="Nathaniel R" last="Street">Nathaniel R. Street</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Kumar, Manoj" sort="Kumar, Manoj" uniqKey="Kumar M" first="Manoj" last="Kumar">Manoj Kumar</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Mellerowicz, Ewa J" sort="Mellerowicz, Ewa J" uniqKey="Mellerowicz E" first="Ewa J" last="Mellerowicz">Ewa J. Mellerowicz</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Kucukoglu, Melis" sort="Kucukoglu, Melis" uniqKey="Kucukoglu M" first="Melis" last="Kucukoglu">Melis Kucukoglu</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Johnsson, Christoffer" sort="Johnsson, Christoffer" uniqKey="Johnsson C" first="Christoffer" last="Johnsson">Christoffer Johnsson</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Kumar, Vikash" sort="Kumar, Vikash" uniqKey="Kumar V" first="Vikash" last="Kumar">Vikash Kumar</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Mannapperuma, Chanaka" sort="Mannapperuma, Chanaka" uniqKey="Mannapperuma C" first="Chanaka" last="Mannapperuma">Chanaka Mannapperuma</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Delhomme, Nicolas" sort="Delhomme, Nicolas" uniqKey="Delhomme N" first="Nicolas" last="Delhomme">Nicolas Delhomme</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Nilsson, Ove" sort="Nilsson, Ove" uniqKey="Nilsson O" first="Ove" last="Nilsson">Ove Nilsson</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Tuominen, Hannele" sort="Tuominen, Hannele" uniqKey="Tuominen H" first="Hannele" last="Tuominen">Hannele Tuominen</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Pesquet, Edouard" sort="Pesquet, Edouard" uniqKey="Pesquet E" first="Edouard" last="Pesquet">Edouard Pesquet</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation><affiliation wicri:level="4"><nlm:affiliation>Department of Ecology, Environment and Plant Sciences, Stockholm University, 106 91 Stockholm, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Department of Ecology, Environment and Plant Sciences, Stockholm University, 106 91 Stockholm</wicri:regionArea><orgName type="university">Université de Stockholm</orgName><placeName><settlement type="city">Stockholm</settlement><region nuts="1">Svealand</region><region nuts="1">Comté de Stockholm</region></placeName></affiliation></author><author><name sortKey="Fischer, Urs" sort="Fischer, Urs" uniqKey="Fischer U" first="Urs" last="Fischer">Urs Fischer</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Niittyl, Totte" sort="Niittyl, Totte" uniqKey="Niittyl T" first="Totte" last="Niittyl">Totte Niittyl</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Sundberg, Bjorn" sort="Sundberg, Bjorn" uniqKey="Sundberg B" first="Björn" last="Sundberg">Björn Sundberg</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation></author><author><name sortKey="Hvidsten, Torgeir R" sort="Hvidsten, Torgeir R" uniqKey="Hvidsten T" first="Torgeir R" last="Hvidsten">Torgeir R. Hvidsten</name><affiliation wicri:level="1"><nlm:affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden torgeir.hvidsten@umu.se.</nlm:affiliation><country wicri:rule="url">Suède</country><wicri:regionArea>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå</wicri:regionArea><wicri:noRegion>901 87 Umeå</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Department of Chemistry, Biotechnology and Food Sciences, Norwegian University of Life Sciences, 1433 Ås, Norway.</nlm:affiliation><country xml:lang="fr">Norvège</country><wicri:regionArea>Department of Chemistry, Biotechnology and Food Sciences, Norwegian University of Life Sciences, 1433 Ås</wicri:regionArea><wicri:noRegion>1433 Ås</wicri:noRegion></affiliation></author></analytic><series><title level="j">The Plant cell</title><idno type="eISSN">1532-298X</idno><imprint><date when="2017" type="published">2017</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Cell Wall (genetics)</term><term>Cell Wall (metabolism)</term><term>Gene Expression Regulation, Plant (MeSH)</term><term>Internet (MeSH)</term><term>Meristem (genetics)</term><term>Polysaccharides (genetics)</term><term>Polysaccharides (metabolism)</term><term>Populus (cytology)</term><term>Populus (genetics)</term><term>Populus (growth & development)</term><term>Transcriptome (MeSH)</term><term>Wood (cytology)</term><term>Wood (genetics)</term><term>Wood (growth & development)</term><term>Xylem (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Bois (croissance et développement)</term><term>Bois (cytologie)</term><term>Bois (génétique)</term><term>Internet (MeSH)</term><term>Méristème (génétique)</term><term>Paroi cellulaire (génétique)</term><term>Paroi cellulaire (métabolisme)</term><term>Polyosides (génétique)</term><term>Polyosides (métabolisme)</term><term>Populus (croissance et développement)</term><term>Populus (cytologie)</term><term>Populus (génétique)</term><term>Régulation de l'expression des gènes végétaux (MeSH)</term><term>Transcriptome (MeSH)</term><term>Xylème (génétique)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Polysaccharides</term></keywords><keywords scheme="MESH" qualifier="croissance et développement" xml:lang="fr"><term>Bois</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="cytologie" xml:lang="fr"><term>Bois</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="cytology" xml:lang="en"><term>Populus</term><term>Wood</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Cell Wall</term><term>Meristem</term><term>Populus</term><term>Wood</term><term>Xylem</term></keywords><keywords scheme="MESH" qualifier="growth & development" xml:lang="en"><term>Populus</term><term>Wood</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Bois</term><term>Méristème</term><term>Paroi cellulaire</term><term>Polyosides</term><term>Populus</term><term>Xylème</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Cell Wall</term><term>Polysaccharides</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Paroi cellulaire</term><term>Polyosides</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Gene Expression Regulation, Plant</term><term>Internet</term><term>Transcriptome</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Internet</term><term>Régulation de l'expression des gènes végétaux</term><term>Transcriptome</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Trees represent the largest terrestrial carbon sink and a renewable source of ligno-cellulose. There is significant scope for yield and quality improvement in these largely undomesticated species, and efforts to engineer elite varieties will benefit from improved understanding of the transcriptional network underlying cambial growth and wood formation. We generated high-spatial-resolution RNA sequencing data spanning the secondary phloem, vascular cambium, and wood-forming tissues of <i>Populus tremula</i> The transcriptome comprised 28,294 expressed, annotated genes, 78 novel protein-coding genes, and 567 putative long intergenic noncoding RNAs. Most paralogs originating from the Salicaceae whole-genome duplication had diverged expression, with the exception of those highly expressed during secondary cell wall deposition. Coexpression network analyses revealed that regulation of the transcriptome underlying cambial growth and wood formation comprises numerous modules forming a continuum of active processes across the tissues. A comparative analysis revealed that a majority of these modules are conserved in <i>Picea abies</i> The high spatial resolution of our data enabled identification of novel roles for characterized genes involved in xylan and cellulose biosynthesis, regulators of xylem vessel and fiber differentiation and lignification. An associated web resource (AspWood, http://aspwood.popgenie.org) provides interactive tools for exploring the expression profiles and coexpression network.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">28655750</PMID><DateCompleted><Year>2018</Year><Month>03</Month><Day>13</Day></DateCompleted><DateRevised><Year>2019</Year><Month>05</Month><Day>07</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1532-298X</ISSN><JournalIssue CitedMedium="Internet"><Volume>29</Volume><Issue>7</Issue><PubDate><Year>2017</Year><Month>Jul</Month></PubDate></JournalIssue><Title>The Plant cell</Title><ISOAbbreviation>Plant Cell</ISOAbbreviation></Journal><ArticleTitle>AspWood: High-Spatial-Resolution Transcriptome Profiles Reveal Uncharacterized Modularity of Wood Formation in <i>Populus tremula</i>.</ArticleTitle><Pagination><MedlinePgn>1585-1604</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1105/tpc.17.00153</ELocationID><Abstract><AbstractText>Trees represent the largest terrestrial carbon sink and a renewable source of ligno-cellulose. There is significant scope for yield and quality improvement in these largely undomesticated species, and efforts to engineer elite varieties will benefit from improved understanding of the transcriptional network underlying cambial growth and wood formation. We generated high-spatial-resolution RNA sequencing data spanning the secondary phloem, vascular cambium, and wood-forming tissues of <i>Populus tremula</i> The transcriptome comprised 28,294 expressed, annotated genes, 78 novel protein-coding genes, and 567 putative long intergenic noncoding RNAs. Most paralogs originating from the Salicaceae whole-genome duplication had diverged expression, with the exception of those highly expressed during secondary cell wall deposition. Coexpression network analyses revealed that regulation of the transcriptome underlying cambial growth and wood formation comprises numerous modules forming a continuum of active processes across the tissues. A comparative analysis revealed that a majority of these modules are conserved in <i>Picea abies</i> The high spatial resolution of our data enabled identification of novel roles for characterized genes involved in xylan and cellulose biosynthesis, regulators of xylem vessel and fiber differentiation and lignification. An associated web resource (AspWood, http://aspwood.popgenie.org) provides interactive tools for exploring the expression profiles and coexpression network.</AbstractText><CopyrightInformation>© 2017 American Society of Plant Biologists. All rights reserved.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Sundell</LastName><ForeName>David</ForeName><Initials>D</Initials><AffiliationInfo><Affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Street</LastName><ForeName>Nathaniel R</ForeName><Initials>NR</Initials><Identifier Source="ORCID">http://orcid.org/0000-0001-6031-005X</Identifier><AffiliationInfo><Affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Kumar</LastName><ForeName>Manoj</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Mellerowicz</LastName><ForeName>Ewa J</ForeName><Initials>EJ</Initials><Identifier Source="ORCID">http://orcid.org/0000-0001-6817-1031</Identifier><AffiliationInfo><Affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Kucukoglu</LastName><ForeName>Melis</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Johnsson</LastName><ForeName>Christoffer</ForeName><Initials>C</Initials><Identifier Source="ORCID">http://orcid.org/0000-0002-9854-6938</Identifier><AffiliationInfo><Affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Kumar</LastName><ForeName>Vikash</ForeName><Initials>V</Initials><AffiliationInfo><Affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Mannapperuma</LastName><ForeName>Chanaka</ForeName><Initials>C</Initials><AffiliationInfo><Affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Delhomme</LastName><ForeName>Nicolas</ForeName><Initials>N</Initials><Identifier Source="ORCID">http://orcid.org/0000-0002-3053-0796</Identifier><AffiliationInfo><Affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Nilsson</LastName><ForeName>Ove</ForeName><Initials>O</Initials><Identifier Source="ORCID">http://orcid.org/0000-0002-1033-1909</Identifier><AffiliationInfo><Affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Tuominen</LastName><ForeName>Hannele</ForeName><Initials>H</Initials><Identifier Source="ORCID">http://orcid.org/0000-0002-4949-3702</Identifier><AffiliationInfo><Affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Pesquet</LastName><ForeName>Edouard</ForeName><Initials>E</Initials><Identifier Source="ORCID">http://orcid.org/0000-0002-6959-3284</Identifier><AffiliationInfo><Affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Department of Ecology, Environment and Plant Sciences, Stockholm University, 106 91 Stockholm, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Fischer</LastName><ForeName>Urs</ForeName><Initials>U</Initials><Identifier Source="ORCID">http://orcid.org/0000-0003-3642-6065</Identifier><AffiliationInfo><Affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Niittylä</LastName><ForeName>Totte</ForeName><Initials>T</Initials><AffiliationInfo><Affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Sundberg</LastName><ForeName>Björn</ForeName><Initials>B</Initials><Identifier Source="ORCID">http://orcid.org/0000-0003-1801-3873</Identifier><AffiliationInfo><Affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 87 Umeå, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Hvidsten</LastName><ForeName>Torgeir R</ForeName><Initials>TR</Initials><Identifier Source="ORCID">http://orcid.org/0000-0001-6097-2539</Identifier><AffiliationInfo><Affiliation>Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 901 87 Umeå, Sweden torgeir.hvidsten@umu.se.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Department of Chemistry, Biotechnology and Food Sciences, Norwegian University of Life Sciences, 1433 Ås, Norway.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2017</Year><Month>06</Month><Day>27</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>Plant Cell</MedlineTA><NlmUniqueID>9208688</NlmUniqueID><ISSNLinking>1040-4651</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D011134">Polysaccharides</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D002473" MajorTopicYN="N">Cell Wall</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018506" MajorTopicYN="N">Gene Expression Regulation, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D020407" MajorTopicYN="N">Internet</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018519" MajorTopicYN="N">Meristem</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D011134" MajorTopicYN="N">Polysaccharides</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000166" MajorTopicYN="N">cytology</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000254" MajorTopicYN="N">growth & development</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D059467" MajorTopicYN="Y">Transcriptome</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D014934" MajorTopicYN="N">Wood</DescriptorName><QualifierName UI="Q000166" MajorTopicYN="N">cytology</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000254" MajorTopicYN="Y">growth & development</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D052584" MajorTopicYN="N">Xylem</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2017</Year><Month>02</Month><Day>27</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2017</Year><Month>06</Month><Day>12</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2017</Year><Month>06</Month><Day>24</Day></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2017</Year><Month>6</Month><Day>29</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate 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IdType="pubmed">25516281</ArticleId></ArticleIdList></Reference></ReferenceList></PubmedData></pubmed><affiliations><list><country><li>Norvège</li><li>Suède</li></country><region><li>Comté de Stockholm</li><li>Svealand</li></region><settlement><li>Stockholm</li></settlement><orgName><li>Université de Stockholm</li></orgName></list><tree><country name="Suède"><noRegion><name sortKey="Sundell, David" sort="Sundell, David" uniqKey="Sundell D" first="David" last="Sundell">David Sundell</name></noRegion><name sortKey="Delhomme, Nicolas" sort="Delhomme, Nicolas" uniqKey="Delhomme N" first="Nicolas" last="Delhomme">Nicolas Delhomme</name><name sortKey="Fischer, Urs" sort="Fischer, Urs" uniqKey="Fischer U" first="Urs" last="Fischer">Urs Fischer</name><name sortKey="Hvidsten, Torgeir R" sort="Hvidsten, Torgeir R" uniqKey="Hvidsten T" first="Torgeir R" last="Hvidsten">Torgeir R. Hvidsten</name><name sortKey="Johnsson, Christoffer" sort="Johnsson, Christoffer" uniqKey="Johnsson C" first="Christoffer" last="Johnsson">Christoffer Johnsson</name><name sortKey="Kucukoglu, Melis" sort="Kucukoglu, Melis" uniqKey="Kucukoglu M" first="Melis" last="Kucukoglu">Melis Kucukoglu</name><name sortKey="Kumar, Manoj" sort="Kumar, Manoj" uniqKey="Kumar M" first="Manoj" last="Kumar">Manoj Kumar</name><name sortKey="Kumar, Vikash" sort="Kumar, Vikash" uniqKey="Kumar V" first="Vikash" last="Kumar">Vikash Kumar</name><name sortKey="Mannapperuma, Chanaka" sort="Mannapperuma, Chanaka" uniqKey="Mannapperuma C" first="Chanaka" last="Mannapperuma">Chanaka Mannapperuma</name><name sortKey="Mellerowicz, Ewa J" sort="Mellerowicz, Ewa J" uniqKey="Mellerowicz E" first="Ewa J" last="Mellerowicz">Ewa J. Mellerowicz</name><name sortKey="Niittyl, Totte" sort="Niittyl, Totte" uniqKey="Niittyl T" first="Totte" last="Niittyl">Totte Niittyl</name><name sortKey="Nilsson, Ove" sort="Nilsson, Ove" uniqKey="Nilsson O" first="Ove" last="Nilsson">Ove Nilsson</name><name sortKey="Pesquet, Edouard" sort="Pesquet, Edouard" uniqKey="Pesquet E" first="Edouard" last="Pesquet">Edouard Pesquet</name><name sortKey="Pesquet, Edouard" sort="Pesquet, Edouard" uniqKey="Pesquet E" first="Edouard" last="Pesquet">Edouard Pesquet</name><name sortKey="Street, Nathaniel R" sort="Street, Nathaniel R" uniqKey="Street N" first="Nathaniel R" last="Street">Nathaniel R. Street</name><name sortKey="Sundberg, Bjorn" sort="Sundberg, Bjorn" uniqKey="Sundberg B" first="Björn" last="Sundberg">Björn Sundberg</name><name sortKey="Tuominen, Hannele" sort="Tuominen, Hannele" uniqKey="Tuominen H" first="Hannele" last="Tuominen">Hannele Tuominen</name></country><country name="Norvège"><noRegion><name sortKey="Hvidsten, Torgeir R" sort="Hvidsten, Torgeir R" uniqKey="Hvidsten T" first="Torgeir R" last="Hvidsten">Torgeir R. Hvidsten</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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