Conserved noncoding sequences highlight shared components of regulatory networks in dicotyledonous plants.
Identifieur interne : 002B49 ( Main/Exploration ); précédent : 002B48; suivant : 002B50Conserved noncoding sequences highlight shared components of regulatory networks in dicotyledonous plants.
Auteurs : Laura Baxter [Royaume-Uni] ; Aleksey Jironkin ; Richard Hickman ; Jay Moore ; Christopher Barrington ; Peter Krusche ; Nigel P. Dyer ; Vicky Buchanan-Wollaston ; Alexander Tiskin ; Jim Beynon ; Katherine Denby ; Sascha OttSource :
- The Plant cell [ 1532-298X ] ; 2012.
Descripteurs français
- KwdFr :
- ADN des plantes (composition chimique), Analyse de séquence d'ADN (MeSH), Arabidopsis (génétique), Carica (génétique), Génomique (MeSH), Logiciel (MeSH), Nucléosomes (métabolisme), Populus (génétique), Régulation de l'expression des gènes végétaux (MeSH), Réseaux de régulation génique (MeSH), Sites de fixation (MeSH), Séquence conservée (MeSH), Vitis (génétique).
- MESH :
- composition chimique : ADN des plantes.
- génétique : Arabidopsis, Carica, Populus, Vitis.
- métabolisme : Nucléosomes.
- Analyse de séquence d'ADN, Génomique, Logiciel, Régulation de l'expression des gènes végétaux, Réseaux de régulation génique, Sites de fixation, Séquence conservée.
English descriptors
- KwdEn :
- Arabidopsis (genetics), Binding Sites (MeSH), Carica (genetics), Conserved Sequence (MeSH), DNA, Plant (chemistry), Gene Expression Regulation, Plant (MeSH), Gene Regulatory Networks (MeSH), Genomics (MeSH), Nucleosomes (metabolism), Populus (genetics), Sequence Analysis, DNA (MeSH), Software (MeSH), Vitis (genetics).
- MESH :
- chemical , chemistry : DNA, Plant.
- genetics : Arabidopsis, Carica, Populus, Vitis.
- chemical , metabolism : Nucleosomes.
- Binding Sites, Conserved Sequence, Gene Expression Regulation, Plant, Gene Regulatory Networks, Genomics, Sequence Analysis, DNA, Software.
Abstract
Conserved noncoding sequences (CNSs) in DNA are reliable pointers to regulatory elements controlling gene expression. Using a comparative genomics approach with four dicotyledonous plant species (Arabidopsis thaliana, papaya [Carica papaya], poplar [Populus trichocarpa], and grape [Vitis vinifera]), we detected hundreds of CNSs upstream of Arabidopsis genes. Distinct positioning, length, and enrichment for transcription factor binding sites suggest these CNSs play a functional role in transcriptional regulation. The enrichment of transcription factors within the set of genes associated with CNS is consistent with the hypothesis that together they form part of a conserved transcriptional network whose function is to regulate other transcription factors and control development. We identified a set of promoters where regulatory mechanisms are likely to be shared between the model organism Arabidopsis and other dicots, providing areas of focus for further research.
DOI: 10.1105/tpc.112.103010
PubMed: 23110901
PubMed Central: PMC3517229
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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Using a comparative genomics approach with four dicotyledonous plant species (Arabidopsis thaliana, papaya [Carica papaya], poplar [Populus trichocarpa], and grape [Vitis vinifera]), we detected hundreds of CNSs upstream of Arabidopsis genes. Distinct positioning, length, and enrichment for transcription factor binding sites suggest these CNSs play a functional role in transcriptional regulation. The enrichment of transcription factors within the set of genes associated with CNS is consistent with the hypothesis that together they form part of a conserved transcriptional network whose function is to regulate other transcription factors and control development. We identified a set of promoters where regulatory mechanisms are likely to be shared between the model organism Arabidopsis and other dicots, providing areas of focus for further research.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">23110901</PMID><DateCompleted><Year>2013</Year><Month>06</Month><Day>20</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1532-298X</ISSN><JournalIssue CitedMedium="Internet"><Volume>24</Volume><Issue>10</Issue><PubDate><Year>2012</Year><Month>Oct</Month></PubDate></JournalIssue><Title>The Plant cell</Title><ISOAbbreviation>Plant Cell</ISOAbbreviation></Journal><ArticleTitle>Conserved noncoding sequences highlight shared components of regulatory networks in dicotyledonous plants.</ArticleTitle><Pagination><MedlinePgn>3949-65</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1105/tpc.112.103010</ELocationID><Abstract><AbstractText>Conserved noncoding sequences (CNSs) in DNA are reliable pointers to regulatory elements controlling gene expression. Using a comparative genomics approach with four dicotyledonous plant species (Arabidopsis thaliana, papaya [Carica papaya], poplar [Populus trichocarpa], and grape [Vitis vinifera]), we detected hundreds of CNSs upstream of Arabidopsis genes. Distinct positioning, length, and enrichment for transcription factor binding sites suggest these CNSs play a functional role in transcriptional regulation. The enrichment of transcription factors within the set of genes associated with CNS is consistent with the hypothesis that together they form part of a conserved transcriptional network whose function is to regulate other transcription factors and control development. We identified a set of promoters where regulatory mechanisms are likely to be shared between the model organism Arabidopsis and other dicots, providing areas of focus for further research.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Baxter</LastName><ForeName>Laura</ForeName><Initials>L</Initials><AffiliationInfo><Affiliation>Warwick Systems Biology Centre, University of Warwick, Coventry CV4 7AL, United Kingdom.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Jironkin</LastName><ForeName>Aleksey</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Hickman</LastName><ForeName>Richard</ForeName><Initials>R</Initials></Author><Author ValidYN="Y"><LastName>Moore</LastName><ForeName>Jay</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Barrington</LastName><ForeName>Christopher</ForeName><Initials>C</Initials></Author><Author ValidYN="Y"><LastName>Krusche</LastName><ForeName>Peter</ForeName><Initials>P</Initials></Author><Author ValidYN="Y"><LastName>Dyer</LastName><ForeName>Nigel P</ForeName><Initials>NP</Initials></Author><Author ValidYN="Y"><LastName>Buchanan-Wollaston</LastName><ForeName>Vicky</ForeName><Initials>V</Initials></Author><Author ValidYN="Y"><LastName>Tiskin</LastName><ForeName>Alexander</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Beynon</LastName><ForeName>Jim</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Denby</LastName><ForeName>Katherine</ForeName><Initials>K</Initials></Author><Author ValidYN="Y"><LastName>Ott</LastName><ForeName>Sascha</ForeName><Initials>S</Initials></Author></AuthorList><Language>eng</Language><GrantList CompleteYN="Y"><Grant><GrantID>BB/I004521/1</GrantID><Agency>Biotechnology and Biological Sciences Research Council</Agency><Country>United 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sortKey="Beynon, Jim" sort="Beynon, Jim" uniqKey="Beynon J" first="Jim" last="Beynon">Jim Beynon</name><name sortKey="Buchanan Wollaston, Vicky" sort="Buchanan Wollaston, Vicky" uniqKey="Buchanan Wollaston V" first="Vicky" last="Buchanan-Wollaston">Vicky Buchanan-Wollaston</name><name sortKey="Denby, Katherine" sort="Denby, Katherine" uniqKey="Denby K" first="Katherine" last="Denby">Katherine Denby</name><name sortKey="Dyer, Nigel P" sort="Dyer, Nigel P" uniqKey="Dyer N" first="Nigel P" last="Dyer">Nigel P. Dyer</name><name sortKey="Hickman, Richard" sort="Hickman, Richard" uniqKey="Hickman R" first="Richard" last="Hickman">Richard Hickman</name><name sortKey="Jironkin, Aleksey" sort="Jironkin, Aleksey" uniqKey="Jironkin A" first="Aleksey" last="Jironkin">Aleksey Jironkin</name><name sortKey="Krusche, Peter" sort="Krusche, Peter" uniqKey="Krusche P" first="Peter" last="Krusche">Peter Krusche</name><name sortKey="Moore, Jay" sort="Moore, Jay" uniqKey="Moore J" first="Jay" last="Moore">Jay Moore</name><name sortKey="Ott, Sascha" sort="Ott, Sascha" uniqKey="Ott S" first="Sascha" last="Ott">Sascha Ott</name><name sortKey="Tiskin, Alexander" sort="Tiskin, Alexander" uniqKey="Tiskin A" first="Alexander" last="Tiskin">Alexander Tiskin</name></noCountry><country name="Royaume-Uni"><noRegion><name sortKey="Baxter, Laura" sort="Baxter, Laura" uniqKey="Baxter L" first="Laura" last="Baxter">Laura Baxter</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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