Vascular expression in Arabidopsis is predicted by the frequency of CT/GA-rich repeats in gene promoters.
Identifieur interne : 002C54 ( Main/Exploration ); précédent : 002C53; suivant : 002C55Vascular expression in Arabidopsis is predicted by the frequency of CT/GA-rich repeats in gene promoters.
Auteurs : Roberto Ruiz-Medrano [Mexique] ; Beatriz Xoconostle-Cázares ; Byung-Kook Ham ; Gang Li ; William J. LucasSource :
- The Plant journal : for cell and molecular biology [ 1365-313X ] ; 2011.
Descripteurs français
- KwdFr :
- ADN des plantes (génétique), ARN des plantes (génétique), ARN messager (génétique), Arabidopsis (génétique), Bases de données d'acides nucléiques (MeSH), Biologie informatique (MeSH), Cucumis sativus (génétique), Cucurbita (génétique), Feuilles de plante (génétique), Gènes de plante (génétique), Oryza (génétique), Phloème (génétique), Populus (génétique), Région 5' flanquante (génétique), Régions promotrices (génétique) (génétique), Similitude de séquences d'acides nucléiques (MeSH), Séquences répétées d'acides nucléiques (MeSH), Transcriptome (MeSH), Végétaux génétiquement modifiés (génétique).
- MESH :
- génétique : ADN des plantes, ARN des plantes, ARN messager, Arabidopsis, Cucumis sativus, Cucurbita, Feuilles de plante, Gènes de plante, Oryza, Phloème, Populus, Région 5' flanquante, Régions promotrices (génétique), Végétaux génétiquement modifiés.
- Bases de données d'acides nucléiques, Biologie informatique, Similitude de séquences d'acides nucléiques, Séquences répétées d'acides nucléiques, Transcriptome.
English descriptors
- KwdEn :
- 5' Flanking Region (genetics), Arabidopsis (genetics), Computational Biology (MeSH), Cucumis sativus (genetics), Cucurbita (genetics), DNA, Plant (genetics), Databases, Nucleic Acid (MeSH), Genes, Plant (genetics), Oryza (genetics), Phloem (genetics), Plant Leaves (genetics), Plants, Genetically Modified (genetics), Populus (genetics), Promoter Regions, Genetic (genetics), RNA, Messenger (genetics), RNA, Plant (genetics), Repetitive Sequences, Nucleic Acid (MeSH), Sequence Homology, Nucleic Acid (MeSH), Transcriptome (MeSH).
- MESH :
- chemical , genetics : DNA, Plant, RNA, Messenger, RNA, Plant.
- genetics : 5' Flanking Region, Arabidopsis, Cucumis sativus, Cucurbita, Genes, Plant, Oryza, Phloem, Plant Leaves, Plants, Genetically Modified, Populus, Promoter Regions, Genetic.
- Computational Biology, Databases, Nucleic Acid, Repetitive Sequences, Nucleic Acid, Sequence Homology, Nucleic Acid, Transcriptome.
Abstract
Phloem-transported signals play an important role in regulating plant development and in orchestrating responses to environmental stimuli. Among such signals, phloem-mobile RNAs have been shown to play an important role as long-distance signaling agents. At maturity, angiosperm sieve elements are enucleate, and thus transcripts in the phloem translocation stream probably originate from the nucleate companion cells. In the present study, a pumpkin (Cucurbita maxima) phloem transcriptome was used to test for the presence of common motifs within the promoters of this unique set of genes, which may function to coordinate expression in cells of the vascular system. A bioinformatics analysis of the upstream sequences from 150 Arabidopsis genes homologous to members of the pumpkin phloem transcriptome identified degenerate sequences containing CT/GA- and GT/CA-rich motifs that were common to many of these promoters. Parallel studies performed on genes shown previously to be expressed in phloem tissues identified similar motifs. An expanded analysis, based on homologs of the pumpkin phloem transcriptome from cucumber (Cucumis sativus), identified similar sets of common motifs within the promoters of these genes. Promoter analysis offered support for the hypothesis that these motifs regulate expression within the vascular system. Our findings are discussed in terms of a role for these motifs in coordinating gene expression within the companion cell/sieve element system. These motifs could provide a useful bioinformatics tool for genome-wide screens on plants for which phloem tissues cannot readily be obtained.
DOI: 10.1111/j.1365-313X.2011.04581.x
PubMed: 21435051
Affiliations:
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Lucas</name></author></analytic><series><title level="j">The Plant journal : for cell and molecular biology</title><idno type="eISSN">1365-313X</idno><imprint><date when="2011" type="published">2011</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>5' Flanking Region (genetics)</term><term>Arabidopsis (genetics)</term><term>Computational Biology (MeSH)</term><term>Cucumis sativus (genetics)</term><term>Cucurbita (genetics)</term><term>DNA, Plant (genetics)</term><term>Databases, Nucleic Acid (MeSH)</term><term>Genes, Plant (genetics)</term><term>Oryza (genetics)</term><term>Phloem (genetics)</term><term>Plant Leaves (genetics)</term><term>Plants, Genetically Modified (genetics)</term><term>Populus (genetics)</term><term>Promoter Regions, Genetic (genetics)</term><term>RNA, Messenger (genetics)</term><term>RNA, Plant (genetics)</term><term>Repetitive Sequences, Nucleic Acid (MeSH)</term><term>Sequence Homology, Nucleic Acid (MeSH)</term><term>Transcriptome (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ADN des plantes (génétique)</term><term>ARN des plantes (génétique)</term><term>ARN messager (génétique)</term><term>Arabidopsis (génétique)</term><term>Bases de données d'acides nucléiques (MeSH)</term><term>Biologie informatique (MeSH)</term><term>Cucumis sativus (génétique)</term><term>Cucurbita (génétique)</term><term>Feuilles de plante (génétique)</term><term>Gènes de plante (génétique)</term><term>Oryza (génétique)</term><term>Phloème (génétique)</term><term>Populus (génétique)</term><term>Région 5' flanquante (génétique)</term><term>Régions promotrices (génétique) (génétique)</term><term>Similitude de séquences d'acides nucléiques (MeSH)</term><term>Séquences répétées d'acides nucléiques (MeSH)</term><term>Transcriptome (MeSH)</term><term>Végétaux génétiquement modifiés (génétique)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>DNA, Plant</term><term>RNA, Messenger</term><term>RNA, Plant</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>5' Flanking Region</term><term>Arabidopsis</term><term>Cucumis sativus</term><term>Cucurbita</term><term>Genes, Plant</term><term>Oryza</term><term>Phloem</term><term>Plant Leaves</term><term>Plants, Genetically Modified</term><term>Populus</term><term>Promoter Regions, Genetic</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ADN des plantes</term><term>ARN des plantes</term><term>ARN messager</term><term>Arabidopsis</term><term>Cucumis sativus</term><term>Cucurbita</term><term>Feuilles de plante</term><term>Gènes de plante</term><term>Oryza</term><term>Phloème</term><term>Populus</term><term>Région 5' flanquante</term><term>Régions promotrices (génétique)</term><term>Végétaux génétiquement modifiés</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Computational Biology</term><term>Databases, Nucleic Acid</term><term>Repetitive Sequences, Nucleic Acid</term><term>Sequence Homology, Nucleic Acid</term><term>Transcriptome</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Bases de données d'acides nucléiques</term><term>Biologie informatique</term><term>Similitude de séquences d'acides nucléiques</term><term>Séquences répétées d'acides nucléiques</term><term>Transcriptome</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Phloem-transported signals play an important role in regulating plant development and in orchestrating responses to environmental stimuli. Among such signals, phloem-mobile RNAs have been shown to play an important role as long-distance signaling agents. At maturity, angiosperm sieve elements are enucleate, and thus transcripts in the phloem translocation stream probably originate from the nucleate companion cells. In the present study, a pumpkin (Cucurbita maxima) phloem transcriptome was used to test for the presence of common motifs within the promoters of this unique set of genes, which may function to coordinate expression in cells of the vascular system. A bioinformatics analysis of the upstream sequences from 150 Arabidopsis genes homologous to members of the pumpkin phloem transcriptome identified degenerate sequences containing CT/GA- and GT/CA-rich motifs that were common to many of these promoters. Parallel studies performed on genes shown previously to be expressed in phloem tissues identified similar motifs. An expanded analysis, based on homologs of the pumpkin phloem transcriptome from cucumber (Cucumis sativus), identified similar sets of common motifs within the promoters of these genes. Promoter analysis offered support for the hypothesis that these motifs regulate expression within the vascular system. Our findings are discussed in terms of a role for these motifs in coordinating gene expression within the companion cell/sieve element system. These motifs could provide a useful bioinformatics tool for genome-wide screens on plants for which phloem tissues cannot readily be obtained.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">21435051</PMID><DateCompleted><Year>2012</Year><Month>02</Month><Day>27</Day></DateCompleted><DateRevised><Year>2015</Year><Month>11</Month><Day>19</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1365-313X</ISSN><JournalIssue CitedMedium="Internet"><Volume>67</Volume><Issue>1</Issue><PubDate><Year>2011</Year><Month>Jul</Month></PubDate></JournalIssue><Title>The Plant journal : for cell and molecular biology</Title><ISOAbbreviation>Plant J</ISOAbbreviation></Journal><ArticleTitle>Vascular expression in Arabidopsis is predicted by the frequency of CT/GA-rich repeats in gene promoters.</ArticleTitle><Pagination><MedlinePgn>130-44</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1111/j.1365-313X.2011.04581.x</ELocationID><Abstract><AbstractText>Phloem-transported signals play an important role in regulating plant development and in orchestrating responses to environmental stimuli. Among such signals, phloem-mobile RNAs have been shown to play an important role as long-distance signaling agents. At maturity, angiosperm sieve elements are enucleate, and thus transcripts in the phloem translocation stream probably originate from the nucleate companion cells. In the present study, a pumpkin (Cucurbita maxima) phloem transcriptome was used to test for the presence of common motifs within the promoters of this unique set of genes, which may function to coordinate expression in cells of the vascular system. A bioinformatics analysis of the upstream sequences from 150 Arabidopsis genes homologous to members of the pumpkin phloem transcriptome identified degenerate sequences containing CT/GA- and GT/CA-rich motifs that were common to many of these promoters. Parallel studies performed on genes shown previously to be expressed in phloem tissues identified similar motifs. An expanded analysis, based on homologs of the pumpkin phloem transcriptome from cucumber (Cucumis sativus), identified similar sets of common motifs within the promoters of these genes. Promoter analysis offered support for the hypothesis that these motifs regulate expression within the vascular system. Our findings are discussed in terms of a role for these motifs in coordinating gene expression within the companion cell/sieve element system. These motifs could provide a useful bioinformatics tool for genome-wide screens on plants for which phloem tissues cannot readily be obtained.</AbstractText><CopyrightInformation>© 2011 The Authors. The Plant Journal © 2011 Blackwell Publishing Ltd.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Ruiz-Medrano</LastName><ForeName>Roberto</ForeName><Initials>R</Initials><AffiliationInfo><Affiliation>Department of Biotechnology and Bioengineering, Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional, Avenida IPN 2508, Zacatenco, 07360 Mexico DF, Mexico.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Xoconostle-Cázares</LastName><ForeName>Beatriz</ForeName><Initials>B</Initials></Author><Author ValidYN="Y"><LastName>Ham</LastName><ForeName>Byung-Kook</ForeName><Initials>BK</Initials></Author><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Gang</ForeName><Initials>G</Initials></Author><Author ValidYN="Y"><LastName>Lucas</LastName><ForeName>William J</ForeName><Initials>WJ</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal 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PubStatus="entrez"><Year>2011</Year><Month>3</Month><Day>26</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2011</Year><Month>3</Month><Day>26</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2012</Year><Month>3</Month><Day>1</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">21435051</ArticleId><ArticleId IdType="doi">10.1111/j.1365-313X.2011.04581.x</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Mexique</li></country></list><tree><noCountry><name sortKey="Ham, Byung Kook" sort="Ham, Byung Kook" uniqKey="Ham B" first="Byung-Kook" last="Ham">Byung-Kook Ham</name><name sortKey="Li, Gang" sort="Li, Gang" uniqKey="Li G" first="Gang" last="Li">Gang Li</name><name sortKey="Lucas, William J" sort="Lucas, William J" uniqKey="Lucas W" first="William J" last="Lucas">William J. Lucas</name><name sortKey="Xoconostle Cazares, Beatriz" sort="Xoconostle Cazares, Beatriz" uniqKey="Xoconostle Cazares B" first="Beatriz" last="Xoconostle-Cázares">Beatriz Xoconostle-Cázares</name></noCountry><country name="Mexique"><noRegion><name sortKey="Ruiz Medrano, Roberto" sort="Ruiz Medrano, Roberto" uniqKey="Ruiz Medrano R" first="Roberto" last="Ruiz-Medrano">Roberto Ruiz-Medrano</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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