Genome-wide analysis of ethylene-responsive element binding factor-associated amphiphilic repression motif-containing transcriptional regulators in Arabidopsis.
Identifieur interne : 003248 ( Main/Exploration ); précédent : 003247; suivant : 003249Genome-wide analysis of ethylene-responsive element binding factor-associated amphiphilic repression motif-containing transcriptional regulators in Arabidopsis.
Auteurs : Sateesh Kagale [Canada] ; Matthew G. Links ; Kevin RozwadowskiSource :
- Plant physiology [ 1532-2548 ] ; 2010.
Descripteurs français
- KwdFr :
- Alignement de séquences (MeSH), Analyse de séquence de protéine (MeSH), Arabidopsis (génétique), Arabidopsis (métabolisme), Biologie informatique (MeSH), Données de séquences moléculaires (MeSH), Facteurs de transcription (génétique), Facteurs de transcription (métabolisme), Famille multigénique (MeSH), Génome végétal (MeSH), Motifs d'acides aminés (MeSH), Phosphorylation (MeSH), Protéines d'Arabidopsis (génétique), Protéines d'Arabidopsis (métabolisme), Régulation de l'expression des gènes végétaux (MeSH), Séquence d'acides aminés (MeSH), Éthylènes (métabolisme).
- MESH :
- génétique : Arabidopsis, Facteurs de transcription, Protéines d'Arabidopsis.
- métabolisme : Arabidopsis, Facteurs de transcription, Protéines d'Arabidopsis, Éthylènes.
- Alignement de séquences, Analyse de séquence de protéine, Biologie informatique, Données de séquences moléculaires, Famille multigénique, Génome végétal, Motifs d'acides aminés, Phosphorylation, Régulation de l'expression des gènes végétaux, Séquence d'acides aminés.
English descriptors
- KwdEn :
- Amino Acid Motifs (MeSH), Amino Acid Sequence (MeSH), Arabidopsis (genetics), Arabidopsis (metabolism), Arabidopsis Proteins (genetics), Arabidopsis Proteins (metabolism), Computational Biology (MeSH), Ethylenes (metabolism), Gene Expression Regulation, Plant (MeSH), Genome, Plant (MeSH), Molecular Sequence Data (MeSH), Multigene Family (MeSH), Phosphorylation (MeSH), Sequence Alignment (MeSH), Sequence Analysis, Protein (MeSH), Transcription Factors (genetics), Transcription Factors (metabolism).
- MESH :
- chemical , genetics : Arabidopsis Proteins, Transcription Factors.
- genetics : Arabidopsis.
- metabolism : Arabidopsis, Arabidopsis Proteins, Ethylenes, Transcription Factors.
- Amino Acid Motifs, Amino Acid Sequence, Computational Biology, Gene Expression Regulation, Plant, Genome, Plant, Molecular Sequence Data, Multigene Family, Phosphorylation, Sequence Alignment, Sequence Analysis, Protein.
Abstract
The ethylene-responsive element binding factor-associated amphiphilic repression (EAR) motif is a transcriptional regulatory motif identified in members of the ethylene-responsive element binding factor, C2H2, and auxin/indole-3-acetic acid families of transcriptional regulators. Sequence comparison of the core EAR motif sites from these proteins revealed two distinct conservation patterns: LxLxL and DLNxxP. Proteins containing these motifs play key roles in diverse biological functions by negatively regulating genes involved in developmental, hormonal, and stress signaling pathways. Through a genome-wide bioinformatics analysis, we have identified the complete repertoire of the EAR repressome in Arabidopsis (Arabidopsis thaliana) comprising 219 proteins belonging to 21 different transcriptional regulator families. Approximately 72% of these proteins contain a LxLxL type of EAR motif, 22% contain a DLNxxP type of EAR motif, and the remaining 6% have a motif where LxLxL and DLNxxP are overlapping. Published in vitro and in planta investigations support approximately 40% of these proteins functioning as negative regulators of gene expression. Comparative sequence analysis of EAR motif sites and adjoining regions has identified additional preferred residues and potential posttranslational modification sites that may influence the functionality of the EAR motif. Homology searches against protein databases of poplar (Populus trichocarpa), grapevine (Vitis vinifera), rice (Oryza sativa), and sorghum (Sorghum bicolor) revealed that the EAR motif is conserved across these diverse plant species. This genome-wide analysis represents the most extensive survey of EAR motif-containing proteins in Arabidopsis to date and provides a resource enabling investigations into their biological roles and the mechanism of EAR motif-mediated transcriptional regulation.
DOI: 10.1104/pp.109.151704
PubMed: 20097792
PubMed Central: PMC2832246
Affiliations:
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Sequence comparison of the core EAR motif sites from these proteins revealed two distinct conservation patterns: LxLxL and DLNxxP. Proteins containing these motifs play key roles in diverse biological functions by negatively regulating genes involved in developmental, hormonal, and stress signaling pathways. Through a genome-wide bioinformatics analysis, we have identified the complete repertoire of the EAR repressome in Arabidopsis (Arabidopsis thaliana) comprising 219 proteins belonging to 21 different transcriptional regulator families. Approximately 72% of these proteins contain a LxLxL type of EAR motif, 22% contain a DLNxxP type of EAR motif, and the remaining 6% have a motif where LxLxL and DLNxxP are overlapping. Published in vitro and in planta investigations support approximately 40% of these proteins functioning as negative regulators of gene expression. Comparative sequence analysis of EAR motif sites and adjoining regions has identified additional preferred residues and potential posttranslational modification sites that may influence the functionality of the EAR motif. Homology searches against protein databases of poplar (Populus trichocarpa), grapevine (Vitis vinifera), rice (Oryza sativa), and sorghum (Sorghum bicolor) revealed that the EAR motif is conserved across these diverse plant species. This genome-wide analysis represents the most extensive survey of EAR motif-containing proteins in Arabidopsis to date and provides a resource enabling investigations into their biological roles and the mechanism of EAR motif-mediated transcriptional regulation.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">20097792</PMID><DateCompleted><Year>2010</Year><Month>06</Month><Day>16</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1532-2548</ISSN><JournalIssue CitedMedium="Internet"><Volume>152</Volume><Issue>3</Issue><PubDate><Year>2010</Year><Month>Mar</Month></PubDate></JournalIssue><Title>Plant physiology</Title><ISOAbbreviation>Plant Physiol</ISOAbbreviation></Journal><ArticleTitle>Genome-wide analysis of ethylene-responsive element binding factor-associated amphiphilic repression motif-containing transcriptional regulators in Arabidopsis.</ArticleTitle><Pagination><MedlinePgn>1109-34</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1104/pp.109.151704</ELocationID><Abstract><AbstractText>The ethylene-responsive element binding factor-associated amphiphilic repression (EAR) motif is a transcriptional regulatory motif identified in members of the ethylene-responsive element binding factor, C2H2, and auxin/indole-3-acetic acid families of transcriptional regulators. Sequence comparison of the core EAR motif sites from these proteins revealed two distinct conservation patterns: LxLxL and DLNxxP. Proteins containing these motifs play key roles in diverse biological functions by negatively regulating genes involved in developmental, hormonal, and stress signaling pathways. Through a genome-wide bioinformatics analysis, we have identified the complete repertoire of the EAR repressome in Arabidopsis (Arabidopsis thaliana) comprising 219 proteins belonging to 21 different transcriptional regulator families. Approximately 72% of these proteins contain a LxLxL type of EAR motif, 22% contain a DLNxxP type of EAR motif, and the remaining 6% have a motif where LxLxL and DLNxxP are overlapping. Published in vitro and in planta investigations support approximately 40% of these proteins functioning as negative regulators of gene expression. Comparative sequence analysis of EAR motif sites and adjoining regions has identified additional preferred residues and potential posttranslational modification sites that may influence the functionality of the EAR motif. Homology searches against protein databases of poplar (Populus trichocarpa), grapevine (Vitis vinifera), rice (Oryza sativa), and sorghum (Sorghum bicolor) revealed that the EAR motif is conserved across these diverse plant species. This genome-wide analysis represents the most extensive survey of EAR motif-containing proteins in Arabidopsis to date and provides a resource enabling investigations into their biological roles and the mechanism of EAR motif-mediated transcriptional regulation.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Kagale</LastName><ForeName>Sateesh</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>Saskatoon Research Centre, Agriculture and Agri-Food Canada, Saskatoon, Saskatchewan S7N 0X2, Canada.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Links</LastName><ForeName>Matthew G</ForeName><Initials>MG</Initials></Author><Author ValidYN="Y"><LastName>Rozwadowski</LastName><ForeName>Kevin</ForeName><Initials>K</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. 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