Gene structures, classification, and expression models of the DREB transcription factor subfamily in Populus trichocarpa.
Identifieur interne : 002377 ( Main/Curation ); précédent : 002376; suivant : 002378Gene structures, classification, and expression models of the DREB transcription factor subfamily in Populus trichocarpa.
Auteurs : Yunlin Chen [République populaire de Chine] ; Jingli Yang ; Zhanchao Wang ; Haizhen Zhang ; Xuliang Mao ; Chenghao LiSource :
- TheScientificWorldJournal [ 1537-744X ] ; 2013.
Descripteurs français
- KwdFr :
- Analyse de profil d'expression de gènes (MeSH), Analyse de regroupements (MeSH), Cartographie chromosomique (MeSH), Chromosomes de plante (MeSH), Données de séquences moléculaires (MeSH), Facteurs de transcription (génétique), Famille multigénique (MeSH), Motifs d'acides aminés (MeSH), Phylogenèse (MeSH), Populus (classification), Populus (génétique), Protéines végétales (génétique), Régulation de l'expression des gènes végétaux (MeSH), Stress physiologique (génétique), Séquence conservée (MeSH), Séquence d'acides aminés (MeSH), Étiquettes de séquences exprimées (MeSH).
- MESH :
- génétique : Facteurs de transcription, Populus, Protéines végétales, Stress physiologique.
- Analyse de profil d'expression de gènes, Analyse de regroupements, Cartographie chromosomique, Chromosomes de plante, Données de séquences moléculaires, Famille multigénique, Motifs d'acides aminés, Phylogenèse, Régulation de l'expression des gènes végétaux, Séquence conservée, Séquence d'acides aminés, Étiquettes de séquences exprimées.
English descriptors
- KwdEn :
- Amino Acid Motifs (MeSH), Amino Acid Sequence (MeSH), Chromosome Mapping (MeSH), Chromosomes, Plant (MeSH), Cluster Analysis (MeSH), Conserved Sequence (MeSH), Expressed Sequence Tags (MeSH), Gene Expression Profiling (MeSH), Gene Expression Regulation, Plant (MeSH), Molecular Sequence Data (MeSH), Multigene Family (MeSH), Phylogeny (MeSH), Plant Proteins (genetics), Populus (classification), Populus (genetics), Stress, Physiological (genetics), Transcription Factors (genetics).
- MESH :
- chemical , genetics : Plant Proteins, Transcription Factors.
- classification : Populus.
- genetics : Populus, Stress, Physiological.
- Amino Acid Motifs, Amino Acid Sequence, Chromosome Mapping, Chromosomes, Plant, Cluster Analysis, Conserved Sequence, Expressed Sequence Tags, Gene Expression Profiling, Gene Expression Regulation, Plant, Molecular Sequence Data, Multigene Family, Phylogeny.
Abstract
We identified 75 dehydration-responsive element-binding (DREB) protein genes in Populus trichocarpa. We analyzed gene structures, phylogenies, domain duplications, genome localizations, and expression profiles. The phylogenic construction suggests that the PtrDREB gene subfamily can be classified broadly into six subtypes (DREB A-1 to A-6) in Populus. The chromosomal localizations of the PtrDREB genes indicated 18 segmental duplication events involving 36 genes and six redundant PtrDREB genes were involved in tandem duplication events. There were fewer introns in the PtrDREB subfamily. The motif composition of PtrDREB was highly conserved in the same subtype. We investigated expression profiles of this gene subfamily from different tissues and/or developmental stages. Sixteen genes present in the digital expression analysis had high levels of transcript accumulation. The microarray results suggest that 18 genes were upregulated. We further examined the stress responsiveness of 15 genes by qRT-PCR. A digital northern analysis showed that the PtrDREB17, 18, and 32 genes were highly induced in leaves under cold stress, and the same expression trends were shown by qRT-PCR. Taken together, these observations may lay the foundation for future functional analyses to unravel the biological roles of Populus' DREB genes.
DOI: 10.1155/2013/954640
PubMed: 24324388
PubMed Central: PMC3845248
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first="Zhanchao" last="Wang">Zhanchao Wang</name></author><author><name sortKey="Zhang, Haizhen" sort="Zhang, Haizhen" uniqKey="Zhang H" first="Haizhen" last="Zhang">Haizhen Zhang</name></author><author><name sortKey="Mao, Xuliang" sort="Mao, Xuliang" uniqKey="Mao X" first="Xuliang" last="Mao">Xuliang Mao</name></author><author><name sortKey="Li, Chenghao" sort="Li, Chenghao" uniqKey="Li C" first="Chenghao" last="Li">Chenghao Li</name></author></analytic><series><title level="j">TheScientificWorldJournal</title><idno type="eISSN">1537-744X</idno><imprint><date when="2013" type="published">2013</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Amino Acid Motifs (MeSH)</term><term>Amino Acid Sequence (MeSH)</term><term>Chromosome Mapping (MeSH)</term><term>Chromosomes, Plant (MeSH)</term><term>Cluster Analysis (MeSH)</term><term>Conserved Sequence (MeSH)</term><term>Expressed Sequence Tags (MeSH)</term><term>Gene Expression Profiling (MeSH)</term><term>Gene Expression Regulation, Plant (MeSH)</term><term>Molecular Sequence Data (MeSH)</term><term>Multigene Family (MeSH)</term><term>Phylogeny (MeSH)</term><term>Plant Proteins (genetics)</term><term>Populus (classification)</term><term>Populus (genetics)</term><term>Stress, Physiological (genetics)</term><term>Transcription Factors (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Analyse de profil d'expression de gènes (MeSH)</term><term>Analyse de regroupements (MeSH)</term><term>Cartographie chromosomique (MeSH)</term><term>Chromosomes de plante (MeSH)</term><term>Données de séquences moléculaires (MeSH)</term><term>Facteurs de transcription (génétique)</term><term>Famille multigénique (MeSH)</term><term>Motifs d'acides aminés (MeSH)</term><term>Phylogenèse (MeSH)</term><term>Populus (classification)</term><term>Populus (génétique)</term><term>Protéines végétales (génétique)</term><term>Régulation de l'expression des gènes végétaux (MeSH)</term><term>Stress physiologique (génétique)</term><term>Séquence conservée (MeSH)</term><term>Séquence d'acides aminés (MeSH)</term><term>Étiquettes de séquences exprimées (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Plant Proteins</term><term>Transcription Factors</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Populus</term><term>Stress, Physiological</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Facteurs de transcription</term><term>Populus</term><term>Protéines végétales</term><term>Stress physiologique</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Amino Acid Motifs</term><term>Amino Acid Sequence</term><term>Chromosome Mapping</term><term>Chromosomes, Plant</term><term>Cluster Analysis</term><term>Conserved Sequence</term><term>Expressed Sequence Tags</term><term>Gene Expression Profiling</term><term>Gene Expression Regulation, Plant</term><term>Molecular Sequence Data</term><term>Multigene Family</term><term>Phylogeny</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse de profil d'expression de gènes</term><term>Analyse de regroupements</term><term>Cartographie chromosomique</term><term>Chromosomes de plante</term><term>Données de séquences moléculaires</term><term>Famille multigénique</term><term>Motifs d'acides aminés</term><term>Phylogenèse</term><term>Régulation de l'expression des gènes végétaux</term><term>Séquence conservée</term><term>Séquence d'acides aminés</term><term>Étiquettes de séquences exprimées</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">We identified 75 dehydration-responsive element-binding (DREB) protein genes in Populus trichocarpa. We analyzed gene structures, phylogenies, domain duplications, genome localizations, and expression profiles. The phylogenic construction suggests that the PtrDREB gene subfamily can be classified broadly into six subtypes (DREB A-1 to A-6) in Populus. The chromosomal localizations of the PtrDREB genes indicated 18 segmental duplication events involving 36 genes and six redundant PtrDREB genes were involved in tandem duplication events. There were fewer introns in the PtrDREB subfamily. The motif composition of PtrDREB was highly conserved in the same subtype. We investigated expression profiles of this gene subfamily from different tissues and/or developmental stages. Sixteen genes present in the digital expression analysis had high levels of transcript accumulation. The microarray results suggest that 18 genes were upregulated. We further examined the stress responsiveness of 15 genes by qRT-PCR. A digital northern analysis showed that the PtrDREB17, 18, and 32 genes were highly induced in leaves under cold stress, and the same expression trends were shown by qRT-PCR. Taken together, these observations may lay the foundation for future functional analyses to unravel the biological roles of Populus' DREB genes. </div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">24324388</PMID><DateCompleted><Year>2014</Year><Month>06</Month><Day>20</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><ISSN IssnType="Electronic">1537-744X</ISSN><JournalIssue CitedMedium="Internet"><Volume>2013</Volume><PubDate><Year>2013</Year></PubDate></JournalIssue><Title>TheScientificWorldJournal</Title><ISOAbbreviation>ScientificWorldJournal</ISOAbbreviation></Journal><ArticleTitle>Gene structures, classification, and expression models of the DREB transcription factor subfamily in Populus trichocarpa.</ArticleTitle><Pagination><MedlinePgn>954640</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1155/2013/954640</ELocationID><Abstract><AbstractText>We identified 75 dehydration-responsive element-binding (DREB) protein genes in Populus trichocarpa. We analyzed gene structures, phylogenies, domain duplications, genome localizations, and expression profiles. The phylogenic construction suggests that the PtrDREB gene subfamily can be classified broadly into six subtypes (DREB A-1 to A-6) in Populus. The chromosomal localizations of the PtrDREB genes indicated 18 segmental duplication events involving 36 genes and six redundant PtrDREB genes were involved in tandem duplication events. There were fewer introns in the PtrDREB subfamily. The motif composition of PtrDREB was highly conserved in the same subtype. We investigated expression profiles of this gene subfamily from different tissues and/or developmental stages. Sixteen genes present in the digital expression analysis had high levels of transcript accumulation. The microarray results suggest that 18 genes were upregulated. We further examined the stress responsiveness of 15 genes by qRT-PCR. A digital northern analysis showed that the PtrDREB17, 18, and 32 genes were highly induced in leaves under cold stress, and the same expression trends were shown by qRT-PCR. Taken together, these observations may lay the foundation for future functional analyses to unravel the biological roles of Populus' DREB genes. </AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Yunlin</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Forest Genetics and Tree Breeding, Northeast Forestry University, 26 Hexing Road, Harbin 150040, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yang</LastName><ForeName>Jingli</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Zhanchao</ForeName><Initials>Z</Initials></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Haizhen</ForeName><Initials>H</Initials></Author><Author ValidYN="Y"><LastName>Mao</LastName><ForeName>Xuliang</ForeName><Initials>X</Initials></Author><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Chenghao</ForeName><Initials>C</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2013</Year><Month>11</Month><Day>13</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>ScientificWorldJournal</MedlineTA><NlmUniqueID>101131163</NlmUniqueID><ISSNLinking>1537-744X</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D010940">Plant Proteins</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D014157">Transcription Factors</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D020816" MajorTopicYN="N">Amino 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Sequence Data</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005810" MajorTopicYN="N">Multigene Family</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010802" MajorTopicYN="N">Phylogeny</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010940" MajorTopicYN="N">Plant Proteins</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="Y">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D013312" MajorTopicYN="N">Stress, Physiological</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D014157" MajorTopicYN="N">Transcription Factors</DescriptorName><QualifierName UI="Q000235" 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