The cinnamyl alcohol dehydrogenase gene family in Populus: phylogeny, organization, and expression.
Identifieur interne : 003463 ( Main/Exploration ); précédent : 003462; suivant : 003464The cinnamyl alcohol dehydrogenase gene family in Populus: phylogeny, organization, and expression.
Auteurs : Abdelali Barakat [États-Unis] ; Agnieszka Bagniewska-Zadworna ; Alex Choi ; Urmila Plakkat ; Denis S. Diloreto ; Priyadarshini Yellanki ; John E. CarlsonSource :
- BMC plant biology [ 1471-2229 ] ; 2009.
Descripteurs français
- KwdFr :
- ADN des plantes (génétique), Alcohol oxidoreductases (génétique), Alignement de séquences (MeSH), Analyse de profil d'expression de gènes (MeSH), Analyse de séquence d'ADN (MeSH), Duplication de gène (MeSH), Exons (MeSH), Famille multigénique (MeSH), Gènes de plante (MeSH), Génome végétal (MeSH), Introns (MeSH), Lignine (métabolisme), Phylogenèse (MeSH), Populus (enzymologie), Populus (génétique), Régions promotrices (génétique) (MeSH), Régulation de l'expression des gènes végétaux (MeSH), Évolution moléculaire (MeSH).
- MESH :
- enzymologie : Populus.
- génétique : ADN des plantes, Alcohol oxidoreductases, Populus.
- métabolisme : Lignine.
- Alignement de séquences, Analyse de profil d'expression de gènes, Analyse de séquence d'ADN, Duplication de gène, Exons, Famille multigénique, Gènes de plante, Génome végétal, Introns, Phylogenèse, Régions promotrices (génétique), Régulation de l'expression des gènes végétaux, Évolution moléculaire.
English descriptors
- KwdEn :
- Alcohol Oxidoreductases (genetics), DNA, Plant (genetics), Evolution, Molecular (MeSH), Exons (MeSH), Gene Duplication (MeSH), Gene Expression Profiling (MeSH), Gene Expression Regulation, Plant (MeSH), Genes, Plant (MeSH), Genome, Plant (MeSH), Introns (MeSH), Lignin (metabolism), Multigene Family (MeSH), Phylogeny (MeSH), Populus (enzymology), Populus (genetics), Promoter Regions, Genetic (MeSH), Sequence Alignment (MeSH), Sequence Analysis, DNA (MeSH).
- MESH :
- chemical , genetics : Alcohol Oxidoreductases, DNA, Plant.
- chemical , metabolism : Lignin.
- enzymology : Populus.
- genetics : Populus.
- Evolution, Molecular, Exons, Gene Duplication, Gene Expression Profiling, Gene Expression Regulation, Plant, Genes, Plant, Genome, Plant, Introns, Multigene Family, Phylogeny, Promoter Regions, Genetic, Sequence Alignment, Sequence Analysis, DNA.
Abstract
BACKGROUND
Lignin is a phenolic heteropolymer in secondary cell walls that plays a major role in the development of plants and their defense against pathogens. The biosynthesis of monolignols, which represent the main component of lignin involves many enzymes. The cinnamyl alcohol dehydrogenase (CAD) is a key enzyme in lignin biosynthesis as it catalyzes the final step in the synthesis of monolignols. The CAD gene family has been studied in Arabidopsis thaliana, Oryza sativa and partially in Populus. This is the first comprehensive study on the CAD gene family in woody plants including genome organization, gene structure, phylogeny across land plant lineages, and expression profiling in Populus.
RESULTS
The phylogenetic analyses showed that CAD genes fall into three main classes (clades), one of which is represented by CAD sequences from gymnosperms and angiosperms. The other two clades are represented by sequences only from angiosperms. All Populus CAD genes, except PoptrCAD 4 are distributed in Class II and Class III. CAD genes associated with xylem development (PoptrCAD 4 and PoptrCAD 10) belong to Class I and Class II. Most of the CAD genes are physically distributed on duplicated blocks and are still in conserved locations on the homeologous duplicated blocks. Promoter analysis of CAD genes revealed several motifs involved in gene expression modulation under various biological and physiological processes. The CAD genes showed different expression patterns in poplar with only two genes preferentially expressed in xylem tissues during lignin biosynthesis.
CONCLUSION
The phylogeny of CAD genes suggests that the radiation of this gene family may have occurred in the early ancestry of angiosperms. Gene distribution on the chromosomes of Populus showed that both large scale and tandem duplications contributed significantly to the CAD gene family expansion. The duplication of several CAD genes seems to be associated with a genome duplication event that happened in the ancestor of Salicaceae. Phylogenetic analyses associated with expression profiling and results from previous studies suggest that CAD genes involved in wood development belong to Class I and Class II. The other CAD genes from Class II and Class III may function in plant tissues under biotic stresses. The conservation of most duplicated CAD genes, the differential distribution of motifs in their promoter regions, and the divergence of their expression profiles in various tissues of Populus plants indicate that genes in the CAD family have evolved tissue-specialized expression profiles and may have divergent functions.
DOI: 10.1186/1471-2229-9-26
PubMed: 19267902
PubMed Central: PMC2662859
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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The biosynthesis of monolignols, which represent the main component of lignin involves many enzymes. The cinnamyl alcohol dehydrogenase (CAD) is a key enzyme in lignin biosynthesis as it catalyzes the final step in the synthesis of monolignols. The CAD gene family has been studied in Arabidopsis thaliana, Oryza sativa and partially in Populus. This is the first comprehensive study on the CAD gene family in woody plants including genome organization, gene structure, phylogeny across land plant lineages, and expression profiling in Populus.</p></div><div type="abstract" xml:lang="en"><p><b>RESULTS</b></p><p>The phylogenetic analyses showed that CAD genes fall into three main classes (clades), one of which is represented by CAD sequences from gymnosperms and angiosperms. The other two clades are represented by sequences only from angiosperms. All Populus CAD genes, except PoptrCAD 4 are distributed in Class II and Class III. CAD genes associated with xylem development (PoptrCAD 4 and PoptrCAD 10) belong to Class I and Class II. Most of the CAD genes are physically distributed on duplicated blocks and are still in conserved locations on the homeologous duplicated blocks. Promoter analysis of CAD genes revealed several motifs involved in gene expression modulation under various biological and physiological processes. The CAD genes showed different expression patterns in poplar with only two genes preferentially expressed in xylem tissues during lignin biosynthesis.</p></div><div type="abstract" xml:lang="en"><p><b>CONCLUSION</b></p><p>The phylogeny of CAD genes suggests that the radiation of this gene family may have occurred in the early ancestry of angiosperms. Gene distribution on the chromosomes of Populus showed that both large scale and tandem duplications contributed significantly to the CAD gene family expansion. The duplication of several CAD genes seems to be associated with a genome duplication event that happened in the ancestor of Salicaceae. Phylogenetic analyses associated with expression profiling and results from previous studies suggest that CAD genes involved in wood development belong to Class I and Class II. The other CAD genes from Class II and Class III may function in plant tissues under biotic stresses. The conservation of most duplicated CAD genes, the differential distribution of motifs in their promoter regions, and the divergence of their expression profiles in various tissues of Populus plants indicate that genes in the CAD family have evolved tissue-specialized expression profiles and may have divergent functions.</p></div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">19267902</PMID><DateCompleted><Year>2009</Year><Month>04</Month><Day>06</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">1471-2229</ISSN><JournalIssue CitedMedium="Internet"><Volume>9</Volume><PubDate><Year>2009</Year><Month>Mar</Month><Day>06</Day></PubDate></JournalIssue><Title>BMC plant biology</Title><ISOAbbreviation>BMC Plant Biol</ISOAbbreviation></Journal><ArticleTitle>The cinnamyl alcohol dehydrogenase gene family in Populus: phylogeny, organization, and expression.</ArticleTitle><Pagination><MedlinePgn>26</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1186/1471-2229-9-26</ELocationID><Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">Lignin is a phenolic heteropolymer in secondary cell walls that plays a major role in the development of plants and their defense against pathogens. The biosynthesis of monolignols, which represent the main component of lignin involves many enzymes. The cinnamyl alcohol dehydrogenase (CAD) is a key enzyme in lignin biosynthesis as it catalyzes the final step in the synthesis of monolignols. The CAD gene family has been studied in Arabidopsis thaliana, Oryza sativa and partially in Populus. This is the first comprehensive study on the CAD gene family in woody plants including genome organization, gene structure, phylogeny across land plant lineages, and expression profiling in Populus.</AbstractText><AbstractText Label="RESULTS" NlmCategory="RESULTS">The phylogenetic analyses showed that CAD genes fall into three main classes (clades), one of which is represented by CAD sequences from gymnosperms and angiosperms. The other two clades are represented by sequences only from angiosperms. All Populus CAD genes, except PoptrCAD 4 are distributed in Class II and Class III. CAD genes associated with xylem development (PoptrCAD 4 and PoptrCAD 10) belong to Class I and Class II. Most of the CAD genes are physically distributed on duplicated blocks and are still in conserved locations on the homeologous duplicated blocks. Promoter analysis of CAD genes revealed several motifs involved in gene expression modulation under various biological and physiological processes. The CAD genes showed different expression patterns in poplar with only two genes preferentially expressed in xylem tissues during lignin biosynthesis.</AbstractText><AbstractText Label="CONCLUSION" NlmCategory="CONCLUSIONS">The phylogeny of CAD genes suggests that the radiation of this gene family may have occurred in the early ancestry of angiosperms. Gene distribution on the chromosomes of Populus showed that both large scale and tandem duplications contributed significantly to the CAD gene family expansion. The duplication of several CAD genes seems to be associated with a genome duplication event that happened in the ancestor of Salicaceae. Phylogenetic analyses associated with expression profiling and results from previous studies suggest that CAD genes involved in wood development belong to Class I and Class II. The other CAD genes from Class II and Class III may function in plant tissues under biotic stresses. The conservation of most duplicated CAD genes, the differential distribution of motifs in their promoter regions, and the divergence of their expression profiles in various tissues of Populus plants indicate that genes in the CAD family have evolved tissue-specialized expression profiles and may have divergent functions.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Barakat</LastName><ForeName>Abdelali</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>The School of Forest Resources, The Huck Institutes of the Life Sciences, Pennsylvania State University, 324 Forest Resources Building, University Park, PA 16802, USA. aub14@psu.edu</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Bagniewska-Zadworna</LastName><ForeName>Agnieszka</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Choi</LastName><ForeName>Alex</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Plakkat</LastName><ForeName>Urmila</ForeName><Initials>U</Initials></Author><Author ValidYN="Y"><LastName>DiLoreto</LastName><ForeName>Denis S</ForeName><Initials>DS</Initials></Author><Author ValidYN="Y"><LastName>Yellanki</LastName><ForeName>Priyadarshini</ForeName><Initials>P</Initials></Author><Author ValidYN="Y"><LastName>Carlson</LastName><ForeName>John E</ForeName><Initials>JE</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>2009</Year><Month>03</Month><Day>06</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>BMC Plant Biol</MedlineTA><NlmUniqueID>100967807</NlmUniqueID><ISSNLinking>1471-2229</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D018744">DNA, Plant</NameOfSubstance></Chemical><Chemical><RegistryNumber>9005-53-2</RegistryNumber><NameOfSubstance UI="D008031">Lignin</NameOfSubstance></Chemical><Chemical><RegistryNumber>EC 1.1.-</RegistryNumber><NameOfSubstance UI="D000429">Alcohol Oxidoreductases</NameOfSubstance></Chemical><Chemical><RegistryNumber>EC 1.1.1.195</RegistryNumber><NameOfSubstance UI="C018656">cinnamyl alcohol dehydrogenase</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D000429" MajorTopicYN="N">Alcohol Oxidoreductases</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018744" MajorTopicYN="N">DNA, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D019143" MajorTopicYN="N">Evolution, Molecular</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005091" MajorTopicYN="N">Exons</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D020440" MajorTopicYN="N">Gene Duplication</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D020869" MajorTopicYN="N">Gene Expression Profiling</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018506" MajorTopicYN="N">Gene Expression Regulation, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017343" MajorTopicYN="N">Genes, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018745" MajorTopicYN="N">Genome, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D007438" MajorTopicYN="N">Introns</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D008031" MajorTopicYN="N">Lignin</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D005810" MajorTopicYN="Y">Multigene Family</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010802" MajorTopicYN="Y">Phylogeny</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000201" MajorTopicYN="Y">enzymology</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D011401" MajorTopicYN="N">Promoter Regions, Genetic</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D016415" MajorTopicYN="N">Sequence Alignment</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017422" MajorTopicYN="N">Sequence Analysis, DNA</DescriptorName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate 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Carlson</name><name sortKey="Choi, Alex" sort="Choi, Alex" uniqKey="Choi A" first="Alex" last="Choi">Alex Choi</name><name sortKey="Diloreto, Denis S" sort="Diloreto, Denis S" uniqKey="Diloreto D" first="Denis S" last="Diloreto">Denis S. Diloreto</name><name sortKey="Plakkat, Urmila" sort="Plakkat, Urmila" uniqKey="Plakkat U" first="Urmila" last="Plakkat">Urmila Plakkat</name><name sortKey="Yellanki, Priyadarshini" sort="Yellanki, Priyadarshini" uniqKey="Yellanki P" first="Priyadarshini" last="Yellanki">Priyadarshini Yellanki</name></noCountry><country name="États-Unis"><region name="Pennsylvanie"><name sortKey="Barakat, Abdelali" sort="Barakat, Abdelali" uniqKey="Barakat A" first="Abdelali" last="Barakat">Abdelali Barakat</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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