Comparative and phylogenomic analyses of cinnamoyl-CoA reductase and cinnamoyl-CoA-reductase-like gene family in land plants.
Identifieur interne : 002F51 ( Main/Exploration ); précédent : 002F50; suivant : 002F52Comparative and phylogenomic analyses of cinnamoyl-CoA reductase and cinnamoyl-CoA-reductase-like gene family in land plants.
Auteurs : Abdelali Barakat [Corée du Sud] ; Norzawani Buang M. Yassin ; Joseph S. Park ; Alex Choi ; Josh Herr ; John E. CarlsonSource :
- Plant science : an international journal of experimental plant biology [ 1873-2259 ] ; 2011.
Descripteurs français
- KwdFr :
- Aldehyde oxidoreductases (génétique), Aldehyde oxidoreductases (métabolisme), Alignement de séquences (MeSH), Annotation de séquence moléculaire (MeSH), Données de séquences moléculaires (MeSH), Gènes de plante (MeSH), Lignine (biosynthèse), Lignine (génétique), Phylogenèse (MeSH), Populus (enzymologie), Populus (génétique), Populus (métabolisme), Régulation de l'expression des gènes végétaux (MeSH), Séquence d'acides aminés (MeSH), Évolution moléculaire (MeSH).
- MESH :
- biosynthèse : Lignine.
- enzymologie : Populus.
- génétique : Aldehyde oxidoreductases, Lignine, Populus.
- métabolisme : Aldehyde oxidoreductases, Populus.
- Alignement de séquences, Annotation de séquence moléculaire, Données de séquences moléculaires, Gènes de plante, Phylogenèse, Régulation de l'expression des gènes végétaux, Séquence d'acides aminés, Évolution moléculaire.
English descriptors
- KwdEn :
- Aldehyde Oxidoreductases (genetics), Aldehyde Oxidoreductases (metabolism), Amino Acid Sequence (MeSH), Evolution, Molecular (MeSH), Gene Expression Regulation, Plant (MeSH), Genes, Plant (MeSH), Lignin (biosynthesis), Lignin (genetics), Molecular Sequence Annotation (MeSH), Molecular Sequence Data (MeSH), Phylogeny (MeSH), Populus (enzymology), Populus (genetics), Populus (metabolism), Sequence Alignment (MeSH).
- MESH :
- chemical , biosynthesis : Lignin.
- chemical , genetics : Aldehyde Oxidoreductases, Lignin.
- chemical , metabolism : Aldehyde Oxidoreductases.
- enzymology : Populus.
- genetics : Populus.
- metabolism : Populus.
- Amino Acid Sequence, Evolution, Molecular, Gene Expression Regulation, Plant, Genes, Plant, Molecular Sequence Annotation, Molecular Sequence Data, Phylogeny, Sequence Alignment.
Abstract
The biosynthesis of monolignols, the main components of lignin, involves many intermediates and enzymes. The cinnamoyl-CoA reductase (CCR) enzyme catalyzes the conversion of cinnamoyl-CoAs to cinnamaldehydes, i.e. the first specific step in lignin synthesis. The CCR and CCR-like gene family was studied partially in several plant species. This is a comprehensive study of the CCR and CCR-like gene family including genome organization, gene structure, phylogeny across land plant species, and, expression profiling in Populus. Analysis of amino acid motifs enabled the identification of sequence variations in the CCR catalytic site and annotates CCR and CCR-like genes. CCR and CCR-like genes were distributed in three major phylogenetic classes of which one includes the bona fide CCR genes. The other two classes include CCR and CCR-like, of which several genes present a high similarity to cinnamyl alcohol dehydrogenase, or dihydroflavonol reductase (DFR) genes. All CCR, CCR-like, and DFR classes were deeply rooted in the phylogeny of land plants suggesting that their evolution preceded the evolution of lycophytes. Over two thirds of CCR and CCR-like Populus genes were physically distributed on duplicated regions. This suggests that these duplication/retention processes contributed significantly to the size of the CCR and CCR-like gene family. The Populus CCR and CCR-like genes showed six expression patterns in the tissues studied with a preferential expression of PoptrCCR12 in xylem. The other genes present divergent expression profiles with some preferentially expressed in leaves, bark, or both. Several CCR and CCR-like genes were induced or repressed under various abiotic stresses suggesting that their duplication was followed by the evolution of divergent expression profiles and divergence of functions.
DOI: 10.1016/j.plantsci.2011.05.012
PubMed: 21763535
Affiliations:
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Carlson</name></author></analytic><series><title level="j">Plant science : an international journal of experimental plant biology</title><idno type="eISSN">1873-2259</idno><imprint><date when="2011" type="published">2011</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Aldehyde Oxidoreductases (genetics)</term><term>Aldehyde Oxidoreductases (metabolism)</term><term>Amino Acid Sequence (MeSH)</term><term>Evolution, Molecular (MeSH)</term><term>Gene Expression Regulation, Plant (MeSH)</term><term>Genes, Plant (MeSH)</term><term>Lignin (biosynthesis)</term><term>Lignin (genetics)</term><term>Molecular Sequence Annotation (MeSH)</term><term>Molecular Sequence Data (MeSH)</term><term>Phylogeny (MeSH)</term><term>Populus (enzymology)</term><term>Populus (genetics)</term><term>Populus (metabolism)</term><term>Sequence Alignment (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Aldehyde oxidoreductases (génétique)</term><term>Aldehyde oxidoreductases (métabolisme)</term><term>Alignement de séquences (MeSH)</term><term>Annotation de séquence moléculaire (MeSH)</term><term>Données de séquences moléculaires (MeSH)</term><term>Gènes de plante (MeSH)</term><term>Lignine (biosynthèse)</term><term>Lignine (génétique)</term><term>Phylogenèse (MeSH)</term><term>Populus (enzymologie)</term><term>Populus (génétique)</term><term>Populus (métabolisme)</term><term>Régulation de l'expression des gènes végétaux (MeSH)</term><term>Séquence d'acides aminés (MeSH)</term><term>Évolution moléculaire (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="biosynthesis" xml:lang="en"><term>Lignin</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Aldehyde Oxidoreductases</term><term>Lignin</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Aldehyde Oxidoreductases</term></keywords><keywords scheme="MESH" qualifier="biosynthèse" xml:lang="fr"><term>Lignine</term></keywords><keywords scheme="MESH" qualifier="enzymologie" xml:lang="fr"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="enzymology" xml:lang="en"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Aldehyde oxidoreductases</term><term>Lignine</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Aldehyde oxidoreductases</term><term>Populus</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Amino Acid Sequence</term><term>Evolution, Molecular</term><term>Gene Expression Regulation, Plant</term><term>Genes, Plant</term><term>Molecular Sequence Annotation</term><term>Molecular Sequence Data</term><term>Phylogeny</term><term>Sequence Alignment</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Alignement de séquences</term><term>Annotation de séquence moléculaire</term><term>Données de séquences moléculaires</term><term>Gènes de plante</term><term>Phylogenèse</term><term>Régulation de l'expression des gènes végétaux</term><term>Séquence d'acides aminés</term><term>Évolution moléculaire</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The biosynthesis of monolignols, the main components of lignin, involves many intermediates and enzymes. 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All CCR, CCR-like, and DFR classes were deeply rooted in the phylogeny of land plants suggesting that their evolution preceded the evolution of lycophytes. Over two thirds of CCR and CCR-like Populus genes were physically distributed on duplicated regions. This suggests that these duplication/retention processes contributed significantly to the size of the CCR and CCR-like gene family. The Populus CCR and CCR-like genes showed six expression patterns in the tissues studied with a preferential expression of PoptrCCR12 in xylem. The other genes present divergent expression profiles with some preferentially expressed in leaves, bark, or both. Several CCR and CCR-like genes were induced or repressed under various abiotic stresses suggesting that their duplication was followed by the evolution of divergent expression profiles and divergence of functions.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">21763535</PMID><DateCompleted><Year>2011</Year><Month>10</Month><Day>24</Day></DateCompleted><DateRevised><Year>2020</Year><Month>09</Month><Day>30</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1873-2259</ISSN><JournalIssue CitedMedium="Internet"><Volume>181</Volume><Issue>3</Issue><PubDate><Year>2011</Year><Month>Sep</Month></PubDate></JournalIssue><Title>Plant science : an international journal of experimental plant biology</Title><ISOAbbreviation>Plant Sci</ISOAbbreviation></Journal><ArticleTitle>Comparative and phylogenomic analyses of cinnamoyl-CoA reductase and cinnamoyl-CoA-reductase-like gene family in land plants.</ArticleTitle><Pagination><MedlinePgn>249-57</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1016/j.plantsci.2011.05.012</ELocationID><Abstract><AbstractText>The biosynthesis of monolignols, the main components of lignin, involves many intermediates and enzymes. The cinnamoyl-CoA reductase (CCR) enzyme catalyzes the conversion of cinnamoyl-CoAs to cinnamaldehydes, i.e. the first specific step in lignin synthesis. The CCR and CCR-like gene family was studied partially in several plant species. This is a comprehensive study of the CCR and CCR-like gene family including genome organization, gene structure, phylogeny across land plant species, and, expression profiling in Populus. Analysis of amino acid motifs enabled the identification of sequence variations in the CCR catalytic site and annotates CCR and CCR-like genes. CCR and CCR-like genes were distributed in three major phylogenetic classes of which one includes the bona fide CCR genes. The other two classes include CCR and CCR-like, of which several genes present a high similarity to cinnamyl alcohol dehydrogenase, or dihydroflavonol reductase (DFR) genes. All CCR, CCR-like, and DFR classes were deeply rooted in the phylogeny of land plants suggesting that their evolution preceded the evolution of lycophytes. Over two thirds of CCR and CCR-like Populus genes were physically distributed on duplicated regions. This suggests that these duplication/retention processes contributed significantly to the size of the CCR and CCR-like gene family. The Populus CCR and CCR-like genes showed six expression patterns in the tissues studied with a preferential expression of PoptrCCR12 in xylem. The other genes present divergent expression profiles with some preferentially expressed in leaves, bark, or both. Several CCR and CCR-like genes were induced or repressed under various abiotic stresses suggesting that their duplication was followed by the evolution of divergent expression profiles and divergence of functions.</AbstractText><CopyrightInformation>Copyright © 2011 Elsevier Ireland Ltd. All rights reserved.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Barakat</LastName><ForeName>Abdelali</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>The Department of Bioenergy Science & Technology. Chonnam National University, Buk-Gu, Gwangju, 500-757, Republic of Korea. abaraka@clemson.edu</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yassin</LastName><ForeName>Norzawani Buang M</ForeName><Initials>NB</Initials></Author><Author ValidYN="Y"><LastName>Park</LastName><ForeName>Joseph S</ForeName><Initials>JS</Initials></Author><Author ValidYN="Y"><LastName>Choi</LastName><ForeName>Alex</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Herr</LastName><ForeName>Josh</ForeName><Initials>J</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>2011</Year><Month>05</Month><Day>26</Day></ArticleDate></Article><MedlineJournalInfo><Country>Ireland</Country><MedlineTA>Plant Sci</MedlineTA><NlmUniqueID>9882015</NlmUniqueID><ISSNLinking>0168-9452</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>9005-53-2</RegistryNumber><NameOfSubstance UI="D008031">Lignin</NameOfSubstance></Chemical><Chemical><RegistryNumber>EC 1.2.-</RegistryNumber><NameOfSubstance UI="D000445">Aldehyde Oxidoreductases</NameOfSubstance></Chemical><Chemical><RegistryNumber>EC 1.2.1.44</RegistryNumber><NameOfSubstance UI="C019904">cinnamoyl CoA reductase</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D000445" MajorTopicYN="N">Aldehyde Oxidoreductases</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D000595" MajorTopicYN="N">Amino Acid Sequence</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D019143" MajorTopicYN="N">Evolution, Molecular</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="D008031" MajorTopicYN="N">Lignin</DescriptorName><QualifierName UI="Q000096" MajorTopicYN="N">biosynthesis</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D058977" MajorTopicYN="N">Molecular Sequence Annotation</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D008969" MajorTopicYN="N">Molecular Sequence Data</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010802" MajorTopicYN="N">Phylogeny</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000201" MajorTopicYN="Y">enzymology</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D016415" MajorTopicYN="N">Sequence Alignment</DescriptorName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2011</Year><Month>04</Month><Day>06</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2011</Year><Month>05</Month><Day>16</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2011</Year><Month>05</Month><Day>17</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2011</Year><Month>7</Month><Day>19</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2011</Year><Month>7</Month><Day>19</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2011</Year><Month>10</Month><Day>25</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">21763535</ArticleId><ArticleId IdType="pii">S0168-9452(11)00159-2</ArticleId><ArticleId IdType="doi">10.1016/j.plantsci.2011.05.012</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Corée du Sud</li></country></list><tree><noCountry><name sortKey="Carlson, John E" sort="Carlson, John E" uniqKey="Carlson J" first="John E" last="Carlson">John E. Carlson</name><name sortKey="Choi, Alex" sort="Choi, Alex" uniqKey="Choi A" first="Alex" last="Choi">Alex Choi</name><name sortKey="Herr, Josh" sort="Herr, Josh" uniqKey="Herr J" first="Josh" last="Herr">Josh Herr</name><name sortKey="Park, Joseph S" sort="Park, Joseph S" uniqKey="Park J" first="Joseph S" last="Park">Joseph S. Park</name><name sortKey="Yassin, Norzawani Buang M" sort="Yassin, Norzawani Buang M" uniqKey="Yassin N" first="Norzawani Buang M" last="Yassin">Norzawani Buang M. Yassin</name></noCountry><country name="Corée du Sud"><noRegion><name sortKey="Barakat, Abdelali" sort="Barakat, Abdelali" uniqKey="Barakat A" first="Abdelali" last="Barakat">Abdelali Barakat</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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