Comparative genomics and evolutionary analyses of the O-methyltransferase gene family in Populus.
Identifieur interne : 002F49 ( Main/Exploration ); précédent : 002F48; suivant : 002F50Comparative genomics and evolutionary analyses of the O-methyltransferase gene family in Populus.
Auteurs : Abdelali Barakat [États-Unis] ; Alex Choi ; Norzawani Buang M. Yassin ; Joseph S. Park ; Zichao Sun ; John E. CarlsonSource :
- Gene [ 1879-0038 ] ; 2011.
Descripteurs français
- KwdFr :
- MESH :
- enzymologie : Populus.
- génétique : Populus, Protein O-methyltransferase.
- Alignement de séquences, Famille multigénique, Gènes de plante, Phylogenèse, Évolution moléculaire.
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : Protein O-Methyltransferase.
- enzymology : Populus.
- genetics : Populus.
- Evolution, Molecular, Genes, Plant, Multigene Family, Phylogeny, Sequence Alignment.
Abstract
S-adenosyl-l-methionine (SAM) dependent O-methyltransferases (OMTs) proteins are involved in the methylation of various secondary metabolites. The OMT genes have been studied in various plants, but these studies focused either on a single or a small set of genes. Moreover, no comprehensive study was published yet on the OMT gene family in a tree species. To investigate the evolutionary history of this gene family and the functional diversification of its members, phylogenetic and several comparative genomics analyses were performed. Phylogeny across land plant lineages showed that OMT genes were distributed in two main classes deeply rooted in the phylogeny of land plants, suggesting that they have evolved by a gene duplication that had happen in the ancestor of land plants. COMT and COMT-like genes were clustering with few flavonoid and multifunctional OMT genes in class II. Class I included flavonoid, simple phenol, and multifunctional OMT genes. All 26 Populus OMT genes were located in segmental duplication blocks and two third of them were tandem duplicated, indicating the role of duplication processes in the expansion of this gene family. Expression profiling of OMT genes in Populus showed that only PoptrOMT25 was differentially expressed in xylem. The other genes were differentially expressed in leaves, bark, or both. Some OMT genes showed differential expression patterns under various biotic and abiotic stresses. The divergence of protein sequences, the phylogenetic distribution, and the expression of COMT and COMT-like genes suggest that they have evolved different functions or tissue specificities following duplications.
DOI: 10.1016/j.gene.2011.02.008
PubMed: 21338660
Affiliations:
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Yassin</name></author><author><name sortKey="Park, Joseph S" sort="Park, Joseph S" uniqKey="Park J" first="Joseph S" last="Park">Joseph S. Park</name></author><author><name sortKey="Sun, Zichao" sort="Sun, Zichao" uniqKey="Sun Z" first="Zichao" last="Sun">Zichao Sun</name></author><author><name sortKey="Carlson, John E" sort="Carlson, John E" uniqKey="Carlson J" first="John E" last="Carlson">John E. 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Yassin</name></author><author><name sortKey="Park, Joseph S" sort="Park, Joseph S" uniqKey="Park J" first="Joseph S" last="Park">Joseph S. Park</name></author><author><name sortKey="Sun, Zichao" sort="Sun, Zichao" uniqKey="Sun Z" first="Zichao" last="Sun">Zichao Sun</name></author><author><name sortKey="Carlson, John E" sort="Carlson, John E" uniqKey="Carlson J" first="John E" last="Carlson">John E. Carlson</name></author></analytic><series><title level="j">Gene</title><idno type="eISSN">1879-0038</idno><imprint><date when="2011" type="published">2011</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Evolution, Molecular (MeSH)</term><term>Genes, Plant (MeSH)</term><term>Multigene Family (MeSH)</term><term>Phylogeny (MeSH)</term><term>Populus (enzymology)</term><term>Populus (genetics)</term><term>Protein O-Methyltransferase (genetics)</term><term>Sequence Alignment (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Alignement de séquences (MeSH)</term><term>Famille multigénique (MeSH)</term><term>Gènes de plante (MeSH)</term><term>Phylogenèse (MeSH)</term><term>Populus (enzymologie)</term><term>Populus (génétique)</term><term>Protein O-methyltransferase (génétique)</term><term>Évolution moléculaire (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Protein O-Methyltransferase</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>Populus</term><term>Protein O-methyltransferase</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Evolution, Molecular</term><term>Genes, Plant</term><term>Multigene Family</term><term>Phylogeny</term><term>Sequence Alignment</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Alignement de séquences</term><term>Famille multigénique</term><term>Gènes de plante</term><term>Phylogenèse</term><term>Évolution moléculaire</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">S-adenosyl-l-methionine (SAM) dependent O-methyltransferases (OMTs) proteins are involved in the methylation of various secondary metabolites. The OMT genes have been studied in various plants, but these studies focused either on a single or a small set of genes. Moreover, no comprehensive study was published yet on the OMT gene family in a tree species. To investigate the evolutionary history of this gene family and the functional diversification of its members, phylogenetic and several comparative genomics analyses were performed. Phylogeny across land plant lineages showed that OMT genes were distributed in two main classes deeply rooted in the phylogeny of land plants, suggesting that they have evolved by a gene duplication that had happen in the ancestor of land plants. COMT and COMT-like genes were clustering with few flavonoid and multifunctional OMT genes in class II. Class I included flavonoid, simple phenol, and multifunctional OMT genes. All 26 Populus OMT genes were located in segmental duplication blocks and two third of them were tandem duplicated, indicating the role of duplication processes in the expansion of this gene family. Expression profiling of OMT genes in Populus showed that only PoptrOMT25 was differentially expressed in xylem. The other genes were differentially expressed in leaves, bark, or both. Some OMT genes showed differential expression patterns under various biotic and abiotic stresses. The divergence of protein sequences, the phylogenetic distribution, and the expression of COMT and COMT-like genes suggest that they have evolved different functions or tissue specificities following duplications.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">21338660</PMID><DateCompleted><Year>2011</Year><Month>07</Month><Day>01</Day></DateCompleted><DateRevised><Year>2011</Year><Month>05</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1879-0038</ISSN><JournalIssue CitedMedium="Internet"><Volume>479</Volume><Issue>1-2</Issue><PubDate><Year>2011</Year><Month>Jun</Month><Day>15</Day></PubDate></JournalIssue><Title>Gene</Title><ISOAbbreviation>Gene</ISOAbbreviation></Journal><ArticleTitle>Comparative genomics and evolutionary analyses of the O-methyltransferase gene family in Populus.</ArticleTitle><Pagination><MedlinePgn>37-46</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1016/j.gene.2011.02.008</ELocationID><Abstract><AbstractText>S-adenosyl-l-methionine (SAM) dependent O-methyltransferases (OMTs) proteins are involved in the methylation of various secondary metabolites. The OMT genes have been studied in various plants, but these studies focused either on a single or a small set of genes. Moreover, no comprehensive study was published yet on the OMT gene family in a tree species. To investigate the evolutionary history of this gene family and the functional diversification of its members, phylogenetic and several comparative genomics analyses were performed. Phylogeny across land plant lineages showed that OMT genes were distributed in two main classes deeply rooted in the phylogeny of land plants, suggesting that they have evolved by a gene duplication that had happen in the ancestor of land plants. COMT and COMT-like genes were clustering with few flavonoid and multifunctional OMT genes in class II. Class I included flavonoid, simple phenol, and multifunctional OMT genes. All 26 Populus OMT genes were located in segmental duplication blocks and two third of them were tandem duplicated, indicating the role of duplication processes in the expansion of this gene family. Expression profiling of OMT genes in Populus showed that only PoptrOMT25 was differentially expressed in xylem. The other genes were differentially expressed in leaves, bark, or both. Some OMT genes showed differential expression patterns under various biotic and abiotic stresses. The divergence of protein sequences, the phylogenetic distribution, and the expression of COMT and COMT-like genes suggest that they have evolved different functions or tissue specificities following duplications.</AbstractText><CopyrightInformation>Copyright © 2011 Elsevier B.V. All rights reserved.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Barakat</LastName><ForeName>Abdelali</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>The School of Forest Resources and The Huck Institutes of the Life Sciences, The Pennsylvania State University, 326 Forest Resources Building, University Park, PA 16802, USA. abaraka@clemson.edu</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Choi</LastName><ForeName>Alex</ForeName><Initials>A</Initials></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>Sun</LastName><ForeName>Zichao</ForeName><Initials>Z</Initials></Author><Author ValidYN="Y"><LastName>Carlson</LastName><ForeName>John E</ForeName><Initials>JE</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D003160">Comparative Study</PublicationType><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>02</Month><Day>19</Day></ArticleDate></Article><MedlineJournalInfo><Country>Netherlands</Country><MedlineTA>Gene</MedlineTA><NlmUniqueID>7706761</NlmUniqueID><ISSNLinking>0378-1119</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>EC 2.1.1.-</RegistryNumber><NameOfSubstance UI="D011497">Protein O-Methyltransferase</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D019143" MajorTopicYN="Y">Evolution, Molecular</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017343" MajorTopicYN="Y">Genes, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005810" MajorTopicYN="N">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="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D011497" MajorTopicYN="N">Protein O-Methyltransferase</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D016415" MajorTopicYN="N">Sequence Alignment</DescriptorName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2011</Year><Month>01</Month><Day>05</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2011</Year><Month>02</Month><Day>07</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2011</Year><Month>02</Month><Day>13</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2011</Year><Month>2</Month><Day>23</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2011</Year><Month>2</Month><Day>23</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2011</Year><Month>7</Month><Day>2</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">21338660</ArticleId><ArticleId IdType="pii">S0378-1119(11)00075-8</ArticleId><ArticleId IdType="doi">10.1016/j.gene.2011.02.008</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>États-Unis</li></country><region><li>Pennsylvanie</li></region><settlement><li>University Park (Pennsylvanie)</li></settlement><orgName><li>Université d'État de Pennsylvanie</li></orgName></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="Park, Joseph S" sort="Park, Joseph S" uniqKey="Park J" first="Joseph S" last="Park">Joseph S. Park</name><name sortKey="Sun, Zichao" sort="Sun, Zichao" uniqKey="Sun Z" first="Zichao" last="Sun">Zichao Sun</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="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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