Genome-Wide Analysis of PHOSPHOLIPID:DIACYLGLYCEROL ACYLTRANSFERASE (PDAT) Genes in Plants Reveals the Eudicot-Wide PDAT Gene Expansion and Altered Selective Pressures Acting on the Core Eudicot PDAT Paralogs1[OPEN]
Identifieur interne : 000D21 ( Pmc/Curation ); précédent : 000D20; suivant : 000D22Genome-Wide Analysis of PHOSPHOLIPID:DIACYLGLYCEROL ACYLTRANSFERASE (PDAT) Genes in Plants Reveals the Eudicot-Wide PDAT Gene Expansion and Altered Selective Pressures Acting on the Core Eudicot PDAT Paralogs1[OPEN]
Auteurs : Xue Pan ; Fred Y. Peng ; Randall J. WeselakeSource :
- Plant Physiology [ 0032-0889 ] ; 2015.
Abstract
Ancient gene duplication may have led to the diversification of a key acyltransferase of plant triacylglycerol synthesis in the core eudicots.
Url:
DOI: 10.1104/pp.114.253658
PubMed: 25585619
PubMed Central: 4348769
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Genome-Wide Analysis of <italic>PHOSPHOLIPID</italic>:<italic>DIACYLGLYCEROL ACYLTRANSFERASE</italic> (<italic>PDAT</italic>) Genes in Plants Reveals the Eudicot-Wide <italic>PDAT</italic> Gene Expansion and Altered Selective Pressures Acting on the Core Eudicot <italic>PDAT</italic> Paralogs<xref ref-type="fn" rid="fn1"><sup>1</sup></xref><xref ref-type="fn" rid="fn2"><sup>[OPEN]</sup></xref></title><author><name sortKey="Pan, Xue" sort="Pan, Xue" uniqKey="Pan X" first="Xue" last="Pan">Xue Pan</name></author><author><name sortKey="Peng, Fred Y" sort="Peng, Fred Y" uniqKey="Peng F" first="Fred Y." last="Peng">Fred Y. Peng</name></author><author><name sortKey="Weselake, Randall J" sort="Weselake, Randall J" uniqKey="Weselake R" first="Randall J." last="Weselake">Randall J. Weselake</name></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">25585619</idno><idno type="pmc">4348769</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4348769</idno><idno type="RBID">PMC:4348769</idno><idno type="doi">10.1104/pp.114.253658</idno><date when="2015">2015</date><idno type="wicri:Area/Pmc/Corpus">000D22</idno><idno type="wicri:Area/Pmc/Curation">000D21</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Genome-Wide Analysis of <italic>PHOSPHOLIPID</italic>:<italic>DIACYLGLYCEROL ACYLTRANSFERASE</italic> (<italic>PDAT</italic>) Genes in Plants Reveals the Eudicot-Wide <italic>PDAT</italic> Gene Expansion and Altered Selective Pressures Acting on the Core Eudicot <italic>PDAT</italic> Paralogs<xref ref-type="fn" rid="fn1"><sup>1</sup></xref><xref ref-type="fn" rid="fn2"><sup>[OPEN]</sup></xref></title><author><name sortKey="Pan, Xue" sort="Pan, Xue" uniqKey="Pan X" first="Xue" last="Pan">Xue Pan</name></author><author><name sortKey="Peng, Fred Y" sort="Peng, Fred Y" uniqKey="Peng F" first="Fred Y." last="Peng">Fred Y. Peng</name></author><author><name sortKey="Weselake, Randall J" sort="Weselake, Randall J" uniqKey="Weselake R" first="Randall J." last="Weselake">Randall J. Weselake</name></author></analytic><series><title level="j">Plant Physiology</title><idno type="ISSN">0032-0889</idno><idno type="eISSN">1532-2548</idno><imprint><date when="2015">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Ancient gene duplication may have led to the diversification of a key acyltransferase of plant triacylglycerol synthesis in the core eudicots.</p></div></front></TEI><pmc article-type="research-article"><pmc-comment>The publisher of this article does not allow downloading of the full text in XML form.</pmc-comment>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Plant Physiol</journal-id><journal-id journal-id-type="iso-abbrev">Plant Physiol</journal-id><journal-id journal-id-type="hwp">plantphysiol</journal-id><journal-id journal-id-type="publisher-id">aspb</journal-id><journal-title-group><journal-title>Plant Physiology</journal-title></journal-title-group><issn pub-type="ppub">0032-0889</issn><issn pub-type="epub">1532-2548</issn><publisher><publisher-name>American Society of Plant Biologists</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">25585619</article-id><article-id pub-id-type="pmc">4348769</article-id><article-id pub-id-type="publisher-id">253658</article-id><article-id pub-id-type="doi">10.1104/pp.114.253658</article-id><article-categories><subj-group subj-group-type="heading"><subject>Articles</subject><subj-group subj-group-type="heading"><subject>Genes, Development, and Evolution</subject></subj-group></subj-group></article-categories><title-group><article-title>Genome-Wide Analysis of <italic>PHOSPHOLIPID</italic>:<italic>DIACYLGLYCEROL ACYLTRANSFERASE</italic> (<italic>PDAT</italic>) Genes in Plants Reveals the Eudicot-Wide <italic>PDAT</italic> Gene Expansion and Altered Selective Pressures Acting on the Core Eudicot <italic>PDAT</italic> Paralogs<xref ref-type="fn" rid="fn1"><sup>1</sup></xref><xref ref-type="fn" rid="fn2"><sup>[OPEN]</sup></xref></article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Pan</surname><given-names>Xue</given-names></name></contrib><contrib contrib-type="author"><name><surname>Peng</surname><given-names>Fred Y.</given-names></name></contrib><contrib contrib-type="author"><name><surname>Weselake</surname><given-names>Randall J.</given-names></name><xref ref-type="corresp" rid="cor1">*</xref></contrib><aff id="aff1">Agricultural Lipid Biotechnology Program, Department of Agricultural, Food, and Nutritional Science, University of Alberta, Edmonton, Alberta, Canada T6G 2P5</aff></contrib-group><author-notes><fn><p><ext-link ext-link-type="uri" xlink:href="http://www.plantphysiol.org/cgi/doi/10.1104/pp.114.253658">www.plantphysiol.org/cgi/doi/10.1104/pp.114.253658</ext-link></p></fn><corresp id="cor1"><label>*</label>Address correspondence to <email>randall.weselake@ualberta.ca</email>.</corresp><fn id="afn1"><p>The author responsible for distribution of materials integral to the findings presented in this article in accordance with the policy described in the Instructions for Authors (<ext-link ext-link-type="uri" xlink:href="http://www.plantphysiol.org">www.plantphysiol.org</ext-link>) is: Randall J. Weselake (<email>randall.weselake@ualberta.ca</email>).</p></fn></author-notes><pmc-comment>Fake ppub date generated by PMC from publisher pub-date/@pub-type='epub-ppub' </pmc-comment>
<pub-date pub-type="ppub"><month>3</month><year>2015</year></pub-date><pub-date pub-type="epub"><day>13</day><month>1</month><year>2015</year></pub-date><pub-date pub-type="pmc-release"><day>13</day><month>1</month><year>2015</year></pub-date><pmc-comment> PMC Release delay is 0 months and 0 days and was based on the
<volume>167</volume><issue>3</issue><fpage>887</fpage><lpage>904</lpage><history><date date-type="received"><day>13</day><month>11</month><year>2014</year></date><date date-type="accepted"><day>10</day><month>1</month><year>2015</year></date></history><permissions><copyright-statement>© 2015 American Society of Plant Biologists. All Rights Reserved.</copyright-statement><copyright-year>2015</copyright-year></permissions><self-uri xlink:role="icon" xlink:href="PP_253658_ic1.gif"></self-uri><self-uri content-type="alt-lang-pdf zh" xlink:href="887.chinese.pdf"></self-uri><abstract abstract-type="precis"><p>Ancient gene duplication may have led to the diversification of a key acyltransferase of plant triacylglycerol synthesis in the core eudicots.</p></abstract><abstract><p>PHOSPHOLIPID:DIACYLGLYCEROL ACYLTRANSFERASE (PDAT) is an enzyme that catalyzes the transfer of a fatty acyl moiety from the <italic>sn</italic>-2 position of a phospholipid to the <italic>sn</italic>-3-position of <italic>sn</italic>-1,2-diacylglyerol, thus forming triacylglycerol and a lysophospholipid. Although the importance of PDAT in triacylglycerol biosynthesis has been illustrated in some previous studies, the evolutionary relationship of plant <italic>PDAT</italic>s has not been studied in detail. In this study, we investigated the evolutionary relationship of the <italic>PDAT</italic> gene family across the green plants using a comparative phylogenetic framework. We found that the <italic>PDAT</italic> candidate genes are present in all examined green plants, including algae, lowland plants (a moss and a lycophyte), monocots, and eudicots. Phylogenetic analysis revealed the evolutionary division of the <italic>PDAT</italic> gene family into seven major clades. The separation is supported by the conservation and variation in the gene structure, protein properties, motif patterns, and/or selection constraints. We further demonstrated that there is a eudicot-wide <italic>PDAT</italic> gene expansion, which appears to have been mainly caused by the eudicot-shared ancient gene duplication and subsequent species-specific segmental duplications. In addition, selection pressure analyses showed that different selection constraints have acted on three core eudicot clades, which might enable paleoduplicated <italic>PDAT</italic> paralogs to either become nonfunctionalized or develop divergent expression patterns during evolution. Overall, our study provides important insights into the evolution of the plant <italic>PDAT</italic> gene family and explores the evolutionary mechanism underlying the functional diversification among the core eudicot <italic>PDAT</italic> paralogs.</p></abstract><counts><page-count count="18"></page-count></counts><custom-meta-group><custom-meta><meta-name> DJS Export </meta-name><meta-value>v1</meta-value></custom-meta></custom-meta-group></article-meta><notes><glossary><title>Glossary</title><def-list><def-item><term id="term1">TAG</term><def id="def1"><p>triacylglycerol</p></def></def-item><def-item><term id="term2">DAG</term><def id="def2"><p>diacylglycerol</p></def></def-item><def-item><term id="term3">ML</term><def id="def3"><p>maximum likelihood</p></def></def-item><def-item><term id="term4">PANTHER</term><def id="def4"><p>Protein Analysis Through Evolutionary Relationships</p></def></def-item><def-item><term id="term5">cDNA</term><def id="def5"><p>complementary DNA</p></def></def-item><def-item><term id="term6">TMD</term><def id="def6"><p>transmembrane domain</p></def></def-item><def-item><term id="term7">ER</term><def id="def7"><p>endoplasmic reticulum</p></def></def-item><def-item><term id="term8"><italic>K</italic><sub>s</sub></term><def id="def8"><p>synonymous substitution rate</p></def></def-item><def-item><term id="term9">CmC</term><def id="def9"><p>clade model C</p></def></def-item><def-item><term id="term10">LRT</term><def id="def10"><p>likelihood ratio test</p></def></def-item><def-item><term id="term11">MEME</term><def id="def11"><p>Multiple Expectation Maximization for Motif Elicitation</p></def></def-item><def-item><term id="term12">RAxML</term><def id="def12"><p>Randomized Axelerated Maximum Likelihood</p></def></def-item></def-list></glossary></notes></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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