Transposable Element Insertion and Epigenetic Modification Cause the Multiallelic Variation in the Expression of FAE1 in Sinapis alba[W][OPEN]
Identifieur interne : 001724 ( Ncbi/Merge ); précédent : 001723; suivant : 001725Transposable Element Insertion and Epigenetic Modification Cause the Multiallelic Variation in the Expression of FAE1 in Sinapis alba[W][OPEN]
Auteurs : Fangqin Zeng ; Bifang ChengSource :
- The Plant Cell [ 1040-4651 ] ; 2014.
Abstract
Using the
Url:
DOI: 10.1105/tpc.114.126631
PubMed: 24934174
PubMed Central: 4114957
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PMC:4114957Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Transposable Element Insertion and Epigenetic Modification Cause the Multiallelic Variation in the Expression of <italic>FAE1</italic>
in <italic>Sinapis alba</italic>
<xref ref-type="fn" rid="fn1"><sup>[W]</sup>
</xref>
<xref ref-type="fn" rid="fn2"><sup>[OPEN]</sup>
</xref>
</title>
<author><name sortKey="Zeng, Fangqin" sort="Zeng, Fangqin" uniqKey="Zeng F" first="Fangqin" last="Zeng">Fangqin Zeng</name>
</author>
<author><name sortKey="Cheng, Bifang" sort="Cheng, Bifang" uniqKey="Cheng B" first="Bifang" last="Cheng">Bifang Cheng</name>
</author>
</titleStmt>
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<idno type="pmid">24934174</idno>
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<idno type="doi">10.1105/tpc.114.126631</idno>
<date when="2014">2014</date>
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<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Transposable Element Insertion and Epigenetic Modification Cause the Multiallelic Variation in the Expression of <italic>FAE1</italic>
in <italic>Sinapis alba</italic>
<xref ref-type="fn" rid="fn1"><sup>[W]</sup>
</xref>
<xref ref-type="fn" rid="fn2"><sup>[OPEN]</sup>
</xref>
</title>
<author><name sortKey="Zeng, Fangqin" sort="Zeng, Fangqin" uniqKey="Zeng F" first="Fangqin" last="Zeng">Fangqin Zeng</name>
</author>
<author><name sortKey="Cheng, Bifang" sort="Cheng, Bifang" uniqKey="Cheng B" first="Bifang" last="Cheng">Bifang Cheng</name>
</author>
</analytic>
<series><title level="j">The Plant Cell</title>
<idno type="ISSN">1040-4651</idno>
<idno type="eISSN">1532-298X</idno>
<imprint><date when="2014">2014</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc><textClass></textClass>
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</teiHeader>
<front><div type="abstract" xml:lang="en"><p>Using the <italic>FATTY ACID ELONGATION1</italic>
(<italic>FAE1</italic>
) gene as a case study, this work reveals that transposable element insertion and epigenetic modification generate multiple heritable alleles varying in expression level and modulating trait phenotype from qualitative to quantitative variation.</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 Cell</journal-id>
<journal-id journal-id-type="iso-abbrev">Plant Cell</journal-id>
<journal-id journal-id-type="hwp">plantcell</journal-id>
<journal-id journal-id-type="publisher-id">aspb</journal-id>
<journal-title-group><journal-title>The Plant Cell</journal-title>
</journal-title-group>
<issn pub-type="ppub">1040-4651</issn>
<issn pub-type="epub">1532-298X</issn>
<publisher><publisher-name>American Society of Plant Biologists</publisher-name>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">24934174</article-id>
<article-id pub-id-type="pmc">4114957</article-id>
<article-id pub-id-type="publisher-id">126631</article-id>
<article-id pub-id-type="doi">10.1105/tpc.114.126631</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Research Articles</subject>
</subj-group>
</article-categories>
<title-group><article-title>Transposable Element Insertion and Epigenetic Modification Cause the Multiallelic Variation in the Expression of <italic>FAE1</italic>
in <italic>Sinapis alba</italic>
<xref ref-type="fn" rid="fn1"><sup>[W]</sup>
</xref>
<xref ref-type="fn" rid="fn2"><sup>[OPEN]</sup>
</xref>
</article-title>
</title-group>
<contrib-group><contrib contrib-type="author"><name><surname>Zeng</surname>
<given-names>Fangqin</given-names>
</name>
</contrib>
<contrib contrib-type="author"><name><surname>Cheng</surname>
<given-names>Bifang</given-names>
</name>
<xref ref-type="corresp" rid="cor1"><sup>1</sup>
</xref>
</contrib>
<aff id="aff1">Agriculture and Agri-Food Canada, Saskatoon Research Centre, Saskatoon S7N 0X2, Canada</aff>
</contrib-group>
<author-notes><fn><p><ext-link ext-link-type="uri" xlink:href="http://www.plantcell.org/cgi/doi/10.1105/tpc.114.126631">www.plantcell.org/cgi/doi/10.1105/tpc.114.126631</ext-link>
</p>
</fn>
<corresp id="cor1"><label>1</label>
Address correspondence to <email>bifang.cheng@agr.gc.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.plantcell.org">www.plantcell.org</ext-link>
) is: Bifang Cheng (<email>bifang.cheng@agr.gc.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>6</month>
<year>2014</year>
</pub-date>
<pub-date pub-type="epub"><day>16</day>
<month>6</month>
<year>2014</year>
</pub-date>
<pub-date pub-type="pmc-release"><day>16</day>
<month>6</month>
<year>2014</year>
</pub-date>
<pmc-comment> PMC Release delay is 0 months and 0 days and was based on the
. </pmc-comment>
<volume>26</volume>
<issue>6</issue>
<fpage>2648</fpage>
<lpage>2659</lpage>
<history><date date-type="received"><day>16</day>
<month>4</month>
<year>2014</year>
</date>
<date date-type="rev-recd"><day>19</day>
<month>5</month>
<year>2014</year>
</date>
<date date-type="accepted"><day>27</day>
<month>5</month>
<year>2014</year>
</date>
</history>
<permissions><copyright-statement>© 2014 Her Majesty the Queen in Right of Canada, as represented by the Minister of Agriculture and Agri-Food Canada.</copyright-statement>
<copyright-year>2014</copyright-year>
</permissions>
<self-uri xlink:role="icon" xlink:type="simple" xlink:href="PC_126631_ic1.gif"></self-uri>
<abstract abstract-type="precis"><p>Using the <italic>FATTY ACID ELONGATION1</italic>
(<italic>FAE1</italic>
) gene as a case study, this work reveals that transposable element insertion and epigenetic modification generate multiple heritable alleles varying in expression level and modulating trait phenotype from qualitative to quantitative variation.</p>
</abstract>
<abstract><p>Naturally occurring heritable variation provides a fundamental resource to reveal the genetic and molecular bases of traits in forward genetic studies. Here, we report the molecular basis of the differences in the four alleles <italic>E<sup>1</sup>
</italic>
, <italic>E<sup>2</sup>
</italic>
, <italic>E<sup>3</sup>
</italic>
, and <italic>e</italic>
of the <italic>FATTY ACID ELONGATION1</italic>
(<italic>FAE1</italic>
) gene controlling high, medium, low, and zero erucic content in yellow mustard (<italic>Sinapis alba</italic>
). <italic>E<sup>1</sup>
</italic>
represents a fully functional allele with a coding DNA sequence (<xref ref-type="def" rid="def3">CDS</xref>
) of 1521 bp and a promoter adjacent to the <xref ref-type="def" rid="def3">CDS</xref>
. The null allele <italic>e</italic>
resulted from an insertional disruption in the <xref ref-type="def" rid="def3">CDS</xref>
by Sal-<italic>PIF</italic>
, a 3100-bp <italic>PIF/Harbinger</italic>
-like DNA transposon, whereas <italic>E<sup>2</sup>
</italic>
and <italic>E<sup>3</sup>
</italic>
originated from the insertion of Sal-<italic>T1</italic>
, a 4863-bp Copia-like retrotransposon, in the 5′ untranslated region. <italic>E<sup>3</sup>
</italic>
was identical to <italic>E<sup>2</sup>
</italic>
but showed cytosine methylation in the promoter region and was thus an epiallele having a further reduction in expression. The coding regions of <italic>E<sup>2</sup>
</italic>
and <italic>E<sup>3</sup>
</italic>
also contained five single-nucleotide polymorphisms (<xref ref-type="def" rid="def1">SNPs</xref>
) not present in <italic>E<sup>1</sup>
</italic>
, but expression studies in <italic>Saccharomyces cerevisiae</italic>
indicated that these <xref ref-type="def" rid="def1">SNPs</xref>
did not affect enzyme functionality. These results demonstrate a comprehensive molecular framework for the interplay of transposon insertion, <xref ref-type="def" rid="def1">SNP</xref>
/indel mutation, and epigenetic modification influencing the broad range of natural genetic variation in plants.</p>
</abstract>
<counts><page-count count="12"></page-count>
</counts>
</article-meta>
<notes><glossary><title>Glossary</title>
<def-list><def-item><term id="term1">SNP</term>
<def id="def1"><p>single-nucleotide polymorphism</p>
</def>
</def-item>
<def-item><term id="term2">TE</term>
<def id="def2"><p>transposable element</p>
</def>
</def-item>
<def-item><term id="term3">CDS</term>
<def id="def3"><p>coding DNA sequence</p>
</def>
</def-item>
<def-item><term id="term4">qPCR</term>
<def id="def4"><p>quantitative PCR</p>
</def>
</def-item>
<def-item><term id="term5">UTR</term>
<def id="def5"><p>untranslated region</p>
</def>
</def-item>
<def-item><term id="term6">PBS</term>
<def id="def6"><p>primer binding site</p>
</def>
</def-item>
<def-item><term id="term7">PPT</term>
<def id="def7"><p>polypurine tract</p>
</def>
</def-item>
<def-item><term id="term8">LTR</term>
<def id="def8"><p>long terminal repeat</p>
</def>
</def-item>
<def-item><term id="term9">5-azaC</term>
<def id="def9"><p>5-azacytidine</p>
</def>
</def-item>
</def-list>
</glossary>
</notes>
</front>
</pmc>
<affiliations><list></list>
<tree><noCountry><name sortKey="Cheng, Bifang" sort="Cheng, Bifang" uniqKey="Cheng B" first="Bifang" last="Cheng">Bifang Cheng</name>
<name sortKey="Zeng, Fangqin" sort="Zeng, Fangqin" uniqKey="Zeng F" first="Fangqin" last="Zeng">Fangqin Zeng</name>
</noCountry>
</tree>
</affiliations>
</record>
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