De Novo Assembly and Characterization of the Transcriptome of the Parasitic Weed Dodder Identifies Genes Associated with Plant Parasitism1[C][W][OPEN]
Identifieur interne : 000384 ( Pmc/Curation ); précédent : 000383; suivant : 000385De Novo Assembly and Characterization of the Transcriptome of the Parasitic Weed Dodder Identifies Genes Associated with Plant Parasitism1[C][W][OPEN]
Auteurs : Aashish Ranjan ; Yasunori Ichihashi ; Moran Farhi ; Kristina Zumstein ; Brad Townsley ; Rakefet David-Schwartz ; Neelima R. SinhaSource :
- Plant Physiology [ 0032-0889 ] ; 2014.
Abstract
Url:
DOI: 10.1104/pp.113.234864
PubMed: 24399359
PubMed Central: 4226353
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">De Novo Assembly and Characterization of the Transcriptome of the Parasitic Weed Dodder Identifies Genes Associated with Plant Parasitism<xref ref-type="fn" rid="fn1"><sup>1</sup></xref><xref ref-type="fn" rid="fn2"><sup>[C]</sup></xref><xref ref-type="fn" rid="fn3"><sup>[W]</sup></xref><xref ref-type="fn" rid="fn4"><sup>[OPEN]</sup></xref></title><author><name sortKey="Ranjan, Aashish" sort="Ranjan, Aashish" uniqKey="Ranjan A" first="Aashish" last="Ranjan">Aashish Ranjan</name></author><author><name sortKey="Ichihashi, Yasunori" sort="Ichihashi, Yasunori" uniqKey="Ichihashi Y" first="Yasunori" last="Ichihashi">Yasunori Ichihashi</name></author><author><name sortKey="Farhi, Moran" sort="Farhi, Moran" uniqKey="Farhi M" first="Moran" last="Farhi">Moran Farhi</name></author><author><name sortKey="Zumstein, Kristina" sort="Zumstein, Kristina" uniqKey="Zumstein K" first="Kristina" last="Zumstein">Kristina Zumstein</name></author><author><name sortKey="Townsley, Brad" sort="Townsley, Brad" uniqKey="Townsley B" first="Brad" last="Townsley">Brad Townsley</name></author><author><name sortKey="David Schwartz, Rakefet" sort="David Schwartz, Rakefet" uniqKey="David Schwartz R" first="Rakefet" last="David-Schwartz">Rakefet David-Schwartz</name></author><author><name sortKey="Sinha, Neelima R" sort="Sinha, Neelima R" uniqKey="Sinha N" first="Neelima R." last="Sinha">Neelima R. Sinha</name></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">24399359</idno><idno type="pmc">4226353</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4226353</idno><idno type="RBID">PMC:4226353</idno><idno type="doi">10.1104/pp.113.234864</idno><date when="2014">2014</date><idno type="wicri:Area/Pmc/Corpus">000384</idno><idno type="wicri:Area/Pmc/Curation">000384</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">De Novo Assembly and Characterization of the Transcriptome of the Parasitic Weed Dodder Identifies Genes Associated with Plant Parasitism<xref ref-type="fn" rid="fn1"><sup>1</sup></xref><xref ref-type="fn" rid="fn2"><sup>[C]</sup></xref><xref ref-type="fn" rid="fn3"><sup>[W]</sup></xref><xref ref-type="fn" rid="fn4"><sup>[OPEN]</sup></xref></title><author><name sortKey="Ranjan, Aashish" sort="Ranjan, Aashish" uniqKey="Ranjan A" first="Aashish" last="Ranjan">Aashish Ranjan</name></author><author><name sortKey="Ichihashi, Yasunori" sort="Ichihashi, Yasunori" uniqKey="Ichihashi Y" first="Yasunori" last="Ichihashi">Yasunori Ichihashi</name></author><author><name sortKey="Farhi, Moran" sort="Farhi, Moran" uniqKey="Farhi M" first="Moran" last="Farhi">Moran Farhi</name></author><author><name sortKey="Zumstein, Kristina" sort="Zumstein, Kristina" uniqKey="Zumstein K" first="Kristina" last="Zumstein">Kristina Zumstein</name></author><author><name sortKey="Townsley, Brad" sort="Townsley, Brad" uniqKey="Townsley B" first="Brad" last="Townsley">Brad Townsley</name></author><author><name sortKey="David Schwartz, Rakefet" sort="David Schwartz, Rakefet" uniqKey="David Schwartz R" first="Rakefet" last="David-Schwartz">Rakefet David-Schwartz</name></author><author><name sortKey="Sinha, Neelima R" sort="Sinha, Neelima R" uniqKey="Sinha N" first="Neelima R." last="Sinha">Neelima R. Sinha</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="2014">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><italic>Transcriptional dynamics during parasitism in the parasitic weed Cuscuta pentagona reveals increased expression of genes encoding transporters and stimulus response regulators, and a decrease in the expression of genes encoding photosynthetic proteins</italic>.</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">24399359</article-id><article-id pub-id-type="pmc">4226353</article-id><article-id pub-id-type="publisher-id">234864</article-id><article-id pub-id-type="doi">10.1104/pp.113.234864</article-id><article-categories><subj-group subj-group-type="heading"><subject>Research Articles - Focus Issue</subject></subj-group><series-title>Focus on Weed Control</series-title></article-categories><title-group><article-title>De Novo Assembly and Characterization of the Transcriptome of the Parasitic Weed Dodder Identifies Genes Associated with Plant Parasitism<xref ref-type="fn" rid="fn1"><sup>1</sup></xref><xref ref-type="fn" rid="fn2"><sup>[C]</sup></xref><xref ref-type="fn" rid="fn3"><sup>[W]</sup></xref><xref ref-type="fn" rid="fn4"><sup>[OPEN]</sup></xref></article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Ranjan</surname><given-names>Aashish</given-names></name></contrib><contrib contrib-type="author"><name><surname>Ichihashi</surname><given-names>Yasunori</given-names></name></contrib><contrib contrib-type="author"><name><surname>Farhi</surname><given-names>Moran</given-names></name></contrib><contrib contrib-type="author"><name><surname>Zumstein</surname><given-names>Kristina</given-names></name></contrib><contrib contrib-type="author"><name><surname>Townsley</surname><given-names>Brad</given-names></name></contrib><contrib contrib-type="author"><name><surname>David-Schwartz</surname><given-names>Rakefet</given-names></name><xref ref-type="fn" rid="afn2"><sup>2</sup></xref></contrib><contrib contrib-type="author"><name><surname>Sinha</surname><given-names>Neelima R.</given-names></name><xref ref-type="corresp" rid="cor1">*</xref></contrib><aff id="aff1">Department of Plant Biology, University of California, Davis, California 95616</aff></contrib-group><author-notes><fn><p><ext-link ext-link-type="uri" xlink:href="http://www.plantphysiol.org/cgi/doi/10.1104/pp.113.234864">www.plantphysiol.org/cgi/doi/10.1104/pp.113.234864</ext-link></p></fn><corresp id="cor1"><label>*</label>Address correspondence to <email>nrsinha@ucdavis.edu</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: Neelima R. Sinha (<email>nrsinha@ucdavis.edu</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>11</month><year>2014</year></pub-date><pub-date pub-type="epub"><day>07</day><month>1</month><year>2014</year></pub-date><pub-date pub-type="pmc-release"><day>07</day><month>1</month><year>2014</year></pub-date><pmc-comment> PMC Release delay is 0 months and 0 days and was based on the
<volume>166</volume><issue>3</issue><fpage>1186</fpage><lpage>1199</lpage><history><date date-type="received"><day>26</day><month>12</month><year>2013</year></date><date date-type="accepted"><day>06</day><month>1</month><year>2014</year></date></history><permissions><copyright-statement>© 2014 American Society of Plant Biologists. All Rights Reserved.</copyright-statement><copyright-year>2014</copyright-year></permissions><self-uri xlink:role="icon" xlink:type="simple" xlink:href="PP_234864_ic1.gif"></self-uri><self-uri content-type="alt-lang-pdf zh" xlink:type="simple" xlink:href="1186.chinese.pdf"></self-uri><abstract abstract-type="precis"><p><italic>Transcriptional dynamics during parasitism in the parasitic weed Cuscuta pentagona reveals increased expression of genes encoding transporters and stimulus response regulators, and a decrease in the expression of genes encoding photosynthetic proteins</italic>.</p></abstract><abstract><p>Parasitic flowering plants are one of the most destructive agricultural pests and have major impact on crop yields throughout the world. Being dependent on finding a host plant for growth, parasitic plants penetrate their host using specialized organs called haustoria. Haustoria establish vascular connections with the host, which enable the parasite to steal nutrients and water. The underlying molecular and developmental basis of parasitism by plants is largely unknown. In order to investigate the process of parasitism, RNAs from different stages (i.e. seed, seedling, vegetative strand, prehaustoria, haustoria, and flower) were used to de novo assemble and annotate the transcriptome of the obligate plant stem parasite dodder (<italic>Cuscuta pentagona</italic>). The assembled transcriptome was used to dissect transcriptional dynamics during dodder development and parasitism and identified key gene categories involved in the process of plant parasitism. Host plant infection is accompanied by increased expression of parasite genes underlying transport and transporter categories, response to stress and stimuli, as well as genes encoding enzymes involved in cell wall modifications. By contrast, expression of photosynthetic genes is decreased in the dodder infective stages compared with normal stem. In addition, genes relating to biosynthesis, transport, and response of phytohormones, such as auxin, gibberellins, and strigolactone, were differentially expressed in the dodder infective stages compared with stems and seedlings. This analysis sheds light on the transcriptional changes that accompany plant parasitism and will aid in identifying potential gene targets for use in controlling the infestation of crops by parasitic weeds.</p></abstract><counts><page-count count="14"></page-count></counts></article-meta><notes><glossary><title>Glossary</title><def-list><def-item><term id="term1">GO</term><def id="def1"><p>Gene Ontology</p></def></def-item><def-item><term id="term2">ORF</term><def id="def2"><p>open reading frame</p></def></def-item><def-item><term id="term3">TAIR10</term><def id="def3"><p>The Arabidopsis Information Resource 10</p></def></def-item><def-item><term id="term4">RT</term><def id="def4"><p>reverse transcription</p></def></def-item><def-item><term id="term5">KEGG</term><def id="def5"><p>Kyoto Encyclopedia of Genes and Genomes</p></def></def-item><def-item><term id="term6">PCA</term><def id="def6"><p>principal component analysis</p></def></def-item><def-item><term id="term7">SOM</term><def id="def7"><p>self-organizing maps</p></def></def-item><def-item><term id="term8">FDR</term><def id="def8"><p>false discovery rate</p></def></def-item><def-item><term id="term9">RSEM</term><def id="def9"><p>RNA-seq by expectation maximization</p></def></def-item></def-list></glossary></notes></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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