Structural and Functional Analysis of the GRAS Gene Family in Grapevine Indicates a Role of GRAS Proteins in the Control of Development and Stress Responses
Identifieur interne : 001F81 ( Ncbi/Merge ); précédent : 001F80; suivant : 001F82Structural and Functional Analysis of the GRAS Gene Family in Grapevine Indicates a Role of GRAS Proteins in the Control of Development and Stress Responses
Auteurs : Jérôme Grimplet [Espagne] ; Patricia Agudelo-Romero [Portugal] ; Rita T. Teixeira [Portugal] ; Jose M. Martinez-Zapater [Espagne] ; Ana M. Fortes [Portugal]Source :
- Frontiers in Plant Science [ 1664-462X ] ; 2016.
Abstract
GRAS transcription factors are involved in many processes of plant growth and development (e.g., axillary shoot meristem formation, root radial patterning, nodule morphogenesis, arbuscular development) as well as in plant disease resistance and abiotic stress responses. However, little information is available concerning this gene family in grapevine (
Url:
DOI: 10.3389/fpls.2016.00353
PubMed: 27065316
PubMed Central: 4811876
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PMC:4811876Le document en format XML
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<author><name sortKey="Agudelo Romero, Patricia" sort="Agudelo Romero, Patricia" uniqKey="Agudelo Romero P" first="Patricia" last="Agudelo-Romero">Patricia Agudelo-Romero</name>
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<series><title level="j">Frontiers in Plant Science</title>
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<front><div type="abstract" xml:lang="en"><p>GRAS transcription factors are involved in many processes of plant growth and development (e.g., axillary shoot meristem formation, root radial patterning, nodule morphogenesis, arbuscular development) as well as in plant disease resistance and abiotic stress responses. However, little information is available concerning this gene family in grapevine (<italic>Vitis vinifera</italic>
L.), an economically important woody crop. We performed a model curation of GRAS genes identified in the latest genome annotation leading to the identification of 52 genes. Gene models were improved and three new genes were identified that could be grapevine- or woody-plant specific. Phylogenetic analysis showed that GRAS genes could be classified into 13 groups that mapped on the 19 <italic>V. vinifera</italic>
chromosomes. Five new subfamilies, previously not characterized in other species, were identified. Multiple sequence alignment showed typical GRAS domain in the proteins and new motifs were also described. As observed in other species, both segmental and tandem duplications contributed significantly to the expansion and evolution of the GRAS gene family in grapevine. Expression patterns across a variety of tissues and upon abiotic and biotic conditions revealed possible divergent functions of GRAS genes in grapevine development and stress responses. By comparing the information available for tomato and grapevine GRAS genes, we identified candidate genes that might constitute conserved transcriptional regulators of both climacteric and non-climacteric fruit ripening. Altogether this study provides valuable information and robust candidate genes for future functional analysis aiming at improving the quality of fleshy fruits.</p>
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<pmc article-type="research-article"><pmc-dir>properties open_access</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Front Plant Sci</journal-id>
<journal-id journal-id-type="iso-abbrev">Front Plant Sci</journal-id>
<journal-id journal-id-type="publisher-id">Front. Plant Sci.</journal-id>
<journal-title-group><journal-title>Frontiers in Plant Science</journal-title>
</journal-title-group>
<issn pub-type="epub">1664-462X</issn>
<publisher><publisher-name>Frontiers Media S.A.</publisher-name>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">27065316</article-id>
<article-id pub-id-type="pmc">4811876</article-id>
<article-id pub-id-type="doi">10.3389/fpls.2016.00353</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Plant Science</subject>
<subj-group><subject>Original Research</subject>
</subj-group>
</subj-group>
</article-categories>
<title-group><article-title>Structural and Functional Analysis of the GRAS Gene Family in Grapevine Indicates a Role of GRAS Proteins in the Control of Development and Stress Responses</article-title>
</title-group>
<contrib-group><contrib contrib-type="author"><name><surname>Grimplet</surname>
<given-names>Jérôme</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup>
</xref>
<uri xlink:type="simple" xlink:href="http://loop.frontiersin.org/people/181586/overview"></uri>
</contrib>
<contrib contrib-type="author"><name><surname>Agudelo-Romero</surname>
<given-names>Patricia</given-names>
</name>
<xref ref-type="aff" rid="aff2"><sup>2</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Teixeira</surname>
<given-names>Rita T.</given-names>
</name>
<xref ref-type="aff" rid="aff2"><sup>2</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Martinez-Zapater</surname>
<given-names>Jose M.</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup>
</xref>
<uri xlink:type="simple" xlink:href="http://loop.frontiersin.org/people/251376/overview"></uri>
</contrib>
<contrib contrib-type="author"><name><surname>Fortes</surname>
<given-names>Ana M.</given-names>
</name>
<xref ref-type="aff" rid="aff2"><sup>2</sup>
</xref>
<xref ref-type="aff" rid="aff3"><sup>3</sup>
</xref>
<xref ref-type="author-notes" rid="fn001"><sup>*</sup>
</xref>
<uri xlink:type="simple" xlink:href="http://loop.frontiersin.org/people/102810/overview"></uri>
</contrib>
</contrib-group>
<aff id="aff1"><sup>1</sup>
<institution>Instituto de Ciencias de la Vid y del Vino (Consejo Superior de Investigaciones Científicas-Universidad de La Rioja-Gobierno de La Rioja)</institution>
<country>Logroño, Spain</country>
</aff>
<aff id="aff2"><sup>2</sup>
<institution>Faculdade de Ciências de Lisboa, BioISI, Universidade de Lisboa</institution>
<country>Lisboa, Portugal</country>
</aff>
<aff id="aff3"><sup>3</sup>
<institution>Instituto de Tecnologia de Química Biológica, Biotecnologia de Células Vegetais</institution>
<country>Oeiras, Portugal</country>
</aff>
<author-notes><fn fn-type="edited-by"><p>Edited by: Richard Sayre, New Mexico Consortium at Los Alamos National Labs, USA</p>
</fn>
<fn fn-type="edited-by"><p>Reviewed by: Vasileios Fotopoulos, Cyprus University of Technology, Cyprus; Cordelia Bolle, Ludwig Maximilian University, Germany</p>
</fn>
<corresp id="fn001">*Correspondence: Ana M. Fortes <email xlink:type="simple">amfortes@fc.ul.pt</email>
</corresp>
<fn fn-type="other" id="fn002"><p>This article was submitted to Plant Physiology, a section of the journal Frontiers in Plant Science</p>
</fn>
</author-notes>
<pub-date pub-type="epub"><day>30</day>
<month>3</month>
<year>2016</year>
</pub-date>
<pub-date pub-type="collection"><year>2016</year>
</pub-date>
<volume>7</volume>
<elocation-id>353</elocation-id>
<history><date date-type="received"><day>03</day>
<month>12</month>
<year>2015</year>
</date>
<date date-type="accepted"><day>07</day>
<month>3</month>
<year>2016</year>
</date>
</history>
<permissions><copyright-statement>Copyright © 2016 Grimplet, Agudelo-Romero, Teixeira, Martinez-Zapater and Fortes.</copyright-statement>
<copyright-year>2016</copyright-year>
<copyright-holder>Grimplet, Agudelo-Romero, Teixeira, Martinez-Zapater and Fortes</copyright-holder>
<license xlink:href="http://creativecommons.org/licenses/by/4.0/"><license-p>This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.</license-p>
</license>
</permissions>
<abstract><p>GRAS transcription factors are involved in many processes of plant growth and development (e.g., axillary shoot meristem formation, root radial patterning, nodule morphogenesis, arbuscular development) as well as in plant disease resistance and abiotic stress responses. However, little information is available concerning this gene family in grapevine (<italic>Vitis vinifera</italic>
L.), an economically important woody crop. We performed a model curation of GRAS genes identified in the latest genome annotation leading to the identification of 52 genes. Gene models were improved and three new genes were identified that could be grapevine- or woody-plant specific. Phylogenetic analysis showed that GRAS genes could be classified into 13 groups that mapped on the 19 <italic>V. vinifera</italic>
chromosomes. Five new subfamilies, previously not characterized in other species, were identified. Multiple sequence alignment showed typical GRAS domain in the proteins and new motifs were also described. As observed in other species, both segmental and tandem duplications contributed significantly to the expansion and evolution of the GRAS gene family in grapevine. Expression patterns across a variety of tissues and upon abiotic and biotic conditions revealed possible divergent functions of GRAS genes in grapevine development and stress responses. By comparing the information available for tomato and grapevine GRAS genes, we identified candidate genes that might constitute conserved transcriptional regulators of both climacteric and non-climacteric fruit ripening. Altogether this study provides valuable information and robust candidate genes for future functional analysis aiming at improving the quality of fleshy fruits.</p>
</abstract>
<kwd-group><kwd>abiotic stress</kwd>
<kwd>biotic stress</kwd>
<kwd>fruit ripening</kwd>
<kwd>grapevine</kwd>
<kwd>GRAS gene family</kwd>
<kwd>transcription factor</kwd>
</kwd-group>
<funding-group><award-group><funding-source id="cn001">Fundação para a Ciência e a Tecnologia<named-content content-type="fundref-id">10.13039/501100001871</named-content>
</funding-source>
<award-id rid="cn001">SFRH/BPD/100928/2014</award-id>
<award-id rid="cn001">UID/MULTI/04046/2013</award-id>
<award-id rid="cn001">PEst-OE/BIA/UI4046/2014</award-id>
</award-group>
<award-group><funding-source id="cn002">Ministerio de Economía y Competitividad<named-content content-type="fundref-id">10.13039/501100003329</named-content>
</funding-source>
<award-id rid="cn002">RYC-2RYC-2011-07791</award-id>
<award-id rid="cn002">AGL2014-59171-R</award-id>
</award-group>
<award-group><funding-source id="cn003">European Cooperation in Science and Technology<named-content content-type="fundref-id">10.13039/501100000921</named-content>
</funding-source>
<award-id rid="cn003">Action FA1106</award-id>
</award-group>
</funding-group>
<counts><fig-count count="9"></fig-count>
<table-count count="2"></table-count>
<equation-count count="0"></equation-count>
<ref-count count="87"></ref-count>
<page-count count="22"></page-count>
<word-count count="13888"></word-count>
</counts>
</article-meta>
</front>
</pmc>
<affiliations><list><country><li>Espagne</li>
<li>Portugal</li>
</country>
</list>
<tree><country name="Espagne"><noRegion><name sortKey="Grimplet, Jerome" sort="Grimplet, Jerome" uniqKey="Grimplet J" first="Jérôme" last="Grimplet">Jérôme Grimplet</name>
</noRegion>
<name sortKey="Martinez Zapater, Jose M" sort="Martinez Zapater, Jose M" uniqKey="Martinez Zapater J" first="Jose M." last="Martinez-Zapater">Jose M. Martinez-Zapater</name>
</country>
<country name="Portugal"><noRegion><name sortKey="Agudelo Romero, Patricia" sort="Agudelo Romero, Patricia" uniqKey="Agudelo Romero P" first="Patricia" last="Agudelo-Romero">Patricia Agudelo-Romero</name>
</noRegion>
<name sortKey="Fortes, Ana M" sort="Fortes, Ana M" uniqKey="Fortes A" first="Ana M." last="Fortes">Ana M. Fortes</name>
<name sortKey="Fortes, Ana M" sort="Fortes, Ana M" uniqKey="Fortes A" first="Ana M." last="Fortes">Ana M. Fortes</name>
<name sortKey="Teixeira, Rita T" sort="Teixeira, Rita T" uniqKey="Teixeira R" first="Rita T." last="Teixeira">Rita T. Teixeira</name>
</country>
</tree>
</affiliations>
</record>
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