Genome-wide analysis of the expansin gene superfamily reveals grapevine-specific structural and functional characteristics.
Identifieur interne : 002672 ( Main/Exploration ); précédent : 002671; suivant : 002673Genome-wide analysis of the expansin gene superfamily reveals grapevine-specific structural and functional characteristics.
Auteurs : Silvia Dal Santo [Italie] ; Alessandro Vannozzi ; Giovanni Battista Tornielli ; Marianna Fasoli ; Luca Venturini ; Mario Pezzotti ; Sara ZenoniSource :
- PloS one [ 1932-6203 ] ; 2013.
Descripteurs français
- KwdFr :
- Analyse de profil d'expression de gènes (MeSH), Génome végétal (génétique), Protéines végétales (génétique), Protéines végétales (métabolisme), Régulation de l'expression des gènes végétaux (génétique), Régulation de l'expression des gènes végétaux (physiologie), Vitis (génétique), Vitis (métabolisme).
- MESH :
- génétique : Génome végétal, Protéines végétales, Régulation de l'expression des gènes végétaux, Vitis.
- métabolisme : Protéines végétales, Vitis.
- physiologie : Régulation de l'expression des gènes végétaux.
- Analyse de profil d'expression de gènes.
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : Plant Proteins.
- genetics : Gene Expression Regulation, Plant, Genome, Plant, Vitis.
- chemical , metabolism : Plant Proteins, Vitis.
- physiology : Gene Expression Regulation, Plant.
- Gene Expression Profiling.
Abstract
BACKGROUND
Expansins are proteins that loosen plant cell walls in a pH-dependent manner, probably by increasing the relative movement among polymers thus causing irreversible expansion. The expansin superfamily (EXP) comprises four distinct families: expansin A (EXPA), expansin B (EXPB), expansin-like A (EXLA) and expansin-like B (EXLB). There is experimental evidence that EXPA and EXPB proteins are required for cell expansion and developmental processes involving cell wall modification, whereas the exact functions of EXLA and EXLB remain unclear. The complete grapevine (Vitis vinifera) genome sequence has allowed the characterization of many gene families, but an exhaustive genome-wide analysis of expansin gene expression has not been attempted thus far.
METHODOLOGY/PRINCIPAL FINDINGS
We identified 29 EXP superfamily genes in the grapevine genome, representing all four EXP families. Members of the same EXP family shared the same exon-intron structure, and phylogenetic analysis confirmed a closer relationship between EXP genes from woody species, i.e. grapevine and poplar (Populus trichocarpa), compared to those from Arabidopsis thaliana and rice (Oryza sativa). We also identified grapevine-specific duplication events involving the EXLB family. Global gene expression analysis confirmed a strong correlation among EXP genes expressed in mature and green/vegetative samples, respectively, as reported for other gene families in the recently-published grapevine gene expression atlas. We also observed the specific co-expression of EXLB genes in woody organs, and the involvement of certain grapevine EXP genes in berry development and post-harvest withering.
CONCLUSION
Our comprehensive analysis of the grapevine EXP superfamily confirmed and extended current knowledge about the structural and functional characteristics of this gene family, and also identified properties that are currently unique to grapevine expansin genes. Our data provide a model for the functional characterization of grapevine gene families by combining phylogenetic analysis with global gene expression profiling.
DOI: 10.1371/journal.pone.0062206
PubMed: 23614035
PubMed Central: PMC3628503
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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first="Alessandro" last="Vannozzi">Alessandro Vannozzi</name></author><author><name sortKey="Tornielli, Giovanni Battista" sort="Tornielli, Giovanni Battista" uniqKey="Tornielli G" first="Giovanni Battista" last="Tornielli">Giovanni Battista Tornielli</name></author><author><name sortKey="Fasoli, Marianna" sort="Fasoli, Marianna" uniqKey="Fasoli M" first="Marianna" last="Fasoli">Marianna Fasoli</name></author><author><name sortKey="Venturini, Luca" sort="Venturini, Luca" uniqKey="Venturini L" first="Luca" last="Venturini">Luca Venturini</name></author><author><name sortKey="Pezzotti, Mario" sort="Pezzotti, Mario" uniqKey="Pezzotti M" first="Mario" last="Pezzotti">Mario Pezzotti</name></author><author><name sortKey="Zenoni, Sara" sort="Zenoni, Sara" uniqKey="Zenoni S" first="Sara" last="Zenoni">Sara Zenoni</name></author></analytic><series><title level="j">PloS one</title><idno type="eISSN">1932-6203</idno><imprint><date when="2013" 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xml:lang="en"><term>Plant Proteins</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Gene Expression Regulation, Plant</term><term>Genome, Plant</term><term>Vitis</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Génome végétal</term><term>Protéines végétales</term><term>Régulation de l'expression des gènes végétaux</term><term>Vitis</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Plant Proteins</term><term>Vitis</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Protéines végétales</term><term>Vitis</term></keywords><keywords scheme="MESH" qualifier="physiologie" xml:lang="fr"><term>Régulation de l'expression des gènes végétaux</term></keywords><keywords scheme="MESH" qualifier="physiology" xml:lang="en"><term>Gene Expression Regulation, Plant</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Gene Expression Profiling</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse de profil d'expression de gènes</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><b>BACKGROUND</b></p><p>Expansins are proteins that loosen plant cell walls in a pH-dependent manner, probably by increasing the relative movement among polymers thus causing irreversible expansion. The expansin superfamily (EXP) comprises four distinct families: expansin A (EXPA), expansin B (EXPB), expansin-like A (EXLA) and expansin-like B (EXLB). There is experimental evidence that EXPA and EXPB proteins are required for cell expansion and developmental processes involving cell wall modification, whereas the exact functions of EXLA and EXLB remain unclear. The complete grapevine (Vitis vinifera) genome sequence has allowed the characterization of many gene families, but an exhaustive genome-wide analysis of expansin gene expression has not been attempted thus far.</p></div><div type="abstract" xml:lang="en"><p><b>METHODOLOGY/PRINCIPAL FINDINGS</b></p><p>We identified 29 EXP superfamily genes in the grapevine genome, representing all four EXP families. Members of the same EXP family shared the same exon-intron structure, and phylogenetic analysis confirmed a closer relationship between EXP genes from woody species, i.e. grapevine and poplar (Populus trichocarpa), compared to those from Arabidopsis thaliana and rice (Oryza sativa). We also identified grapevine-specific duplication events involving the EXLB family. Global gene expression analysis confirmed a strong correlation among EXP genes expressed in mature and green/vegetative samples, respectively, as reported for other gene families in the recently-published grapevine gene expression atlas. We also observed the specific co-expression of EXLB genes in woody organs, and the involvement of certain grapevine EXP genes in berry development and post-harvest withering.</p></div><div type="abstract" xml:lang="en"><p><b>CONCLUSION</b></p><p>Our comprehensive analysis of the grapevine EXP superfamily confirmed and extended current knowledge about the structural and functional characteristics of this gene family, and also identified properties that are currently unique to grapevine expansin genes. Our data provide a model for the functional characterization of grapevine gene families by combining phylogenetic analysis with global gene expression profiling.</p></div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">23614035</PMID><DateCompleted><Year>2013</Year><Month>11</Month><Day>14</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Electronic-Print"><Journal><ISSN IssnType="Electronic">1932-6203</ISSN><JournalIssue CitedMedium="Internet"><Volume>8</Volume><Issue>4</Issue><PubDate><Year>2013</Year></PubDate></JournalIssue><Title>PloS one</Title><ISOAbbreviation>PLoS One</ISOAbbreviation></Journal><ArticleTitle>Genome-wide analysis of the expansin gene superfamily reveals grapevine-specific structural and functional characteristics.</ArticleTitle><Pagination><MedlinePgn>e62206</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1371/journal.pone.0062206</ELocationID><Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">Expansins are proteins that loosen plant cell walls in a pH-dependent manner, probably by increasing the relative movement among polymers thus causing irreversible expansion. The expansin superfamily (EXP) comprises four distinct families: expansin A (EXPA), expansin B (EXPB), expansin-like A (EXLA) and expansin-like B (EXLB). There is experimental evidence that EXPA and EXPB proteins are required for cell expansion and developmental processes involving cell wall modification, whereas the exact functions of EXLA and EXLB remain unclear. The complete grapevine (Vitis vinifera) genome sequence has allowed the characterization of many gene families, but an exhaustive genome-wide analysis of expansin gene expression has not been attempted thus far.</AbstractText><AbstractText Label="METHODOLOGY/PRINCIPAL FINDINGS" NlmCategory="RESULTS">We identified 29 EXP superfamily genes in the grapevine genome, representing all four EXP families. Members of the same EXP family shared the same exon-intron structure, and phylogenetic analysis confirmed a closer relationship between EXP genes from woody species, i.e. grapevine and poplar (Populus trichocarpa), compared to those from Arabidopsis thaliana and rice (Oryza sativa). We also identified grapevine-specific duplication events involving the EXLB family. Global gene expression analysis confirmed a strong correlation among EXP genes expressed in mature and green/vegetative samples, respectively, as reported for other gene families in the recently-published grapevine gene expression atlas. We also observed the specific co-expression of EXLB genes in woody organs, and the involvement of certain grapevine EXP genes in berry development and post-harvest withering.</AbstractText><AbstractText Label="CONCLUSION" NlmCategory="CONCLUSIONS">Our comprehensive analysis of the grapevine EXP superfamily confirmed and extended current knowledge about the structural and functional characteristics of this gene family, and also identified properties that are currently unique to grapevine expansin genes. Our data provide a model for the functional characterization of grapevine gene families by combining phylogenetic analysis with global gene expression profiling.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Dal Santo</LastName><ForeName>Silvia</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>Department of Biotechnology, University of Verona, Verona, Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Vannozzi</LastName><ForeName>Alessandro</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Tornielli</LastName><ForeName>Giovanni Battista</ForeName><Initials>GB</Initials></Author><Author ValidYN="Y"><LastName>Fasoli</LastName><ForeName>Marianna</ForeName><Initials>M</Initials></Author><Author ValidYN="Y"><LastName>Venturini</LastName><ForeName>Luca</ForeName><Initials>L</Initials></Author><Author ValidYN="Y"><LastName>Pezzotti</LastName><ForeName>Mario</ForeName><Initials>M</Initials></Author><Author ValidYN="Y"><LastName>Zenoni</LastName><ForeName>Sara</ForeName><Initials>S</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2013</Year><Month>04</Month><Day>16</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>PLoS One</MedlineTA><NlmUniqueID>101285081</NlmUniqueID><ISSNLinking>1932-6203</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D010940">Plant Proteins</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D020869" MajorTopicYN="N">Gene Expression Profiling</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018506" MajorTopicYN="N">Gene Expression Regulation, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000502" MajorTopicYN="N">physiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018745" MajorTopicYN="N">Genome, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010940" MajorTopicYN="N">Plant Proteins</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D027843" MajorTopicYN="N">Vitis</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000378" 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Mario" uniqKey="Pezzotti M" first="Mario" last="Pezzotti">Mario Pezzotti</name><name sortKey="Tornielli, Giovanni Battista" sort="Tornielli, Giovanni Battista" uniqKey="Tornielli G" first="Giovanni Battista" last="Tornielli">Giovanni Battista Tornielli</name><name sortKey="Vannozzi, Alessandro" sort="Vannozzi, Alessandro" uniqKey="Vannozzi A" first="Alessandro" last="Vannozzi">Alessandro Vannozzi</name><name sortKey="Venturini, Luca" sort="Venturini, Luca" uniqKey="Venturini L" first="Luca" last="Venturini">Luca Venturini</name><name sortKey="Zenoni, Sara" sort="Zenoni, Sara" uniqKey="Zenoni S" first="Sara" last="Zenoni">Sara Zenoni</name></noCountry><country name="Italie"><noRegion><name sortKey="Dal Santo, Silvia" sort="Dal Santo, Silvia" uniqKey="Dal Santo S" first="Silvia" last="Dal Santo">Silvia Dal Santo</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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