Afficher la notice abrégée

Structure and transcriptional regulation of the major intrinsic protein gene family in grapevine

dc.rights.licenseopenen_US
dc.contributor.authorWONG, Darren Chern Jan
hal.structure.identifierEcophysiologie et Génomique Fonctionnelle de la Vigne [UMR EGFV]
dc.contributor.authorZHANG, Li
hal.structure.identifierEcophysiologie et Génomique Fonctionnelle de la Vigne [UMR EGFV]
dc.contributor.authorMERLIN, Isabelle
dc.contributor.authorCASTELLARIN, Simone D.
hal.structure.identifierEcophysiologie et Génomique Fonctionnelle de la Vigne [UMR EGFV]
dc.contributor.authorGAMBETTA, Gregory
ORCID: 0000-0002-8838-5050
IDREF: 225449641
dc.date.accessioned2020-04-07T08:14:38Z
dc.date.available2020-04-07T08:14:38Z
dc.date.issued2018
dc.identifier.issn1471-2164en_US
dc.identifier.urihttps://oskar-bordeaux.fr/handle/20.500.12278/4128
dc.description.abstractEnBackground: The major intrinsic protein (MIP) family is a family of proteins, including aquaporins, which facilitate water and small molecule transport across plasma membranes. In plants, MIPs function in a huge variety of processes including water transport, growth, stress response, and fruit development. In this study, we characterize the structure and transcriptional regulation of the MIP family in grapevine, describing the putative genome duplication events leading to the family structure and characterizing the family's tissue and developmental specific expression patterns across numerous preexisting microarray and RNAseq datasets. Gene co-expression network (GCN) analyses were carried out across these datasets and the promoters of each family member were analyzed for cis-regulatory element structure in order to provide insight into their transcriptional regulation. [br/] Results: A total of 29 Vitis vinifera MIP family members (excluding putative pseudogenes) were identified of which all but two were mapped onto Vitis vinifera chromosomes. In this study, segmental duplication events were identified for five plasma membrane intrinsic protein (PIP) and four tonoplast intrinsic protein (TIP) genes, contributing to the expansion of PIPs and TIPs in grapevine. Grapevine MIP family members have distinct tissue and developmental expression patterns and hierarchical clustering revealed two primary groups regardless of the datasets analyzed. Composite microarray and RNA-seq gene co-expression networks (GCNs) highlighted the relationships between MIP genes and functional categories involved in cell wall modification and transport, as well as with other MIPs revealing a strong co-regulation within the family itself. Some duplicated MIP family members have undergone sub-functionalization and exhibit distinct expression patterns and GCNs. Cis-regulatory element (CRE) analyses of the MIP promoters and their associated GCN members revealed enrichment for numerous CREs including AP2/ERFs and NACs. [br/] Conclusions: Combining phylogenetic analyses, gene expression profiling, gene co-expression network analyses, and cis-regulatory element enrichment, this study provides a comprehensive overview of the structure and transcriptional regulation of the grapevine MIP family. The study highlights the duplication and sub-functionalization of the family, its strong coordinated expression with genes involved in growth and transport, and the putative classes of TFs responsible for its regulation.
dc.language.isoENen_US
dc.subjectAquaporine
dc.subjectBaie de raisin
dc.subjectVitis Vinifera
dc.subjectMembrane plasmique
dc.subjectTransport hydrique
dc.subjectDéveloppement du fruit
dc.subjectExpression des gènes
dc.subjectRégulation transcriptionnelle
dc.subject.enAquaporin
dc.subject.enBerry Ripening
dc.subject.enCis-Regulatory Element
dc.subject.enPromoter Structure
dc.title.enStructure and transcriptional regulation of the major intrinsic protein gene family in grapevine
dc.typeArticle de revueen_US
dc.identifier.doi10.1186/s12864-018-4638-5en_US
dc.subject.halSciences du Vivant [q-bio]/Biologie végétaleen_US
dc.identifier.pubmed29642857en_US
bordeaux.journalBMC Genomicsen_US
bordeaux.page1-14en_US
bordeaux.volume19en_US
bordeaux.hal.laboratoriesEcophysiologie et Génomique Fonctionnelle de la Vigne (EGFV) - UMR 1287en_US
bordeaux.issue1en_US
bordeaux.institutionBordeaux Sciences Agroen_US
bordeaux.institutionUniversité de Bordeauxen_US
bordeaux.peerReviewedouien_US
bordeaux.inpressnonen_US
hal.identifierhal-02534531
hal.version1
hal.date.transferred2020-04-07T08:14:43Z
hal.exporttrue
bordeaux.COinSctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=BMC%20Genomics&rft.date=2018&rft.volume=19&rft.issue=1&rft.spage=1-14&rft.epage=1-14&rft.eissn=1471-2164&rft.issn=1471-2164&rft.au=WONG,%20Darren%20Chern%20Jan&ZHANG,%20Li&MERLIN,%20Isabelle&CASTELLARIN,%20Simone%20D.&GAMBETTA,%20Gregory&rft.genre=article


Fichier(s) constituant ce document

FichiersTailleFormatVue

Il n'y a pas de fichiers associés à ce document.

Ce document figure dans la(les) collection(s) suivante(s)

Afficher la notice abrégée