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GrapeReSeq

Grapevine

Large scale re-sequencing in the Vitis genus for identification of resistance genes, SNP discovery and high throughput genotyping

 

Research project of Transnational Plant Alliance for Novel Technologies toward implementing the Knowledge Based Bio-Economy (PLANT - KBBE2008) in Europe (France, Germany and Spain)

 

The aim of this project is to take advantage of the existence of the grapevine genome sequence to develop strategies and comprehensive tools for allele mining in the Vitaceae gene pool and genetic improvement of grapevine for resistance to disease.

Two main approaches will be developed.
The first one will allow targeting regions known to undergo fast structural rearrangements. It will combine the development of a draft sequence (pyrosequencing, 454/Roche) of a V. cinerea x V. riparia F1 hybrid and BAC end sequences (BES) in order to quickly identify regions involved into important traits, such as disease resistance.
The second approach, will aim at the development of a large EU SNP resource, which will be the basis to the development of high throughput genotyping tools for breeding and of association genetics studies. A microarray-based method will be employed to trap all the predicted exons and UTR of the grapevine genome in 15-20 individuals in order to re-sequence them using the Solexa/Illumina platform.
Finally, high throughput genotyping chips will be developed.

Duration: 01/01/2009 to 31/12/2011

Coordinator: Anne-Françoise Adam-Blondon

 

Laboratories Address Person Links
UMR INRA CNRS Université d’Evry Génomique Végétale
2 rue Gaston Crémieux, BP 5008,
F-91057 Evry cedex, FRANCE

Coordinator

Dr. Anne-Françoise Adam-Blondon

Grapevine and Forest Trees Genomics
DiaPC
UMR DiaPC
2 place P. Viala
F-34060 Montpellier Cedex 1, FRANCE
Dr. Jean-Michel Boursiquot Equipe Diversité Génétique et Génomique de la vigne
Logo_URGI URGI INRA de Versailles
Route de Saint-Cyr
F-78000 Versailles, FRANCE
Dr. Hadi Quesneville Unité de Recherche en Génomique Info
    EPGV EPGV INRA; CEA/ IG-CNG
2 rue Gaston Crémieux, CP 57021
F-91057 Evry Cedex, FRANCE
Dr. Dominique Brunel Etude du Polymorphisme des Génomes Végétaux
S&G Statistique & Génome
Tour Evry 2, 523, Place des Terrasses de l’Agora
F-91034 Evry cedex, FRANCE
Prof. Bernard Prum Statistique et Génome
CNB-CSIC
CNB-CSIC
 C/ Darwin 3, Cantoblanco
 E-28049 Madrid, SPAIN
Dr. José M. Martinez-Zapater Genetic and molecular control of plant reproductive development
CeBiTec_Logo
Institute for Genome Research and Systems Biology / CeBiTec,
Universität Bielefeld, Universitätsstraße 25
D-33615 Bielefeld, GERMANY
Prof. Dr. Bernd Weisshaar Genome Research
JKI
Julius Kühn-Institut Bundesforschungsinstitut für Kulturpflanzen
Institut für Rebenzüchtung, Geilweilerhof
D-76833 Siebeldingen, GERMANY
Dir. and Prof. Dr. Reinhard Töpfer Institute for Grapevine Breeding Geilweilerhof
UniVR
Universita degli Studi di Verona
Strada le Grazie 15
I-37134 Verona, ITALY
The Italian partner is providing fund for its own needs
Prof. Massimo Delledonne Dipartimento di Biotecnologie

 

Data

 

  • Quality control & Cleaning process for Illumina runs :

README_EPGV_DataTransfer_Illumina_Sequencing.pdf (626.79 kB)

  • A dataset obtained from the genotyping of a Vitis vinifera cultivated pool (using the SNPs of the 20k chip):  see

 

Tools

 

URGI shared area GrapeReSeq directory with Alfresco Registered access

 

To share documents with other GrapeReSeq project members, use Alfresco, our web software of electronic documents management .

To access to the Alfresco tool :

  • the first form is the secured web server authentification with the URGI login/password.
  • the 2nd form is Alfresco authentification with the Alfresco login/password.

The GrapeReSeq directory path is Compagny Home > Projects > GrapeReSeq.
 
 To ask for an account on the URGI secure server, please complete the form
 
 To ask for an account on the Alfresco tool, please contact us

 

Funding  

Update: 05 Mar 2018
Creation date: 02 Dec 2009
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