Anchoring of a large set of markers onto a BAC library for the development of a draft physical map of the grapevine genome.
Five hundred and six EST-derived markers, 313 SSR markers and 26 BAC end-derived or SCAR markers were anchored by PCR on a subset of a Cabernet Sauvignon BAC library representing six genome equivalents pooled in three dimensions. In parallel, the 12,351 EST clusters of the grapevine UniGene set (build #11) from NCBI were used to design 12,125 primers pairs and perform electronic PCR on 67,543 nonredundant BAC-end sequences. This in silico experiment yielded 1,140 positive results concerning 638 different markers, among which 602 had not been already anchored by PCR. The data obtained will provide an easier access to the regulatory sequences surrounding important genes (represented by ESTs). In total, 1,731 islands of BAC clones (set of overlapping BAC clones containing at least one common marker) were obtained and 226 of them contained at least one genetically mapped anchor. These assigned islands are very useful because they will link the genetic map and the future fingerprint-based physical map and because they allowed us to indirectly place 93 ESTs on the genetic map. The islands containing two or more mapped SSR markers were also used to assess the quality of the integrated genetic map of the grapevine genome.
Lamoureux
Didier
D
UMR INRA-CNRS-UEVE de Recherches en Génomique Végétale, 2 rue Gaston Crémieux, BP5708, 91057 Evry Cedex, France.
Bernole
Anne
A
Le Clainche
Isabelle
I
Tual
Sarah
S
Thareau
Vincent
V
Paillard
Sophie
S
Legeai
Fabrice
F
Dossat
Carole
C
Wincker
Patrick
P
Oswald
Marilyn
M
Merdinoglu
Didier
D
Vignault
Céline
C
Delrot
Serge
S
Caboche
Michel
M
Chalhoub
Boulos
B
Adam-Blondon
Anne-Françoise
AF
D022202:Chromosomes, Artificial, Bacterial; D005819:Genetic Markers; D018745:Genome, Plant; D016133:Polymerase Chain Reaction; D027843:Vitis / Q000235:genetics*
D005819:Genetic Markers