FN Archimer Export Format
PT J
TI Development of SNP genotyping arrays in two shellfish species
BT 
AF LAPEGUE, Sylvie
   HARRANG, Estelle
   HEURTEBISE, Serge
   FLAHAUW, Emilie
   DONNADIEU, C.
   GAYRAL, P.
   BALLENGHIEN, M.
   GENESTOUT, L.
   BARBOTTE, L.
   MAHLA, R.
   HAFFRAY, P.
   KLOPP, C.
AS 1:1;2:1;3:1;4:1;5:2;6:3,4;7:3;8:5;9:5;10:5;11:6;12:7;
FF 1:PDG-RBE-SG2M-LGPMM;2:PDG-RBE-SG2M-LGPMM;3:PDG-RBE-SG2M-LGPMM;4:PDG-RBE-SG2M-LGPMM;5:;6:;7:;8:;9:;10:;11:;12:;
C1 IFREMER, LGPMM, SG2M, Lab Genet & Pathol Mollusques Marins, La Tremblade, France.
   INRA, Lab Genet Cellulaire, Plateforme GeT PlaGe Genotoul, UMR444, F-31326 Castanet Tolosan, France.
   Univ Montpellier 2, Inst Sci Evolut Montpellier, CNRS, UMR 5554, Montpellier, France.
   Univ Tours, Fac Sci & Tech, Inst Rech Biol Insecte, CNRS,UMR 7261, Tours, France.
   LABOGENA, Domaine Vilvert, Jouy En Josas, France.
   INRA, SYSAAF, Stn LPGP, F-35042 Rennes, France.
   INRA, Sigenae, Biometrie & Intelligence Artificielle UR875, F-31326 Castanet Tolosan, France.
C2 IFREMER, FRANCE
   INRA, FRANCE
   UNIV MONTPELLIER, FRANCE
   UNIV TOURS, FRANCE
   LABOGENA, FRANCE
   INRA, FRANCE
   INRA, FRANCE
SI LA TREMBLADE
SE PDG-RBE-SG2M-LGPMM
IN WOS Ifremer jusqu'en 2018
   copubli-france
   copubli-p187
   copubli-univ-france
IF 3.712
TC 33
UR https://archimer.ifremer.fr/doc/00172/28369/26677.pdf
LA English
DT Article
DE ;Crassostrea gigas;GoldenGate technology;Ostrea edulis;oysters;SNP genotyping
AB Use of SNPs has been favored due to their abundance in plant and animal genomes, accompanied by the falling cost and rising throughput capacity for detection and genotyping. Here, we present in vitro (obtained from targeted sequencing) and in silico discovery of SNPs, and the design of medium-throughput genotyping arrays for two oyster species, the Pacific oyster, Crassostrea gigas, and European flat oyster, Ostrea edulis. Two sets of 384 SNP markers were designed for two Illumina GoldenGate arrays and genotyped on more than 1000 samples for each species. In each case, oyster samples were obtained from wild and selected populations and from three-generation families segregating for traits of interest in aquaculture. The rate of successfully genotyped polymorphic SNPs was about 60% for each species. Effects of SNP origin and quality on genotyping success (Illumina functionality score) were analyzed and compared with other model and non-model species. Furthermore, a simulation was made based on a subset of the C. gigas SNP array with a minor allele frequency of 0.3 and typical crosses used in shellfish hatcheries. This simulation indicated that at least 150 markers were needed to perform an accurate parental assignment. Such panels might provide valuable tools to improve our understanding of the connectivity between wild (and selected) populations and could contribute to future selective breeding programs.
PY 2014
PD JUN
SO Molecular Ecology Resources
SN 1755-098X
PU Wiley-blackwell
VL 14
IS 4
UT 000337611400016
BP 820
EP 830
DI 10.1111/1755-0998.12230
ID 28369
ER

EF