Genotyping of 4 European sea bass families with the DlabCHIP SNPs genotyping array

Date 2020
Author(s) Allal FrancoisORCID3, Griot RonanORCID1, 2, 3, Phocas FlorenceORCID2, Brard-Fudulea SophieORCID4, Morvezen RomainORCID1, Bestin Anastasia1, Haffray PierrickORCID1, François Yoannah1, 6, Morin ThierryORCID6, Poncet CharlesORCID5, Vergnet AlainORCID3, Cariou Sophie7, Brunier Joseph8, Bruant Jean-Sébastien7, Peyrou Bruno8, Gagnaire Pierre-AlexandreORCID9, Vandeputte MarcORCID2, 3
Affiliation(s) 1 : SYSAAF, Station LPGP/INRAE, Campus de Beaulieu, 35042 Rennes, France
2 : Université Paris-Saclay, INRAE, AgroParisTech, GABI, 78350 Jouy-en-Josas, France
3 : MARBEC, Univ. Montpellier, Ifremer, CNRS, IRD, 34250 Palavas-les-Flots, France
4 : SYSAAF, UMR BOA, Centre INRA Val de Loire, 37380 Nouzilly, France
5 : INRAE-UCA, UMR GDEC, Clermont-Ferrand, France
6 : ANSES, National Reference Laboratory for Regulated Fish Diseases, Technopôle Brest- Iroise, 29280 Plouzané, France
7 : Ferme Marine De Douhet, 17840 La Brée Les Bains, France
8 : Ecloserie Marie de Gravelines-Ichtus, 59273 Gravelines, France
9 : ISEM, Université de Montpellier, CNRS-IRD-EPHE-UM, France
DOI 10.17882/75696
Publisher SEANOE
Keyword(s) DLabCHIP, Genotype, European sea bass, Backcross families
Abstract

Four experimental backcross full-sib families (378, 454, 291 and 211 individuals) were produced by in vitro fertilization at Ifremer (Palavas-les-Flots, France). All 1334 individuals were genotyped with a ThermoFisher AxiomTM Sea Bass 57k SNP DlabChip at the genotyping platform Gentyane (INRAE, Clermont-Ferrand, France). SNP calling was done using ThermoFisher software AxiomAnalysisSuiteTM. Preliminary quality controls were applied with threshold values of 95% for SNP call rate and 90% for sample call rate.

 

Licence CC0
Data
File Size Format Processing Access
BED (PLINK binary biallelic genotype table) file for backcross families genotypes 15 MB BED Quality controlled data Open access
BIM (PLINK extended MAP file) file for backcross families genotypes 1 MB BIM Quality controlled data Open access
FAM (PLINK sample information file) file for backcross families genotypes 34 KB FAM Quality controlled data Open access
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How to cite 

Allal Francois, Griot Ronan, Phocas Florence, Brard-Fudulea Sophie, Morvezen Romain, Bestin Anastasia, Haffray Pierrick, François Yoannah, Morin Thierry, Poncet Charles, Vergnet Alain, Cariou Sophie, Brunier Joseph, Bruant Jean-Sébastien, Peyrou Bruno, Gagnaire Pierre-Alexandre, Vandeputte Marc (2020). Genotyping of 4 European sea bass families with the DlabCHIP SNPs genotyping array. SEANOE. https://doi.org/10.17882/75696