Data from: Detailed insights into pan-European population structure and inbreeding in wild and hatchery Pacific oyster (Crassostrea gigas) populations revealed by genome-wide SNP data ...

Cultivated bivalves are hugely important not only because of their economic value, but also due to their impacts on natural ecosystems. The Pacific oyster (Crassostrea gigas) is the world's most heavily cultivated shellfish species and has been introduced to all continents except Antarctica for...

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Bibliographic Details
Main Authors: Vendrami, David L.J., Houston, Ross D., Gharbi, Karim, Telesca, Luca, Gutierrez, Alejandro P., Gurney-Smith, Helen, Hasegawa, Natsuki, Boudry, Pierre, Hoffman, Joseph I., Vendrami, David L. J.
Format: Dataset
Language:English
Published: Dryad 2018
Subjects:
restriction site associated DNA RAD sequencing
Pacific oyster
single nucleotide polymorphism SNP
high density genotyping array
2014 - 2016
Inbreeding
Crassostrea gigas
Aquaculture
Canada
Pacific
Norway
Antarc*
Online Access:https://dx.doi.org/10.5061/dryad.6d778b6
https://datadryad.org/stash/dataset/doi:10.5061/dryad.6d778b6
Description
Summary:Cultivated bivalves are hugely important not only because of their economic value, but also due to their impacts on natural ecosystems. The Pacific oyster (Crassostrea gigas) is the world's most heavily cultivated shellfish species and has been introduced to all continents except Antarctica for aquaculture. We therefore used a medium density single nucleotide polymorphism (SNP) array to investigate the genetic structure of this species in Europe, where it was introduced during the 1960s and has since become a prolific invader of coastal ecosystems across the continent. We analyzed 21,499 polymorphic SNPs in 232 individuals from 23 localities spanning a latitudinal cline from Portugal to Norway and including the source populations of Japan and Canada. We confirmed the results of previous studies by finding clear support for a southern and a northern group, with the former being indistinguishable from the source populations indicating the absence of a pronounced founder effect. We furthermore conducted a ... : Cgigas_SNPArray_genotypesGenotypes for 232 oyster samples in PED format obtained from the medium density SNP array described in Gutierrez et al. (2017).Cgigas_SNPArray.pedCgigas_SNPArray_map_fileSNPs identifiers in MAP format relative to the PED file containing genotypes based on the SNP array.Cgigas_SNPArray.mapCgigas_RADseq_map_filesSNPs identifiers in PED format relative to the PED file containing genotypes based on RAD sequencing.Cgigas_RADseq_SNPs.mapCgigas_RADseq_genotypesGenotypes for 40 oyster samples in PED format obtained by the analysis of RAD sequencing data.Cgigas_RADseq_SNPs.ped ...

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