SNPs for thornback ray Raja clavata used for identifying sex-linked SNPs and carrying out sex assignment

Date 2020
Author(s) Trenkel VerenaORCID1, Lorance PascalORCID1
Affiliation(s) 1 : Ifremer, France
DOI 10.17882/74390
Publisher SEANOE
Keyword(s) Raja clavata, Single nucleotide polymorphism, Bay of Biscay
Abstract

We genotyped 1680 thornback ray Raja clavata sampled in the Bay of Biscay using a DNA chip described in Le Cam et al. (2019). After quality control 4604 SNPs were retained for identifying potential sex-linked SNPs using three methods: i) identification of excess of heterozygotes in one sex, ii) FST outlier analysis between the two sexes and iii) neuronal net modelling. Genotype coding: 0 homozygous for major allele, 1 heterozygous, 2 homozygous for minor allele.

Flanking DNA sequences of SNPs identified with methods i) and ii) are also provided.  

Licence CC-BY-NC-SA
Acknowledgements The creation of this data set was funded by the French “Agence Nationale de la Recherche” (ANR) under the GenoPopTaille project (ANR-14-CE02-0006-01) and by the European Union's Horizon 2020 research and innovation programme under the grant agreement No. 773713.
Data
File Size Format Processing Access
Genotype data for individuals 218 MB CSV Quality controlled data Open access
Flanking sequences for putative sex-linked SNPs 4 KB CSV Processed data Open access
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How to cite 

Trenkel Verena, Lorance Pascal (2020). SNPs for thornback ray Raja clavata used for identifying sex-linked SNPs and carrying out sex assignment. SEANOE. https://doi.org/10.17882/74390