10.5061/DRYAD.1PQ21
Cruz, Vanessa Paes
University of Santiago de Compostela
Vera, Manuel
University of Girona
University of Santiago de Compostela
Pardo, Belén Gomes
University of Santiago de Compostela
Taggart, John
University of Stirling
Martinez, Paulino
University of Santiago de Compostela
Oliveira, Claudio
Sao Paulo State University
Foresti, Fausto
Sao Paulo State University
Data from: Identification and validation of single nucleotide
polymorphisms as tools to detect hybridization and population structure in
freshwater stingrays
Dryad
dataset
2016
genetic fish
conservation tools
NGS techniques
SNPs
Potamotrygon
2016-01-21T07:01:46Z
2016-01-21T07:01:46Z
en
https://doi.org/10.1111/1755-0998.12564
2352137 bytes
1
CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
Single nucleotide polymorphism (SNP) markers were identified and validated
for two stingrays species, Potamotrygon motoro and Potamotrygon falkneri,
using double digest restriction-site associated DNA (ddRAD) reads using
454-Roche technology. A total of 226 774 reads (65.5 Mb) were obtained
(mean read length 289 ± 183 bp) detecting a total of 5399 contigs (mean
contig length: 396 ± 91 bp). Mining this data set, a panel of 143 in
silico SNPs was selected. Eighty-two of these SNPs were successfully
validated and 61 were polymorphic: 14 in P. falkneri, 21 in P. motoro, 3
in both species and 26 fixed for alternative variants in both species,
thus being useful for population analyses and hybrid detection.
Contigs sequences analyzed in this study.This file with txt extension,
contains the analyzed all contigs in this study.454_contigs.txtGenotypes,
variants and other information from 143 SNPs analyzed143 SNP name,
variants, dataset of the contig (source), annotation, GenBank accession
number, external PCR primer sequences (Forward and Reverse), tailed
extension primer (showing tails in lower case), extension primer direction
and multiplexs are shown. Unfeasible SNPs are indicated in red
colour.Genotypes_variants.xlsxInformation from samples 89 genotype ddRad
loci identified.This file contains information from samples 89 genotyped
.Information_samples.xlsxThis file contains the access information in NCBI
of 39 samples used of to develop the SNPs.This file contains the access
information in NCBI of 39 samples used to develop the SNPs.Table_
information_NCBI(SRA).docx