Dryad
Published January 23, 2015 | Version v1
Dataset Open

Data from: "Diagnostic SNPs for inferring population structure in American mink (Neovison vison) identified through RAD sequencing" in Genomic Resources Notes accepted 1 October 2014 to 30 November 2014

Creators

  • 1. Aarhus University
  • 2. University of the Basque Country
  • 3. Polish Academy of Sciences
  • 4. Mammal Research Institute
  • 5. Aalborg University
  • 6. Institute of Ecosystem Study
  • 7. University of L'Aquila
  • 8. National Agency For New Technologies, Energy and Sustainable Economic Development
  • 9. Institute of Biosciences and Bioresources

Description

The article documents the public availability of RAD sequencing data and generated SNPs for the American mink (Neovison vison). 224,095 polymorphic loci were identified from 14 mink from which primers were designed for a subset of 380 SNPs. The panel was tested on 211 mink. Fisher's F-statistics (Fis, FIT and FST) as well as observed (HO), expected (HE) and unbiased expected (uHE) heterozygosity was calculated for the SNPs and 194 SNPs was validated as being useful for population genetic studies.

Notes

Scripts
scripts from FASTX-toolkit for clipping, trimming and quality filter, as well as scripts for the ref map.pl. pipeline of Stacks (ustacks and sstacks) are available at Dryad data repository (http://dx.doi.org/10.5061/dryad.85sh7)
scripts
batch_1.catalog.tags
batch_1.catalog.snps
batch_1.catalog.alleles
genotypes of test population

Files

Files (360.3 MB)

Name Size Download all
md5:183b117df3f58c6669c288b9067aaf99
31.1 MB Download
md5:a45bc177a4fb82fa27cffb446c9411ab
8.4 MB Download
md5:440ce158a9035a83af28f248644ed899
320.2 MB Download
md5:26034bb04f9c387f4d7cfce059e7686f
572.8 kB Download
md5:d39ec0c8981c6de417282405b22850cc
11.5 kB Download

Additional details

Related works

Is cited by
10.1111/1755-0998.12368 (DOI)