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Published April 27, 2015 | Version v1
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Data from: Molecular genetics of sex identification, breed ancestry and polydactyly in the Norwegian Lundehund breed

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Description

The Norwegian Lundehund breed of dog has undergone a severe loss of genetic diversity as a result of inbreeding and epizootics of canine distemper. As a consequence, the breed is extremely homogeneous and accurate sex identification is not always possible by standard screening of X-chromosomal loci. To improve our genetic understanding of the breed we genotyped 17 individuals using a genome-wide array of 170 000 single nucleotide polymorphisms (SNPs). Standard analyses based on expected homozygosity of X-chromosomal loci failed in assigning individuals to the correct sex, as determined initially by physical examination and confirmed with the Y-chromosomal marker, amelogenin. This demonstrates that identification of sex using standard SNP assays can be erroneous in highly inbred individuals.

Notes

Kropatsch et al 2015 Norwegian Lundehund Y mtDNA genetic data
Excel file containing genotypes of three variable mitochondrial DNA (mtDNA) sites in the ATP synthase subunit 6 gene, a 3'portion of ATP synthase subunit 8 gene and a portion of D-loop sequence as well as of nine Y-chromosomal markers (five single nucleotide polymorphisms (SNPs) and four microsatellites) in 57 Norwegian Lundehund individuals sorted by gender (m: male, f: female). The genotypes of the mtDNA sites and the Y-chromosomal SNPs show the nucleotide identified at the respective position. The genotypes of Y-chromosomal microsatellites are given as fragment lengths. For mtDNA and Y-chromosomal SNPs exchange positions are indicated according to the mtDNA reference sequence or Embl accession numbers, respectively. For Y-chromosomal microsatellites, simple repeat motifs are shown. Missing genetic data is indicated as "-".
Lundehund1.ped
Single nucleotide polymorphism (SNP) raw data files for 17 Lundehund dogs for use with the software PLINK: PED file.
Lundehund1.map
Single nucleotide polymorphism (SNP) raw data files for 17 Lundehund dogs for use with the software PLINK: MAP file.
Lundehund1_information
Text file with sample number (FID), individual identification (IID) and sex for 17 Lundehund dogs.

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Lundehund1_information.txt

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Additional details

Related works

Is cited by
10.1093/jhered/esv031 (DOI)