Effectiveness of microsatellite and SNP markers for parentage and identity analysis in species with low genetic diversity: the case of European bison

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  • M Torskarska, Mammal Research Institute, Polish Academy of Sciences, Poland
  • T Marshall, Field Genetics Limited, London, United Kingdom
  • R Kowalczyk, Mammal Research Institute, Polish Academy of Sciences, Poland
  • J M Wójcik, Mammal Research Institute, Polish Academy of Sciences, Poland
  • C. Pertoldi
  • T N Kristensen
  • Volker Loeschcke
  • V R Gregersen, Denmark
  • C Bendixen
  • Populationsgenetik og Embryologi
  • Department of Genetics and Biotechnology
  • Molekylær Genetik og Bioteknologi
  • Molekylær Genetik og Systembiologi
  • Department of Biological Sciences, Genetics and Ecology
The European bison (Bison bonasus) has recovered successfully after a severe bottleneck about 90 years ago. Pedigree analysis indicates that over 80% of the genes in the contemporary population descend from just 2 founder individuals and the pedigree-based inbreeding coefficient averages almost 0.5, while microsatellite heterozygosity is around 0.3. This paper presents a comparison of the effectiveness of 17 microsatellite and 960 SNP markers in paternity and identity analysis in the Lowland line of European bison ('pure' European bison). Identity analysis revealed that 16% of the microsatellite-based genotypes were common to more than one individual while a smaller set of SNP-based genotypes were all unique, even. Microsatellite-based paternity analysis did not succeed due to low marker heterozygosity. Using SNP markers, simulations suggest that 80-90 randomly selected loci would be sufficient to ensure successful paternity analysis, or just 50-60 of the most heterozygous loci. For the purpose of standardizing future parentage and identity analysis, a panel of 50-60 SNPs characterized by high heterozygosity and an even distribution in the genome could be selected. This panel of selected markers could be typed using e.g. Veracode (Illumina) or SNPlex (ABI) technologies to provide an efficient and reliable method for parentage and identity analysis in European bison. Customizing off-the-shelf SNP marker panels created for domestic species can provide powerful, low-cost tools for genetic analysis in related species
Original languageEnglish
JournalHeredity
Volume103
Issue4
Pages (from-to)326-332
Number of pages7
ISSN0018-067X
DOIs
Publication statusPublished - 2009

    Research areas

  • CERVUS 3.0.3, European bison, bottleneck, genetic diversity, BeadChip

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