SNaPshot® minisequencing analysis of multiple ancestry-informative Y-SNPs using capillary electrophoresis

Methods Mol Biol. 2012;830:127-40. doi: 10.1007/978-1-61779-461-2_9.


This protocol describes a strategy for analyzing phylogenetic Y-SNPs in a hierarchical multiplex assay by utilizing the SNaPshot(®) Multiplex System. Step by step, the protocol assists in the appropriate selection of SNPs, the primer design, the set up of PCR/SBE reactions as well as in the analysis of the results. Furthermore, a forensic approach is highlighted, in which the most probable ancestry of an unknown male DNA is inferred by the geographical distribution of the assigned Y-SNP haplogroup.

MeSH terms

  • Base Pairing / genetics
  • Chromosomes, Human, Y / genetics*
  • DNA Primers / metabolism
  • Electrophoresis, Capillary / methods*
  • Genealogy and Heraldry*
  • Geography
  • Haplotypes / genetics
  • Humans
  • Male
  • Phylogeny
  • Polymerase Chain Reaction
  • Polymorphism, Single Nucleotide / genetics*
  • Sequence Analysis, DNA / methods*
  • Statistics as Topic


  • DNA Primers