Using blocks of linked single nucleotide polymorphisms as highly polymorphic genetic markers for parentage analysis.

摘要: Single nucleotide polymorphisms (SNPs) are plentiful in most genomes and amenable to high throughput genotyping, but they not yet popular for parentage or paternity analysis. The markers bi-allelic, so individually contain little information about parentage, nonmodel organisms the process of identifying large numbers unlinked SNPs can be daunting. We explore possibility using blocks between three 26 linked as highly polymorphic molecular reconstructing male genotypes polyandrous with moderate (five offspring) (25 clutches offspring. Haplotypes inferred each block programs Haplore Phase 2.1. Each multi-SNP haplotype is then treated a separate allele, producing polymorphic, 'microsatellite-like' marker. A simulation study performed frequencies derived from empirical data sets Drosophila melanogaster Mus musculus populations. find that produced competitive microsatellite loci terms single parent exclusion probabilities, particularly when six more form haplotype. These only modest rates missing genotyping phasing errors thus should seriously considered analysis, interested functional significance across genome.