Genotyping of 49-plex autosomal SNP panel in Iranian Turkmens ethnic group.

ABSTRACT

A total of 94 unrelated individuals from Turkmens ethnic group in Iran were typed for forty-nine of the autosomal single nucleotide polymorphisms (SNPs) in the SNPforID 52plex using the SNaPshot assay. Allele frequencies are presents for the 49 SNPs. No deviation from Hardy-Weinberg equilibrium (HWE) was observed in all but one of the 49 SNP systems and no significant linkage disequilibrium was detected for any SNP pairs. FIS and FST were estimated. A statistically significant global FST value was obtained when Turkmens ethnic group were compared with other 20 populations in Turkey, Israel, Pakistan, India, China, Taiwan, Japan, Thailand, Siberia, Algeria, Somali, Uganda, Mozambique, Angola, Nigeria, Russia, Slovenia, Sweden, France and Spain. All but 11 pairwise FST values were statistically significant. Multidimensional scaling plot drawn based on the pairwise FST values showed that the Turkmens ethnic grouped with populations geographically close to Iran and other Middle-Eastern populations. The cumulative values for the match probability using the 49 SNPs was 5.65 × 10-19 consistent to a combined power of discrimination of >99.99999% and the mean exclusion probability was 99.95%.