title: Application of the new insertion-deletion polymorphism kit for forensic identification and parentage testing on the Czech population.
abstract: Insertion-deletion polymorphisms (INDELs) are diallelic markers derived from a single mutation event. Their low mutation frequency makes them suitable for forensic and parentage testing. The examination of INDELs thus combines advantages of both short tandem repeats (STR) and single nucleotide polymorphisms (SNP). This type of polymorphisms may be examined using as small amplicon size as SNP (about 100 bp) but could be analyzed by techniques used for routine STR analysis. For our population study, we genotyped 55 unrelated Czech individuals. We also genotyped 11 trios to analyze DIPplex Kit (QIAGEN, Germany) suitability for parentage testing. DIPplex Kit contains 30 diallelic autosomal markers. INDELs in DIPplex Kit were tested with linkage disequilibrium test, which showed that they could be treated as independent markers. All 30 loci fulfill Hardy-Weinberg equilibrium. There were several significant differences between Czech and African populations, but no significant ones within European population. Probability of a match in the Czech population was 1 in 6.8 × 10(12); combined power of discrimination was 99.9999999999%. Average paternity index was 1.13-1.77 for each locus; combined paternity index reached about 27,000 for a set of 30 loci. We can conclude that DIPplex kit is useful as an additional panel of markers in paternity cases when mutations in STR polymorphisms are present. For application on degraded or inhibited samples, further optimization of buffer and primer concentrations is needed.
authors: First Faculty of Medicine, Charles University in Prague, Prague, Czech Republic.
authors: Anastassiya
authors: A
authors: Zidkova
authors: Ales
authors: A
authors: Horinek
authors: Vera
authors: V
authors: Kebrdlova
authors: Marie
authors: M
authors: Korabecna
mesh_terms: D018153:Czech Republic; D016172:DNA Fingerprinting / Q000379:methods*; D005260:Female; D005787:Gene Frequency; D005828:Genetics, Population; D005838:Genotype; D006801:Humans; D054643:INDEL Mutation; D015810:Linkage Disequilibrium; D008297:Male; D018895:Microsatellite Repeats; D060885:Multiplex Polymerase Chain Reaction; D010334:Paternity; D011110:Polymorphism, Genetic; D044469:Racial Groups / Q000235:genetics; D012732:Sex Determination Analysis / Q000379:methods