Document Details

Document Type : Article In Journal 
Document Title :
Flanking region variation of ForenSeq™ DNA signature prep kit STR and SNP loci in Yavapai Native Americans
Flanking region variation of ForenSeq™ DNA signature prep kit STR and SNP loci in Yavapai Native Americans
Document Language : English 
Abstract : Massively parallel sequencing (MPS) offers advantages over current capillary electrophoresis-based analysis of short tandem repeat (STR) loci for human identification testing. In particular STR repeat motif sequence information can be obtained, thereby increasing the discrimination power of some loci. While sequence variation within the repeat region is observed relatively frequently in some of the commonly used STRs, there is an additional degree of variation found in the flanking regions adjacent to the repeat motif. Repeat motif and flanking region sequence variation have been described for major population groups, however, not for more isolated populations. Flanking region sequence variation in STR and single nucleotide polymorphism (SNP) loci in the Yavapai population was analyzed using the ForenSeqTM DNA Signature Prep Kit and STRait Razor v2s. Seven and 14 autosomal STRs and identity-informative single nucleotide polymorphisms (iiSNPs), respectively, had some degree of flanking region variation. Three and four of these identity-informative loci, respectively, showed _5% increase in expected heterozygosity. The combined length- and sequence-based random match probabilities (RMPs) for 27 autosomal STRs were 6.11 _10 _26 and 2.79 _ 10 _29, respectively. When combined with 94 iiSNPs (a subset of which became microhaplotypes) the combined RMP was 5.49 _ 10 _63. Analysis of length-based and sequence- based autosomal STRs in STRUCTURE indicated that the Yavapai are most similar to the Hispanic population. While producing minimal increase in X- and Y-STR discrimination potential, access to flanking region data enabled identification of one novel X-STR and three Y-STR alleles relative to previous reports. Five ancestry-informative SNPs (aiSNPs) and two phenotype-informative SNPs (piSNPs) exhibited notable flanking region variation. 
ISSN : 1872-4973 
Journal Name : Forensic Science International: Genetics 
Volume : 28 
Issue Number : 1 
Publishing Year : 1438 AH
2017 AD
Article Type : Article 
Added Date : Thursday, June 1, 2017 


Researcher Name (Arabic)Researcher Name (English)Researcher TypeDr GradeEmail
Wendt Frank RFrank R, Wendt InvestigatorDoctorate 
King Jonathan LJonathan L, King ResearcherDoctorate 
Novroski Nicole MMNicole MM, Novroski ResearcherDoctorate 
Churchill Jennifer DJennifer D, Churchill ResearcherDoctorate 
Ng JillianJillian, Ng ResearcherDoctorate 
Oldt Robert FRobert F, Oldt ResearcherDoctorate 
McCulloh Kelly LKelly L, McCulloh ResearcherDoctorate 
Weise Jessica AJessica A, Weise ResearcherDoctorate 
Smith David GlennDavid Glenn, Smith ResearcherDoctorate 
Kanthaswamy SreetharanSreetharan, Kanthaswamy ResearcherDoctorate 
Bruce BudowleBudowle, Bruce ResearcherDoctorate 


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