Advertisement
Research Article| Volume 5, ISSUE 4, P269-275, August 2011

Download started.

Ok

Concordance and population studies along with stutter and peak height ratio analysis for the PowerPlex® ESX 17 and ESI 17 Systems

      Abstract

      The PowerPlex® ESX 17 and ESI 17 Systems for short tandem repeat (STR) amplification were developed by the Promega Corporation to meet the European Network of Forensic Science Institutes (ENFSI) and the European DNA Profiling (EDNAP) Group recommendations for increasing the number of STR loci included in the European Standard Set (ESS). The PowerPlex ESX 17 and ESI 17 Systems utilize different PCR primer combinations to co-amplify the following 17 loci: D1S1656, D2S441, D2S1338, D3S1358, D8S1179, D10S1248, D12S391, D16S539, D18S51, D19S433, D21S11, D22S1045, FGA, TH01, vWA, SE33, and the sex-typing locus amelogenin. A total of 1443 U.S. population samples were evaluated with pre-commercialization versions of both kits. Stutter and heterozygote peak height ratios have been used to characterize kit performance. Typing results have been used to estimate the match probabilities provided by the chosen loci as well as in concordance studies. Full concordance between the typing results for the two kits was observed in 99.994% (49,055 out of 49,062) STR allele calls compared. All genotyping discrepancies were confirmed by DNA sequence analysis. As a result of these comparisons, a second forward primer for the D22S1045 locus has been added to the PowerPlex ESX 17 System to address a primer binding site mutation and the D1S1656 locus reverse primer in the PowerPlex ESI 17 System was modified to eliminate an amplification-efficiency reducing primer dimer.

      Keywords

      To read this article in full you will need to make a payment

      Purchase one-time access:

      Academic & Personal: 24 hour online accessCorporate R&D Professionals: 24 hour online access
      One-time access price info
      • For academic or personal research use, select 'Academic and Personal'
      • For corporate R&D use, select 'Corporate R&D Professionals'

      Subscribe:

      Subscribe to Forensic Science International: Genetics
      Already a print subscriber? Claim online access
      Already an online subscriber? Sign in
      Institutional Access: Sign in to ScienceDirect

      References

        • Weir B.S.
        Matching and partially-matching DNA profiles.
        J. Forensic Sci. 2004; 49: 1009-1014
        • Weir B.S.
        The rarity of DNA profiles.
        Ann. Appl. Stat. 2007; 1: 358-370
        • Schneider P.M.
        Expansion of the European Standard Set of DNA database loci—the current situation.
        Profiles DNA. 2009; 12: 6-7
      1. ENFSI document on DNA-database management April 2009: http://www.enfsi.eu/page.php?uid=98. (accessed December 4, 2009).

        • Gill P.
        • Fereday L.
        • Morling N.
        • Schneider P.M.
        The evolution of DNA databases—recommendations for new European loci.
        Forensic Sci. Int. 2006; 156: 242-244
        • Gill P.
        • Fereday L.
        • Morling N.
        • Schneider P.M.
        Letter to the Editor: new multiplexes for Europe–Amendments and clarification of strategic development.
        Forensic Sci. Int. 2006; 163: 155-157
        • Coble M.D.
        • Butler J.M.
        Characterization of new miniSTR loci to aid analysis of degraded DNA.
        J. Forensic Sci. 2005; 50: 43-53
      2. A. Carracedo, M.V. Lareu, Development of new STRs for forensic casework: criteria for selection, sequencing & population data and forensic validation, Proceedings of the 9th International Symposium on Human Identification, available at http://www.promega.com/geneticidproc/ussymp9proc/content/21.pdf. (accessed December 4, 2009).

        • Sprecher C.J.
        • McLaren R.S.
        • Rabbach D.
        • Krenke B.
        • Ensenberger M.G.
        • Fulmer P.M.
        • Downey L.
        • McCombs E.
        • Storts D.R.
        PowerPlex ESX and ESI Systems: a suite of new STR systems designed to meet the changing needs of the DNA-typing community.
        Forensic Sci. Int.: Genet. Suppl. Ser. 2009; 2: 2-4
      3. Technical Manual for PowerPlex® ESX 17 System: http://www.promega.com/tbs/tmd024/tmd024.pdf. (accessed December 4, 2009).

      4. Technical Manual for PowerPlex® ESI 17 System: http://www.promega.com/tbs/tmd028/tmd028.pdf. (accessed December 4, 2009).

      5. STRBase null allele website: http://www.cstl.nist.gov/biotech/strbase/NullAlleles.htm. (accessed December 4, 2009).

        • Butler J.M.
        Forensic DNA Typing: Biology, Technology, and Genetics of STR Markers.
        second ed. Elsevier Academic Press, 2005
        • Butler J.M.
        Genetics and genomics of core STR loci used in human identity testing.
        J. Forensic Sci. 2006; 51: 253-265
        • Kline M.C.
        • Jenkins B.
        • Rodgers S.
        Non-amplification of a vWA allele.
        J. Forensic Sci. 2003; 43: 250-251
        • Leclair B.
        • Fregeau C.J.
        • Bowen K.L.
        • Fourney R.M.
        Systematic analysis of stutter percentages and allele peak height and peak area ratios at heterozygous STR loci for forensic casework and database samples.
        J. Forensic Sci. 2004; 49: 968-980
      6. NIST population data website: http://www.cstl.nist.gov/biotech/strbase/NISTpop.htm. (accessed December 4, 2009).

        • Butler J.M.
        • Schoske R.
        • Vallone P.M.
        • Redman J.W.
        • Kline M.C.
        Allele frequencies for 15 autosomal STR loci on U.S. Caucasian, African American, and Hispanic populations.
        J. Forensic Sci. 2003; 48: 908-911
        • Hill C.R.
        • Kline M.C.
        • Mulero J.J.
        • Lagace R.E.
        • Chang C.-W.
        • Hennessy L.K.
        • Butler J.M.
        Concordance study between the AmpFlSTR MiniFiler PCR amplification kit and conventional STR typing kits.
        J. Forensic Sci. 2007; 52: 870-873
      7. J.M. Butler, C.R. Hill, A.E. Decker, M.C. Kline, T.M. Reid, P.M. Vallone, New autosomal and Y-chromosome STR loci: characterization and potential uses, Proceedings of the 18th International Symposium on Human Identification, available at http://www.promega.com/geneticidproc/ussymp18proc/oralpresentations/Butler.pdf. (accessed December 4, 2009).

        • Decker A.E.
        • Kline M.C.
        • Redman J.W.
        • Reid T.M.
        • Butler J.M.
        Analysis of mutations in father-son pairs with 17 Y-STR loci.
        Forensic Sci. Int.: Genet. 2008; 2: e31-e35
      8. NIST SRM 2391b PCR-based DNA Profiling Standard: https://www-s.nist.gov/srmors/view_detail.cfm?srm=2391B. (accessed December 4, 2009).

        • Liu J.
        • Muse S.V.
        PowerMarker: integrated analysis environment for genetic marker data.
        Bioinformatics. 2005; 21 (Available for download: http://statgen.ncsu.edu/powermarker/index.html. (accessed December 4, 2009).): 2128-2129
        • Butler J.M.
        • Hill C.R.
        • Kline M.C.
        • Duewer D.L.
        • Sprecher C.J.
        • McLaren R.S.
        • Rabbach D.R.
        • Krenke B.E.
        • Storts D.R.
        The single most polymorphic STR locus: SE33 performance in U.S. populations.
        Forensic Sci. Int.: Genet. Suppl. Ser. 2009; 2: 23-24