Literature DB >> 20952266

An investigation of the robustness of the consensus method of interpreting low-template DNA profiles.

Simon Cowen1, Paul Debenham, Alan Dixon, Stefan Kutranov, Jim Thomson, Kerry Way.   

Abstract

Forensic STR profiles generated from low-template DNA samples are more noticeably subject to effects such as allele dropout, contamination with spurious alleles ('drop-in') and proportionally larger stutter. The profiles obtained are frequently partial, and are challenging to interpret. Specifically, interpretation guidelines which are used when the template DNA is in the optimal range for the STR test kit in use must be adapted to the low-template regime. A commonly used approach to such modified interpretation is known as the 'consensus' or 'biological' method, and relies on replication to achieve reliable results. We have carried out a study to assess the robustness of the consensus method as applied to SGM Plus(®) STR profiles obtained after applying a set of post-PCR purification methods together known as DNA SenCE, and report the results here. Multiple repeat analysis of DNA at five template quantities (ranging between 5pg and 100pg) and from five single donors, was carried out, and the resulting profiles were used to produce consensus profiles using several different evaluation criteria. Our aim was to determine whether the consensus profiles produced are conservative, that is, that the alleles reported are associated with the donor and that drop-in is reduced or eliminated. To this end, the alleles in the consensus profiles were compared with those of the donors, and the degree of concordance determined. The results suggest that increasingly stringent requirements for the number of times an allele must be observed in a set of repeat runs do, as expected, reduce the effect of drop-in, but also reduce the evidential value of the consensus profiles. However, the former is reduced to a much greater extent than the latter, resulting in a relative increase in profile information content versus drop-in peak risk with increased stringency. We also found that approximately half of the non-donor peaks appearing in consensus profiles were in -4 stutter positions for donor alleles present in the same profile, suggesting that many of these so-called drop-in alleles are, in fact, large stutter peaks rather than 'true' drop-in. Nevertheless, the appearance of non-donor peaks in a profile, including what are assumed to be oversized stutter peaks, appears to be an essentially random event.
Copyright © 2010 LGC. Published by Elsevier Ireland Ltd.. All rights reserved.

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Year:  2010        PMID: 20952266     DOI: 10.1016/j.fsigen.2010.08.010

Source DB:  PubMed          Journal:  Forensic Sci Int Genet        ISSN: 1872-4973            Impact factor:   4.882


  8 in total

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Journal:  Int J Legal Med       Date:  2011-05-15       Impact factor: 2.686

2.  Reduced reaction volumes and increased Taq DNA polymerase concentration improve STR profiling outcomes from a real-world low template DNA source: telogen hairs.

Authors:  Dennis McNevin; Janette Edson; James Robertson; Jeremy J Austin
Journal:  Forensic Sci Med Pathol       Date:  2015-05-22       Impact factor: 2.007

3.  A real-time PCR-based amelogenin Y allele dropout assessment model in gender typing of degraded DNA samples.

Authors:  Kyung-Yong Kim; Younghyuk Kwon; Munkhtsetseg Bazarragchaa; Ae-Ja Park; Hyowon Bang; Won-Bok Lee; Junyoung Lee; Kwang-Ho Lee; Bum-Joon Kim; Kijeong Kim
Journal:  Int J Legal Med       Date:  2012-01-12       Impact factor: 2.686

4.  Influence of an individual's age on the amount and interpretability of DNA left on touched items.

Authors:  Micaela Poetsch; Thomas Bajanowski; Thomas Kamphausen
Journal:  Int J Legal Med       Date:  2013-09-19       Impact factor: 2.686

5.  Low-template DNA: A single DNA analysis or two replicates?

Authors:  Simone Gittelson; Carolyn R Steffen; Michael D Coble
Journal:  Forensic Sci Int       Date:  2016-04-18       Impact factor: 2.395

6.  Consensus and pool profiles to assist in the analysis and interpretation of complex low template DNA mixtures.

Authors:  Corina Benschop; Hinda Haned; Titia Sijen
Journal:  Int J Legal Med       Date:  2011-12-01       Impact factor: 2.686

7.  Qualitative and quantitative assessment of Illumina's forensic STR and SNP kits on MiSeq FGx™.

Authors:  Vishakha Sharma; Hoi Yan Chow; Donald Siegel; Elisa Wurmbach
Journal:  PLoS One       Date:  2017-11-09       Impact factor: 3.240

8.  More comprehensive forensic genetic marker analyses for accurate human remains identification using massively parallel DNA sequencing.

Authors:  Angie D Ambers; Jennifer D Churchill; Jonathan L King; Monika Stoljarova; Harrell Gill-King; Mourad Assidi; Muhammad Abu-Elmagd; Abdelbaset Buhmeida; Mohammed Al-Qahtani; Bruce Budowle
Journal:  BMC Genomics       Date:  2016-10-17       Impact factor: 3.969

  8 in total

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