title: The validation of forensic DNA extraction systems to utilize soil contaminated biological evidence.
abstract: The production of full DNA profiles from biological evidence found in soil has a high failure rate due largely to the inhibitory substance humic acid (HA). Abundant in various natural soils, HA co-extracts with DNA during extraction and inhibits DNA profiling by binding to the molecular components of the genotyping assay. To successfully utilize traces of soil contaminated evidence, such as that found at many murder and rape crime scenes in South Africa, a reliable HA removal extraction system would often be selected based on previous validation studies. However, for many standard forensic DNA extraction systems, peer-reviewed publications detailing the efficacy on soil evidence is either lacking or is incomplete. Consequently, these sample types are often not collected or fail to yield suitable DNA material due to the use of unsuitable methodology. The aim of this study was to validate the common forensic DNA collection and extraction systems used in South Africa, namely DNA IQ, FTA elute and Nucleosave for processing blood and saliva contaminated with HA. A forensic appropriate volume of biological evidence was spiked with HA (0, 0.5, 1.5 and 2.5 mg/ml) and processed through each extraction protocol for the evaluation of HA removal using QPCR and STR-genotyping. The DNA IQ magnetic bead system effectively removed HA from highly contaminated blood and saliva, and generated consistently acceptable STR profiles from both artificially spiked samples and crude soil samples. This system is highly recommended for use on soil-contaminated evidence over the cellulose card-based systems currently being preferentially used for DNA sample collection.
authors.affiliation: Division of Forensic Pathology, University of Cape Town, South Africa.
authors.forename: Mohaimin
authors.initials: M
authors.lastname: Kasu
authors.affiliation: Division of Haematology, University of Cape Town, South Africa; National Health Laboratory Services/Groote Schuur Hospital, Haematology, Cape Town, South Africa. Electronic address: karen.shires@uct.ac.za.
authors.forename: Karen
authors.initials: K
authors.lastname: Shires
mesh_terms: D001774:Blood Chemical Analysis; D004247:DNA / Q000302:isolation & purification*; D059018:DNA Contamination; D016172:DNA Fingerprinting / Q000379:methods* / Q000592:standards; D053803:Forensic Genetics / Q000379:methods* / Q000592:standards; D060005:Genotyping Techniques; D006801:Humans; D006812:Humic Substances; D018895:Microsatellite Repeats; D016133:Polymerase Chain Reaction / Q000379:methods; D012463:Saliva / Q000737:chemistry; D012987:Soil / Q000737:chemistry*; D013019:South Africa
chemical_list: D006812:Humic Substances; D012987:Soil; D004247:DNA
keywords: DNA IQ; DNA profiling; FTA; Humic acid; Nucleosave; Soil