1. Forensic evaluation of the Asia Pacific ancestry-informative MAPlex assay
- Author
-
M. de la Puente, R. Daniel, Ana Mosquera-Miguel, Ana Freire-Aradas, Robert Lagacé, Sharon Wootton, Mayra Eduardoff, Antonia Heidegger, Walther Parson, D. Power, Catarina Xavier, M. V. Lareu, Christopher Phillips, and Universidade de Santiago de Compostela. Departamento de Ciencias Forenses, Anatomía Patolóxica, Xinecoloxía e Obstetricia, e Pediatría
- Subjects
0301 basic medicine ,Genotype ,Biogeographical ancestry estimation ,Single-nucleotide polymorphism ,Asia-Pacific populations ,Computational biology ,Biology ,Asia pacific region ,Polymerase Chain Reaction ,Polymorphism, Single Nucleotide ,Pathology and Forensic Medicine ,03 medical and health sciences ,Ion S5 sequencing ,0302 clinical medicine ,Asia pacific ,Asian People ,Gene Frequency ,Genetics ,Humans ,Multiplex ,030216 legal & forensic medicine ,Overall performance ,Massive parallel sequencing ,High-Throughput Nucleotide Sequencing ,Sequence Analysis, DNA ,Highly sensitive ,Forensic science ,030104 developmental biology ,Genetics, Population ,Haplotypes - Abstract
DNA intelligence, and particularly the inference of biogeographical ancestry (BGA) is increasing in interest, and relevance within the forensic genetics community. The majority of current MPS-based forensic ancestry-informative assays focus on the differentiation of major global populations. The recently published MAPlex (Multiplex for the Asia Pacific) panel contains 144 SNPs and 20 microhaplotypes and aims to improve the differentiation of populations in the Asia Pacific region. This study reports the first forensic evaluation of the MAPlex panel using AmpliSeq technology and Ion S5 sequencing. This study reports on the overall performance of MAPlex including the assay’s sequence coverage distribution and stability, baseline noise and description of problematic SNPs. Dilution series, artificially degraded and mixed DNA samples were also analysed to evaluate the sensitivity of the panel with challenging or compromised forensic samples. As the first panel to combine biallelic SNPs, multiple-allele SNPs and microhaplotypes, the MAPlex assay demonstrated an enhanced capacity for mixture detection, not easily performed with common binary SNPs. This performance evaluation indicates that MAPlex is a robust, stable and highly sensitive assay that is applicable to forensic casework for the prediction of BGA MdlP is supported by a postdoctoral fellowship awarded by the Consellería de Cultura, Educación e Ordenación Universitaria and the Consellería de Economía, Emprego e Industria from Xunta de Galicia (Modalidade A, ED481B 2017/088). CP, AFA, AMM, MdlP, MVL are supported by MAPA, Multiple Allele Polymorphism Analysis (BIO2016-78525-R), a research project funded by the Spanish Research State Agency (AEI), and co-financed with ERDF funds. AFA is supported by a post-doctorate grant funded by the Consellería de Cultura, Educación e Ordenación Universitaria e da Consellería de Economía, Emprego e Industria from Xunta de Galicia, Spain (Modalidade B, ED481B 2018/010). The 1000 Genomes high coverage sequence data were generated at the New York Genome Center with funds provided by NHGRI Grant 3UM1HG008901-03S1 SI
- Published
- 2020