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Development of a 16 X-STR multiplex PCR system for kinship analysis and its applicability for the Sinhalese population in Sri Lanka

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Abstract

The study describes the development of a new multiplex PCR system that simultaneously amplifies 16 X chromosome short tandem repeats (X-STRs) loci in a single PCR reaction and its applicability on a sample of 200 from the Sinhalese population in Sri Lanka. 13 X-STR loci located in four clusters are selected for the assay (DXS10148-DXS10135-DXS8378, DXS7132-DXS10079-DXS10074-DXS10075, DXS6801-DXS6809-DXS6789 and DXS7424-DXS101-DXS7133). In addition, three single loci were also selected (DXS9902, HPRTB and DXS7423). Genomic DNA extracted using the Chelex-100 method was amplified with modified published primers and subjected to capillary gel electrophoresis. Complete DNA profiles were obtained with 0.20 ng 9947A DNA and the band sizes ranged between 100 and 320 bp with 10 loci having sizes below 237 bp. A total of 160 alleles were observed among the sample with 5–23 alleles for each locus. The forensic efficiency evaluation showed high values for the combined power of discrimination in males (1 in 1 × 1010) and females (1 in 1 × 1017). Combined mean exclusion chance (MEC) indices calculated for deficiency, normal trio and duo cases were equally high (> 0.99999). Application of the new multiplex system to two actual kinship cases of full sibling and deficient paternity suggested that these 16 short tandem repeat loci are highly appropriate for forensic and kinship testing among the Sinhalese population.

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Funding

The work was supported by the National Research Council of Sri Lanka (Grant No: 16-023).

Author information

Authors and Affiliations

  1. Genetech Molecular Diagnostics, Colombo, 08, Sri Lanka

    Nandika Perera

  2. Faculty of Health Sciences, The Open University of Sri Lanka, Nawala, Sri Lanka

    Nandika Perera & Gaya Ranawaka

  3. Department of Zoology and Environment Sciences, University of Colombo, Colombo, 03, Sri Lanka

    Gayani Galhena

Authors
  1. Nandika Perera
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  2. Gayani Galhena
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  3. Gaya Ranawaka
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Contributions

All authors contributed to the study conception and design. Material preparation, data collection, analysis and preparation of the first draft of the manuscript were done by Nandika Perera. The manuscript was reviewed and edited by Gayani Galhena and Gaya Ranawaka. All authors read and approved the final manuscript.

Corresponding author

Correspondence to Nandika Perera.

Ethics declarations

Approval for the study was obtained from the Ethics Review Committee, Institute of Biology, Sri Lanka (ERC IOBSL 135), and the study was performed in line with the principles of the Declaration of Helsinki. Written informed consent was obtained from all individual participants included in the study.

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The authors declare that they have no conflict of interest.

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Perera, N., Galhena, G. & Ranawaka, G. Development of a 16 X-STR multiplex PCR system for kinship analysis and its applicability for the Sinhalese population in Sri Lanka. Int J Legal Med 135, 161–166 (2021). https://doi.org/10.1007/s00414-020-02450-6

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  • DOI: https://doi.org/10.1007/s00414-020-02450-6

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