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DNA markers on the X-chromosome (ChrX) have been shown to be powerful tools for solving complex relationship cases [1].
The ChrX contains four linkage groups located at Xp22.2, Xq12, Xq26, and Xq28 that can provide independent genotype information. At present, it is proposed that it is preferable to use clusters to define haplotypes in forensic practice [2].
The X-Decaplex (DXS8378, DXS9902, DXS7132, DXS9898, DXS6809, DXS6789, DXS7133, GATA172D05, GATA31E08, and DXS7423) has been used by the GHEP-ISFG to make several studies [3, 4] and to solve forensic cases.
The Investigator Argus X-12 kit (Qiagen) includes 12 X-STRs located in four different linkage groups (linkage group 1: DXS10148, DXS10135, DXS8378; linkage group 2: DXS7132, DXS10079, DXS10074; linkage group 3: DXS10103, HPRTB, DXS10101; linkage group 4: DXS10146, DXS10134, DXS7423).
The Investigator ArgusX-12 Kit is a multiplex application kit that amplifies 12X-chromosomal STR loci highly suited for paternity testing [5], forensic applications, as well as population genetics and anthropological studies [6]. The analysis of complex kinship cases often requires the study of more genetic markers than the commonly used autosomal short tandem repeat systems to unravel simple cases [7].
DNA was extracted from buccal cell swabs by Chelex method [8] from 150 healthy unrelated males and 73 females from the North of Portugal, involved in paternity testing, after consent. The extracted DNA was amplified using the Investigator Argus X-12 kit (Qiagen), according to the manufacturer’s recommendations (Investigator Argus X-12 Handbook, Qiagen®, 2010), in a GeneAmp 9700 PCR system (Applied Biosystems, Foster City, CA). Control DNA XX28 (Qiagen) was genotyped as standard reference. The amplified products were detected and separated by capillary electrophoresis in an ABI PRISM 3100 Genetic Analyzer (Applied Biosystems). Fragment sizes and genotypes were determined automatically using the GeneMapperID (Applied Biosystems). Allele designations were determined by comparison of the amplified fragments with those of the allelic ladders.
Allele frequencies, homozygotie (h), heterozygosity (HET), power of exclusion (PE), paternity index (PI), polymorphism information content (PIC), mean exclusion chance (MEC), and power of discrimination (PD) calculations were performed using http://www.chrx-str.org/. Our laboratory participates in the collaborative quality control and proficiency testing exercises of the GEP-ISFG group (http://www.isfg.org).
Here, we report allele frequencies and haplotype data of a North of Portugal population, involving 150 males and 73 females and 150 males, respectively.
The allele frequencies for the 12 X-STRs loci are shown in Table S1 and population statistic parameters in Table S2.
Haplotype frequencies were counted for each linkage group. The distribution of STR haplotypes are summarized in Table S3 and detailed haplotype data is supplied as supplementary material (Tables S4a, b, c and d).
Testing a population of 223 unrelated individuals (150 males and 73 females) revealed 129 different haplotypes for linkage group 1, 92 for linkage group 2, 86 for linkage group 3, and 116 for linkage group 4. None of them exceeds a frequency of 0.04, and the frequency of the unique haplotypes for all the linkage groups is 0.00667. The unique haplotypes correspond to 85.3%, 64.1%, 67.4%, and 76.0% for the linkage groups 1–4, respectively.
The results support that ArgusX-12 Kit is very informative for forensic purposes. It can considerably improve the statistical information in forensic routine analysis, mainly because using linkage groups with three loci increases the power of discrimination compared to other available commercial kits. Comparing the Argus X-12 kit with the previously mentioned X-Decaplex [4], the matching probability in male samples, considering the loci as independent, decreased from 1.03 × 10-6 to 5.87 × 10-10, and the power of discrimination increased from 99.9999% to 99.9999999%.
References
Becker D, Rodig H, Augustin C, Edelmann J, Götz F, Hering S, Szibor R, Brabetz W (2008) Population genetic evaluation of eight X-chromosomal short tandem repeat loci using Mentype Argus X-8 PCR amplification kit. Forensic Sci Int Genet 2:69–74
Szibor R (2007) The X chromosome in forensic science: past, present and future. Molecular forensics. Wiley. 103–126
Gusmão L, Sánchez-Diz P, Alves C et al (2008) A GEP-ISFG collaborative study on the optimization of an X-STR decaplex: data on 15 Iberian and Latin American populations. Int J Legal Med. doi:10.1007/s00414-008-0309-4
Zarrabeitia MT, Pinheiro F, de Pancorbo MM et al (2009) Analysis of 10 -linked tetranucleotide markers in mixed and isolated populations. Forensic Sci Int Genet 3:63–66
Cainé L, Carvalho R, Costa S, Pereira M, Pinheiro MF Interest of X chromosome (Argus X-12 kit) in complex kinship analysis. Forensic Sci Int Genet Suppl Ser. doi:10.1016/j.fsigss.2011.08.103
Edelmann J, Lutz-Bonengel S, Naue J, Hering S (2012) X-chromosomal haplotype frequencies of four linkage groups using the Investigator Argus X-12 Kit. Forensic Sci Int Genet 6:24–34
Tomas C, Pereira V, Morling N (2012) Analysis of 12 X-STRs in Greenlanders, Danes and Somalis using Argus X-12. Int J Legal Med 126 (1):121–128
Walsh PS, Metzer DA, Higuchi R (1991) CHELEX® 100 as a medium for simple extraction of DNA for PCR-based typing from forensic material. Biotechniques 10:506–513
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Table S 1
Forensic parameters for 12 X-STR loci in the tested population of the North of Portugal (150 males, 73 females). (XLSX 12 kb)
Table S 2
Allele frequencies of the 12 X-STR loci in the tested population of the North of Portugal (150 males, 73 females). (XLSX 11 kb)
Table S 3
Distribution of STR haplotypes for the Chr X linkage groups (n = 150 males). (XLSX 9 kb)
Table S 4a
Haplotype frequencies on Chr X linkage group 1 (n = 150 males). (XLSX 11 kb)
Table S 4b
Haplotype frequencies on Chr X linkage group 2 (n = 150 males). (XLSX 10 kb)
Table S 4c
Haplotype frequencies on Chr X linkage group 3 (n = 150 males). (XLSX 10 kb)
Table S 4d
Haplotype frequencies on Chr X linkage group 4 (n = 150 males). (XLSX 11 kb)
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Cainé, L., Costa, S. & Pinheiro, M.F. Population data of 12 X-STR loci in a North of Portugal sample. Int J Legal Med 127, 63–64 (2013). https://doi.org/10.1007/s00414-012-0672-z
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DOI: https://doi.org/10.1007/s00414-012-0672-z