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Evaluation of the MiSeq FGx system for use in forensic casework.
Int J Legal Med. 2019 May; 133(3):689-697.IJ

Abstract

Capillary electrophoresis (CE) is widely used in forensic genetics to study short tandem repeats (STRs). Recently, next-generation sequencing (NGS) platforms have facilitated the development of new strategies for forensic DNA typing. Several studies have shown that NGS successfully analyzes challenging samples. However, because NGS is complicated and time-consuming, it remains unclear whether NGS platforms offer significant advantages over CE for all forensic cases. Here, the MiSeq FGx system was used to test some cases that had previously been analyzed using CE. These cases included paternity test cases in which some samples exhibited locus inconsistencies; samples with off-ladder (OL) alleles; samples with triallelic patterns; and samples with amelogenin test abnormalities. The results generated by MiSeq FGx were compared to those previously generated by CE. The MiSeq FGx and CE results were consistent with the exception of three samples, where inconsistencies were observed at the Penta D locus. For all three incongruent samples, the MiSeq FGx results were correct. Sequence analysis indicated that, in two cases, mismatches were due to undetected alleles rather than mutations. In two additional cases, mutation sources were identified, and in a fifth case, mutation step size was reconsidered. MiSeq FGx was used to identify OL alleles and samples with amelogenin test abnormalities. For cases where verification was required via CE analysis, the simultaneous NGS amplification of several types of multiple genetic markers improved testing efficiency. In addition, we identified additional sequence variants at autosomal, Y chromosomal, and X chromosomal STR loci in the Han Chinese population from northern China. Our results will be useful for future forensic analyses of STR genotypes in Chinese populations. It is likely that NGS would be more widely used in forensic genetics if costs and procedure complexity were reduced.

Authors+Show Affiliations

Institute of Beijing DNA Evidence, Beijing, 101318, People's Republic of China. 873862557@qq.com.Institute of Beijing DNA Evidence, Beijing, 101318, People's Republic of China.Institute of Beijing DNA Evidence, Beijing, 101318, People's Republic of China.Institute of Beijing DNA Evidence, Beijing, 101318, People's Republic of China.Institute of Beijing DNA Evidence, Beijing, 101318, People's Republic of China.Institute of Beijing DNA Evidence, Beijing, 101318, People's Republic of China.Institute of Beijing DNA Evidence, Beijing, 101318, People's Republic of China.Institute of Beijing DNA Evidence, Beijing, 101318, People's Republic of China.Institute of Beijing DNA Evidence, Beijing, 101318, People's Republic of China.Institute of Beijing DNA Evidence, Beijing, 101318, People's Republic of China. 18601285369@163.com.

Pub Type(s)

Comparative Study
Evaluation Study
Journal Article

Language

eng

PubMed ID

30604102

Citation

Wu, Jie, et al. "Evaluation of the MiSeq FGx System for Use in Forensic Casework." International Journal of Legal Medicine, vol. 133, no. 3, 2019, pp. 689-697.
Wu J, Li JL, Wang ML, et al. Evaluation of the MiSeq FGx system for use in forensic casework. Int J Legal Med. 2019;133(3):689-697.
Wu, J., Li, J. L., Wang, M. L., Li, J. P., Zhao, Z. C., Wang, Q., Yang, S. D., Xiong, X., Yang, J. L., & Deng, Y. J. (2019). Evaluation of the MiSeq FGx system for use in forensic casework. International Journal of Legal Medicine, 133(3), 689-697. https://doi.org/10.1007/s00414-018-01987-x
Wu J, et al. Evaluation of the MiSeq FGx System for Use in Forensic Casework. Int J Legal Med. 2019;133(3):689-697. PubMed PMID: 30604102.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Evaluation of the MiSeq FGx system for use in forensic casework. AU - Wu,Jie, AU - Li,Jing-Long, AU - Wang,Meng-Lei, AU - Li,Jian-Ping, AU - Zhao,Zhi-Chao, AU - Wang,Qi, AU - Yang,Shu-Dong, AU - Xiong,Xin, AU - Yang,Jing-Long, AU - Deng,Ya-Jun, Y1 - 2019/01/02/ PY - 2018/02/04/received PY - 2018/12/19/accepted PY - 2019/1/4/pubmed PY - 2019/5/30/medline PY - 2019/1/4/entrez KW - Forensic casework KW - Forensic genetics KW - Illumina MiSeq FGx™ system KW - Next-generation sequencing KW - STR KW - Sequence variation SP - 689 EP - 697 JF - International journal of legal medicine JO - Int J Legal Med VL - 133 IS - 3 N2 - Capillary electrophoresis (CE) is widely used in forensic genetics to study short tandem repeats (STRs). Recently, next-generation sequencing (NGS) platforms have facilitated the development of new strategies for forensic DNA typing. Several studies have shown that NGS successfully analyzes challenging samples. However, because NGS is complicated and time-consuming, it remains unclear whether NGS platforms offer significant advantages over CE for all forensic cases. Here, the MiSeq FGx system was used to test some cases that had previously been analyzed using CE. These cases included paternity test cases in which some samples exhibited locus inconsistencies; samples with off-ladder (OL) alleles; samples with triallelic patterns; and samples with amelogenin test abnormalities. The results generated by MiSeq FGx were compared to those previously generated by CE. The MiSeq FGx and CE results were consistent with the exception of three samples, where inconsistencies were observed at the Penta D locus. For all three incongruent samples, the MiSeq FGx results were correct. Sequence analysis indicated that, in two cases, mismatches were due to undetected alleles rather than mutations. In two additional cases, mutation sources were identified, and in a fifth case, mutation step size was reconsidered. MiSeq FGx was used to identify OL alleles and samples with amelogenin test abnormalities. For cases where verification was required via CE analysis, the simultaneous NGS amplification of several types of multiple genetic markers improved testing efficiency. In addition, we identified additional sequence variants at autosomal, Y chromosomal, and X chromosomal STR loci in the Han Chinese population from northern China. Our results will be useful for future forensic analyses of STR genotypes in Chinese populations. It is likely that NGS would be more widely used in forensic genetics if costs and procedure complexity were reduced. SN - 1437-1596 UR - https://www.unboundmedicine.com/medline/citation/30604102/Evaluation_of_the_MiSeq_FGx_system_for_use_in_forensic_casework_ L2 - https://dx.doi.org/10.1007/s00414-018-01987-x DB - PRIME DP - Unbound Medicine ER -