Genotyping of 90 autosomal SNPs based on next generation sequencing
10.13618/j.issn.1001-5728.2016.06.006
- VernacularTitle:基于二代测序平台的90个常染色体SNP分型研究
- Author:
Haiyan LI
;
Chuchu ZHANG
;
Zhenya TANG
;
Ran LI
;
Hongying CHEN
;
Dayue TONG
;
Hongyu SUN
- Keywords:
forensic biological evidence;
parentage testing;
personal identiifcation;
next generation sequencing;
single nucleotide polymorphism
- From:
Chinese Journal of Forensic Medicine
2016;31(6):557-562
- CountryChina
- Language:Chinese
-
Abstract:
Objective To investigate the genetic polymorphism of 90 autosomal SNPs in Guangdong Han population and assess their value in forensic medicine based on next generation sequencing. Methods Blood samples were collected from 100 unrelated individuals. Through using AutoMate ExpressTM Nucleic Acid Extraction System, DNA was extracted. HID-Ion AmpliSeq? Identity Panel was applied for library preparation while Ion OneTouch? 2 system (OT2) was employed for emulsion PCR (emPCR). NGS was performed on the Ion PGM? system. Sequencing results were analysed using the Torrent Suite v4.4.2 with the HID_SNP_Genotyper v4.3.1 plugin. The forensic parameters were calculated and compared with GoldeneyeTM 20A systems. Results According to the Bonferroni correction, the genotypes of 90 autosomal SNPs were in accordance with Hardy-Weinberg equilibrium and no linkage disequilibrium was observed. The average Ho of 90 autosomal SNPs was 0.423, the average DP was 0.560 and the average PIC was 0.329. The CDP (cumulative power of discrimination) of 90 autosomal SNPs system was 1-1.20×10-33, which was greater than that of 20A System. The CPEtri (cumulative excluding probability of trio paternity) was 0.999 999 911 and the CPEduo (cumulative excluding probability of duo paternity) was 0.999 882. Both of these two parameters were below that of 20A System. Conclusion It suggested that the 90 autosomal SNPs System can be applied to forensic individual discrimination and trio paternity testing independently. Besides, it is supposed to be used in the duo paternity testing as an assistant measure.
