Genetic polymorphism and mutation analysis of 81 autosomal STR loci in the Northern Han Chinese population
Received date: 2025-08-13
Revised date: 2025-10-28
Online published: 2025-11-14
Supported by
Research and Innovation Project of China University of Political Science and Law(24KYGH017);Fundamental Research Funds for the Central Universities;Opening Project of Guangdong Provincial Forensic Science of Evidence Materials (Nantian) Engineering Technology Research Center(ETRC202401)
Examining a greater number of short tandem repeats (STRs) is essential for cases involving mutations, consanguinity, and complex kinship testing. However, previous population studies were mostly limited to fewer than 40 STRs. Therefore, this study investigated the genetic polymorphism, linkage disequilibrium, and mutation rates of 81 autosomal STR loci in the Han Chinese population of northern China. We confirmed the core repeat structure of STR loci, and focused on evaluating the forensic application value of the Category C and 21 additional STR loci not included in the standard “Forensic science-Data structures of selected loci from the DNA database” (GB/T 41009-2021). Blood samples from 400 unrelated healthy Northern Han Chinese individuals and parent-child blood samples from 157 families were detected using GSTAR TM25, GSTAR TM31FS, and GSTAR TM29HS kits. Genetic analysis was performed on genotyping data of 81 autosomal STR loci. The core sequence structures of newly added 15 STR loci were confirmed by sequencing the allelic ladder. After applying Bonferroni correction, all 81 autosomal STR loci conformed to Hardy-Weinberg equilibrium. The observed heterozygosity ranged from 0.4375 to 0.9075, discrimination power from 0.6332 to 0.9845 (lowest at LPL), polymorphism information content from 0.3938 to 0.9092, probability of exclusion for trios from 0.1384 to 0.8108, and for duos from 0.0955 to 0.7069. Significantly, linkage disequilibrium was observed between D5S2500 and D5S2800 loci. When excluding the D5S2800 locus, the cumulative discrimination power (CDP) of remaining 80 autosomal STR loci was 1-2.293×10-89, cumulative probability of exclusion (CPE) of trios was 1-5.074×10-31, and cumulative exclusion probability of duos was 1-1.400×10-19. A total of 13 mutations were observed across 508 meiotic events in 157 families at 10 STR loci. The mutation rates for D5S818, D11S2368 and D18S51 were 0.004, while those of D6S1043, D7S1517, D11S4463, D13S325, D14S1434, D20S482 and D20S85 were 0.002. In conclusion, the 81 genetic loci, including Category C and newly added STRs, exhibit good or moderate polymorphism and are suitable for individual identification, paternity testing, and kinship identification. Given the linkage disequilibrium between the D5S2500 and D5S2800, if simultaneous on the capillary electrophoresis platform, it is recommended to use only the test results from the D5S2500 locus for statistical analysis. This data generated provide allele frequency and mutation rate for a large number of STRs, along with the clarified core sequences, thus offering an important data foundation for DNA evidence evaluation.
Key words: forensic genetics; short tandem repeat; genetic polymorphism; Northern Han
Hang He, Jinpei Zhang, Chuchu Zhang, Chengtao Jiang, Weiwei Shui, Shicheng Hao, Yiwen Lai, Lei Miao, Qiujuan Wang, Xiaoseng Guo, Li Yuan . Genetic polymorphism and mutation analysis of 81 autosomal STR loci in the Northern Han Chinese population[J]. Hereditas(Beijing), 2026 , 48(5) : 483 -505 . DOI: 10.16288/j.yczz.25-172
| [1] | Hammond HA, Jin L, Zhong Y, Caskey CT, Chakraborty R. Evaluation of 13 short tandem repeat loci for use in personal identification applications. Am J Hum Genet, 1994, 55(1): 175-189. |
| [2] | Edwards A, Hammond HA, Jin L, Caskey CT, Chakraborty R. Genetic variation at five trimeric and tetrameric tandem repeat loci in four human population groups. Genomics, 1992, 12(2): 241-253. |
| [3] | Zhang SH, Niu Y, Bian YN, Dong RX, Liu XL, Bao Y, Jin C, Zheng HC, Li CT. Sequence investigation of 34 forensic autosomal STRs with massively parallel sequencing. Sci Rep, 2018, 8(1): 6810. |
| [4] | Gouy A, Zieger M. STRAF 2: new features and improvements of the STR population data analysis software. Forensic Sci Int Genet, 2025, 76: 103207. |
| [5] | Excoffier L, Lischer HEL. Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol Ecol Resour, 2010, 10(3): 564-567. |
| [6] | Lincoln PJ. DNA recommendations--further report of the DNA commission of the ISFH regarding the use of short tandem repeat systems. Forensic Sci Int, 1997, 87(3): 181-184. |
| [7] | Wang HD, Kang B, Su N, He M, Zhang B, Guo YX, Zhu BF, Liao SX, Zeng ZS. Evaluation of the genetic parameters and mutation analysis of 22 STR loci in the central Chinese Han population. Int J Legal Med, 2017, 131(1): 103-105. |
| [8] | Filoglu G, Bulbul O, Rayimoglu G, Yediay FE, Zorlu T, Ongoren S, Altuncul H. Evaluation of reliability on STR typing at leukemic patients used for forensic purposes. Mol Biol Rep, 2014, 41(6): 3961-3972. |
| [9] | 黄玥蕾, 谢波, 陈海英, 唐金晶. 江西赣州地区汉族人群19个STR基因座遗传多态性. 中国法医学杂志, 2015, 30(3): 293-294. |
| [10] | Schmid D, Anslinger K, Rolf B. Allele frequencies of the ACTBP2 (=SE33), D18S51, D8S1132, D12S391, D2S1360, D3S1744, D5S2500, D7S1517, D10S2325 and D21S2055 loci in a German population sample. Forensic Sci Int, 2005, 151(2-3): 303-305. |
| [11] | Ozeki M, Tamaki K. Allele frequencies of 37 short tandem repeat loci in a Japanese population. Leg Med (Tokyo), 2013, 15(6): 342-346. |
| [12] | Červenák Z, Mikula M, Červenák F, Choma A, Masnicová S. Population and forensic analysis of 9 non-CODIS markers in Slovak population. Leg Med (Tokyo), 2021, 53: 101953. |
| [13] | 张勇, 丁梅, 王保捷, 庞灏, 刘清利, 孙志刚. 中国汉族、维吾尔族、哈萨克族D3S1744、D18S849基因座的遗传多态性. 中国法医学杂志, 2004, 19(1): 46-47. |
| [14] | Chung U, Shin KJ, Park MJ, Kim NY, Yang WI, Cho SH, Lee HY. Population data of nine miniSTR loci in Koreans. Forensic Sci Int, 2007, 168(2-3): e51-e53. |
| [15] | Liu QL, Huang KK, Wu YD, Zhao H, Li CT, Lu DJ. Genetic polymorphism of 13 non-CODIS STR loci in three national populations from China. Electrophoresis, 2014, 35(23): 3395-3401. |
| [16] | Wiegand P, Klintschar M. Population genetic data, comparison of the repeat structure and mutation events of two short STRs. Int J Legal Med, 2002, 116(5): 258-261. |
| [17] | Kitayama T, Kiesler KM, Fukagawa T, Watahiki H, Mita Y, Fujii K, Sekiguchi K, Vallone PM, Mizuno N. Massively parallel sequencing data of 31 autosomal STR loci obtained using the Precision ID GlobalFiler NGS STR Panel v2 for 82 Japanese population samples. Leg Med (Tokyo), 2022, 58: 102082. |
| [18] | Iyavoo S, Afolabi O, Boggi B, Bernotaite A, Haizel T. Population genetics data for 22 autosomal STR loci in European, South Asian and African populations using SureID® 23comp Human DNA Identification Kit. Forensic Sci Int, 2019, 301: 174-181. |
| [19] | Abrahams Z, D'Amato ME, Davison S, Benjeddou M. Allele frequencies of six non-CODIS miniSTR loci (D1S1627, D3S4529, D5S2500, D6S1017, D8S1115 and D9S2157) in three South African populations. Forensic Sci Int Genet, 2011, 5(4): 354-355. |
| [20] | Jin HJ, Kim KC, Yoon CE, Kim W. Forensic and population genetic analyses of eighteen non-CODIS miniSTR loci in the Korean population. J Forensic Leg Med, 2013, 20(8): 1093-1097. |
| [21] | Shi YF, Li XZ, Ju D, Li Y, Zhang XL, Zhang Y. Genetic polymorphisms of short tandem repeat loci D13S305, D13S631 and D13S 634 in the Han population of Tianjin, China. Exp Ther Med, 2015, 10(2): 773-777. |
| [22] | Wu J, Li YB, Hou YP, Zhang J, Yan J, Liao M, Lin JD, He Y. Polymorphisms of seven short tandem repeat loci: D1S2142, D1S3733, D2S1774, D3S2459, D21S1409, D21S1437 and D21S2055 of Chinese Han population in Chengdu. Chin J Med Genet, 2006, 23(2): 230-233. |
| 吴谨, 李英碧, 侯一平, 张霁, 颜静, 廖淼, 林金东, 何艳. 成都汉族群体七个短串联重复序列基因座的遗传多态性和法医学应用研究. 中华医学遗传学杂志, 2006, 23(2): 230-233. | |
| [23] | He P, Nata M, Kanetake J, Ji G, Yan W, Li X, Sagisaka K. Polymorphism of short tandem repeat (STR) loci PLA2, D3S2459, D8S 315 (kw38), CYP19, D3S1359, FGA, and D8S1132 in the Japanese and Chinese populations. Tohoku J Exp Med, 1997, 183(4): 251-262. |
| [24] | Ohtaki H, Yamamoto T, Yoshimoto T, Uchihi R, Ooshima C, Katsumata Y, Tokunaga K. A powerful, novel, multiplex typing system for six short tandem repeat loci and the allele frequency distributions in two Japanese regional populations. Electrophoresis, 2002, 23(19): 3332-3340. |
| [25] | 龙兵, 张德明, 王晶, 陈国第. 中国汉族、回族和泰国人群D12S1064、GATA158G03遗传多态性. 中国法医学杂志, 2009, 24(5): 328-329. |
| [26] | Wang W, Okazaki K, Kishida T, Fukuda M, Tamaki Y. Subtyping of D20S85 STR alleles by single-strand conformation polymorphism (SSCP) analysis. Forensic Sci Int, 1997, 86(3): 187-192. |
| [27] | Lu HL, Zhang W. Study on genetic polymorphisms of STR locus D20S 85 in five Chinese populations and forensic application. Chin J Forensic Med, 2002, 17(5): 259-262. |
| 陆惠玲, 张炜. 中国5个群体D20S85基因座的遗传多态性. 中国法医学杂志, 2002, 17(5): 259-262. | |
| [28] | Miao L, Kang KL, Zhang C, Liu S, Jiao RL, Yuan L, Wang L. Sequence features of forensic core short tandem repeat loci. Hereditas(Beijing), 2025, 47(11): 1214-1230. |
| 缪磊, 康克莱, 张驰, 刘爽, 焦瑞莲, 袁丽, 王乐. 法庭科学核心STR基因座的序列特征. 遗传, 2025, 47(11): 1214-1230. | |
| [29] | Gill P, Urquhart A, Millican E, Oldroyd N, Watson S, Sparkes R, Kimpton CP. A new method of STR interpretation using inferential logic—development of a criminal intelligence database. Int J Legal Med, 1996, 109(1): 14-22. |
| [30] | Zhang XF, Liu LL, Xie RF, Wang GY, Shi Y, Gu T, Hu LP, Nie SJ. Population data and mutation rates of 20 autosomal STR loci in a Chinese Han population from Yunnan Province, Southwest China. Int J Legal Med, 2018, 132(4): 1083-1085. |
| [31] | 黄健, 吴华, 汤美云, 蔡金洪. vWA和D12S391基因座在亲缘关系个体中的连锁分析. 中国法医学杂志, 2015, 30(2): 180-181. |
| [32] | Liu QL, Chen YF, Huang XL, Liu KY, Zhao H, Lu DJ. Population data and mutation rates of 19 STR loci in seven provinces from China based on Goldeneye™ DNA ID System 20A. Int J Legal Med, 2017, 131(3): 653-656. |
| [33] | Zhang BL, Li Z, Li K, Chen P, Chen F. Forensic parameters and mutation analysis of 23 short tandem repeat (PowerPlex® Fusion System) loci in Fujian Han Chinese population. Leg Med (Tokyo), 2019, 37: 33-36. |
| [34] | Su LJ, Wang YX, Shan X, Qiu Y, Xi SH, Hu RP. Observation and analysis of gene mutations in 306 parentage testing cases. Genomics and Applied Biology, 2019, 38(8): 3511-3514. |
| 苏丽娟, 王忆霄, 单鑫, 邱阳, 席世涵, 扈瑞平. 306例亲子鉴定案件基因突变的观察与分析. 基因组学与应用生物学, 2019, 38(8): 3511-3514. |
/
| 〈 |
|
〉 |