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Fu J, Song B, Qian J, He T, Chen H, Cheng J, Fu J. Genetic Polymorphism Analysis of 24 Y-STRs in a Han Chinese Population in Luzhou, Southwest China. Genes (Basel) 2023; 14:1904. [PMID: 37895253 PMCID: PMC10606688 DOI: 10.3390/genes14101904] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2023] [Revised: 09/27/2023] [Accepted: 09/30/2023] [Indexed: 10/29/2023] Open
Abstract
Han is the largest of China's 56 ethnic groups and the most populous ethnic group in the world. The Luzhou region is located in southwest China, at the junction of three provinces. The unique historical factors contribute to the genetic polymorphism information. Short tandem repeats (STRs) are highly polymorphic, but the polymorphism of the Y chromosomal STRs (Y-STRs) loci in the Luzhou region is still unclear. It is of great significance to provide Y-STRs genetic data for the Han population from the Luzhou areas of southwest China. A total of 910 unrelated male individuals of the Han population from the Luzhou area were recruited, and 24 Y-STRs were analyzed. The population structure and phylogenetic relationships were compared with those of another 11 related Han populations. A total of 893 different haplotypes were achieved from 910 samples, of which 877 (98.21%) haplotypes were unique. Haplotype diversity and discrimination were 0.999956 and 0.981319, respectively. The lowest genetic diversity of DYS437 is 0.4321, and the highest genetic diversity of DYS385a/b is 0.9642. Pair-to-pair genetic distance and relative probability values indicate that Luzhou Han people are close to Sichuan Han people, Guangdong Han people, and Hunan Han people, which is consistent with geographical distribution, historical influence, and economic development. The 24 Y-STR markers of the southwest Luzhou Han population were highly polymorphic, which provided us with genetic polymorphism information and enriched the population genetic database. Therefore, it is of great value to our forensic applications and population genetics research.
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Affiliation(s)
- Jiewen Fu
- Key Laboratory of Epigenetics and Oncology, The Research Center for Preclinical Medicine, Southwest Medical University, Luzhou 646000, China; (J.F.); (B.S.); (J.Q.); (T.H.); (J.C.)
- School for Basic Medicine, Southwest Medical University, Luzhou 646000, China
- Laboratory of Forensic DNA, The Judicial Authentication Center, Southwest Medical University, Luzhou 646000, China
| | - Binghui Song
- Key Laboratory of Epigenetics and Oncology, The Research Center for Preclinical Medicine, Southwest Medical University, Luzhou 646000, China; (J.F.); (B.S.); (J.Q.); (T.H.); (J.C.)
- Laboratory of Forensic DNA, The Judicial Authentication Center, Southwest Medical University, Luzhou 646000, China
| | - Jie Qian
- Key Laboratory of Epigenetics and Oncology, The Research Center for Preclinical Medicine, Southwest Medical University, Luzhou 646000, China; (J.F.); (B.S.); (J.Q.); (T.H.); (J.C.)
| | - Ting He
- Key Laboratory of Epigenetics and Oncology, The Research Center for Preclinical Medicine, Southwest Medical University, Luzhou 646000, China; (J.F.); (B.S.); (J.Q.); (T.H.); (J.C.)
| | - Hanchun Chen
- Department of Biochemistry and Molecular Biology, School of Life Sciences, Central South University, Changsha 410013, China;
| | - Jingliang Cheng
- Key Laboratory of Epigenetics and Oncology, The Research Center for Preclinical Medicine, Southwest Medical University, Luzhou 646000, China; (J.F.); (B.S.); (J.Q.); (T.H.); (J.C.)
- Laboratory of Forensic DNA, The Judicial Authentication Center, Southwest Medical University, Luzhou 646000, China
| | - Junjiang Fu
- Key Laboratory of Epigenetics and Oncology, The Research Center for Preclinical Medicine, Southwest Medical University, Luzhou 646000, China; (J.F.); (B.S.); (J.Q.); (T.H.); (J.C.)
- Laboratory of Forensic DNA, The Judicial Authentication Center, Southwest Medical University, Luzhou 646000, China
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Fu J, Fu S, Yin S, Cheng J, Liu X, Jin Z, He T, Fu J. Technical note: multi-alleles at the DYS385ab locus with high frequency in a Han Chinese population from southwestern China. Int J Legal Med 2021; 135:1737-1741. [PMID: 33844081 DOI: 10.1007/s00414-021-02592-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2020] [Accepted: 03/26/2021] [Indexed: 10/21/2022]
Abstract
Y-chromosome short tandem repeat (Y-STR) markers have been widely used in forensic applications and usually show monoallelic or diallelic genotypic patterns at certain double-copied loci. In this study, we have found 13 samples among 703 males with multi-alleles at the DYS385ab locus, including one with five mutant alleles, nine with four, and three with three. The frequency of abnormal DYS385ab genotypes was 1.85% (13/703), which is very high in the Han Chinese population. The percentage of samples with diallelic patterns at DYS385ab was higher than that of monoallelic patterns (80.23% vs. 17.92%). Additionally, the percentage of samples with tetra-allelic patterns at DYS385ab was higher than that of tri-allelic patterns (1.28% vs. 0.43%), suggesting that there are possibly two copies with duplicated events happening frequently on the Y chromosome. Interestingly, the peak height of allele 13 was two to three-folds higher than that of other alleles. The allele 18 peak height was also two-fold higher than others, which could potentially be explained by a duplication event mechanism. We also found that tri-allelic genotypes for alleles 13, 17, and 20, tetra-allelic genotypes for alleles 13, 14, 19, and 20, and tetra-allelic genotypes for alleles 12, 13, 19 and 21 were more common than others. Furthermore, all 13 samples had multi-alleles containing allele 13, implying a founder effect in this particular Chinese-specific ethnic group. Taken together, this study provides new information for this population and will be useful for paternal lineage identification, kinship analysis, and family relationship reconstruction using Y-STR forensic DNA analysis methods.
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Affiliation(s)
- Jiewen Fu
- Laboratory of Forensic DNA, the Judicial Authentication Center, Southwest Medical University, Luzhou, 646000, Sichuan, China.,Key Laboratory of Epigenetics and Oncology, the Research Center for Preclinical Medicine, Southwest Medical University, Luzhou, 646000, Sichuan, China
| | - Shangyi Fu
- Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX, 77030, USA.,School of Medicine, Baylor College of Medicine, Houston, TX, 77030, USA
| | - Shiqiang Yin
- Judicial Authentication Institute, Luzhou Public Security Bureau, Luzhou, 646000, Sichuan, China
| | - Jingliang Cheng
- Laboratory of Forensic DNA, the Judicial Authentication Center, Southwest Medical University, Luzhou, 646000, Sichuan, China.,Key Laboratory of Epigenetics and Oncology, the Research Center for Preclinical Medicine, Southwest Medical University, Luzhou, 646000, Sichuan, China
| | - Xiaoyan Liu
- Key Laboratory of Epigenetics and Oncology, the Research Center for Preclinical Medicine, Southwest Medical University, Luzhou, 646000, Sichuan, China
| | - Zeming Jin
- West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu, 610041, China.
| | - Tao He
- Laboratory of Forensic DNA, the Judicial Authentication Center, Southwest Medical University, Luzhou, 646000, Sichuan, China. .,Key Laboratory of Epigenetics and Oncology, the Research Center for Preclinical Medicine, Southwest Medical University, Luzhou, 646000, Sichuan, China.
| | - Junjiang Fu
- Laboratory of Forensic DNA, the Judicial Authentication Center, Southwest Medical University, Luzhou, 646000, Sichuan, China. .,Key Laboratory of Epigenetics and Oncology, the Research Center for Preclinical Medicine, Southwest Medical University, Luzhou, 646000, Sichuan, China.
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3
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Chen WQ, Feng Z, Jin W, Zhang YJ, Wang Q, Li P, Li SL, Wei LH, Liu G. Genetic analysis of 17 Y-STR loci from 1026 individuals of Han populations in Jilin Province, Northeast China. Int J Legal Med 2018; 132:1309-1311. [DOI: 10.1007/s00414-018-1778-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2017] [Accepted: 01/09/2018] [Indexed: 11/28/2022]
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4
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Nothnagel M, Fan G, Guo F, He Y, Hou Y, Hu S, Huang J, Jiang X, Kim W, Kim K, Li C, Li H, Li L, Li S, Li Z, Liang W, Liu C, Lu D, Luo H, Nie S, Shi M, Sun H, Tang J, Wang L, Wang CC, Wang D, Wen SQ, Wu H, Wu W, Xing J, Yan J, Yan S, Yao H, Ye Y, Yun L, Zeng Z, Zha L, Zhang S, Zheng X, Willuweit S, Roewer L. Revisiting the male genetic landscape of China: a multi-center study of almost 38,000 Y-STR haplotypes. Hum Genet 2017; 136:485-497. [PMID: 28138773 DOI: 10.1007/s00439-017-1759-x] [Citation(s) in RCA: 54] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2016] [Accepted: 01/13/2017] [Indexed: 02/05/2023]
Abstract
China has repeatedly been the subject of genetic studies to elucidate its prehistoric and historic demography. While some studies reported a genetic distinction between Northern and Southern Han Chinese, others showed a more clinal picture of small differences within China. Here, we investigated the distribution of Y chromosome variation along administrative as well as ethnic divisions in the mainland territory of the People's Republic of China, including 28 administrative regions and 19 recognized Chinese nationalities, to assess the impact of recent demographic processes. To this end, we analyzed 37,994 Y chromosomal 17-marker haplotype profiles from the YHRD database with respect to forensic diversity measures and genetic distance between groups defined by administrative boundaries and ethnic origin. We observed high diversity throughout all Chinese provinces and ethnicities. Some ethnicities, including most prominently Kazakhs and Tibetans, showed significant genetic differentiation from the Han and other groups. However, differences between provinces were, except for those located on the Tibetan plateau, less pronounced. This discrepancy is explicable by the sizeable presence of Han speakers, who showed high genetic homogeneity all across China, in nearly all studied provinces. Furthermore, we observed a continuous genetic North-South gradient in the Han, confirming previous reports of a clinal distribution of Y chromosome variation and being in notable concordance with the previously observed spatial distribution of autosomal variation. Our findings shed light on the demographic changes in China accrued by a fast-growing and increasingly mobile population.
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Affiliation(s)
- Michael Nothnagel
- Department of Statistical Genetics and Bioinformatics, Cologne Center for Genomics (CCG), University of Cologne, Weyertal 115b, 50931, Cologne, Germany.
| | - Guangyao Fan
- Department of Public Security Technology, The Center for Forensic Science Research, Railway Police College, Zhengzhou, 450053, People's Republic of China
| | - Fei Guo
- Department of Forensic Medicine, National Police University of China, Shenyang, 110854, People's Republic of China
| | - Yongfeng He
- Department of Criminal Investigation, Shaanxi Provincial Public Security Bureau, Xi'an, 710016, People's Republic of China
| | - Yiping Hou
- Institute of Forensic Medicine, West China School of Basic Science and Forensic Medicine, Sichuan University, Chengdu, 610041, People's Republic of China
| | - Shengping Hu
- Molecular Biology and Forensic Genetics Laboratory, Shantou University Medical College, Shantou, People's Republic of China
| | - Jiang Huang
- Department of Forensic Medicine, Guizhou Medical University, Beijing Road, 9th, Guiyang, 550004, People's Republic of China
| | - Xianhua Jiang
- Liaoning Criminal and Science Technology Research Institute, Shenyang, 110032, People's Republic of China
| | - Wook Kim
- Department of Biological Sciences, Dankook University, Cheonan, 330-714, Republic of Korea
| | - Kicheol Kim
- Department of Neurology, University of California, San Francisco, San Francisco, CA, 94158, USA
| | - Chengtao Li
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Institute of Forensic Sciences, Ministry of Justice, P.R. China, Shanghai, 200063, People's Republic of China
| | - Hui Li
- MOE Key Laboratory of Contemporary Anthropology, School of Life Sciences, Fudan University, Shanghai, 200438, People's Republic of China
| | - Liming Li
- MOE Key Laboratory of Contemporary Anthropology, School of Life Sciences, Fudan University, Shanghai, 200438, People's Republic of China
| | - Shilin Li
- MOE Key Laboratory of Contemporary Anthropology, School of Life Sciences, Fudan University, Shanghai, 200438, People's Republic of China
| | - Zhao Li
- Department of Criminal Investigation, Hebei Provincial Public Security Bureau, Shijiazhuang City, 050000, People's Republic of China
| | - Weibo Liang
- Institute of Forensic Medicine, West China School of Basic Science and Forensic Medicine, Sichuan University, Chengdu, 610041, People's Republic of China
| | - Chao Liu
- Guangzhou Forensic Science Institute, Guangzhou, 510030, People's Republic of China
| | - Di Lu
- School of Forensic Medicine, Kunming Medical University, Kunming, 650500, People's Republic of China
| | - Haibo Luo
- Institute of Forensic Medicine, West China School of Basic Science and Forensic Medicine, Sichuan University, Chengdu, 610041, People's Republic of China
| | - Shengjie Nie
- School of Forensic Medicine, Kunming Medical University, Kunming, 650500, People's Republic of China
| | - Meisen Shi
- Center of Cooperative Innovation for Judicial Civilization, Institute of Evidence Law and Forensic Science, China University of Political Science and Law, Ministry of Education, Beijing, 100088, People's Republic of China
| | - Hongyu Sun
- Department of Forensic Medicine, Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, 510089, People's Republic of China
| | - Jianpin Tang
- Department of Forensic Medicine, Guangdong Medical University, Dongguan, 523808, People's Republic of China
| | - Lei Wang
- Department of Forensic Sciences, Police Station of Zhengzhou, Zhengzhou, Henan, 450008, People's Republic of China
| | - Chuan-Chao Wang
- Department of Archaeogenetics, Max Planck Institute for the Science of Human History, Jena, Germany
| | - Dan Wang
- Institute of Forensic Medicine and Laboratory Medicine, Jining Medical University, Jining, Shandong, People's Republic of China
| | - Shao-Qing Wen
- MOE Key Laboratory of Contemporary Anthropology, School of Life Sciences, Fudan University, Shanghai, 200438, People's Republic of China
| | - Hongyan Wu
- Xinxiang Medical University School of Basic Medical, Xinxiang, Henan, 453003, People's Republic of China
| | - Weiwei Wu
- Institute of Forensic Science, Zhejiang Provincial Public Security Bureau, Hangzhou, 310009, People's Republic of China
| | - Jiaxin Xing
- School of Forensic Medicine, China Medical University, Shenyang, People's Republic of China
| | - Jiangwei Yan
- Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, 100101, People's Republic of China
| | - Shi Yan
- MOE Key Laboratory of Contemporary Anthropology, School of Life Sciences, Fudan University, Shanghai, 200438, People's Republic of China
| | - Hongbing Yao
- Key Laboratory of Evidence Science of Gansu Province, Gansu Institute of Political Science and Law, Lanzhou, 730070, People's Republic of China
| | - Yi Ye
- Institute of Forensic Medicine, West China School of Basic Science and Forensic Medicine, Sichuan University, Chengdu, 610041, People's Republic of China
| | - Libing Yun
- Institute of Forensic Medicine, West China School of Basic Science and Forensic Medicine, Sichuan University, Chengdu, 610041, People's Republic of China
| | - Zhaoshu Zeng
- School of Basic Medical Sciences, Zhengzhou University, Zhengzhou, Henan, 450052, People's Republic of China
| | - Lagabaiyila Zha
- Forensic Science Department, School of Basic Medical Sciences, Central South University, Changsha, 410013, People's Republic of China
| | - Suhua Zhang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Institute of Forensic Sciences, Ministry of Justice, P.R. China, Shanghai, 200063, People's Republic of China
| | - Xiufen Zheng
- Department of Pathology, Department of Surgery, Department of Oncology, University of Western Ontario, Lawson Health Research Institute, London, Canada
| | - Sascha Willuweit
- Department of Forensic Genetics, Institute of Legal Medicine and Forensic Sciences, Charité-Universitätsmedizin Berlin, Berlin, Germany
| | - Lutz Roewer
- Department of Forensic Genetics, Institute of Legal Medicine and Forensic Sciences, Charité-Universitätsmedizin Berlin, Berlin, Germany
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Genetic polymorphisms of 17 Y-chromosomal STRs in the Chengdu Han population of China. Int J Legal Med 2016; 131:967-968. [PMID: 27942858 DOI: 10.1007/s00414-016-1511-4] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2016] [Accepted: 12/01/2016] [Indexed: 10/20/2022]
Abstract
Chengdu is located at the center of Sichuan Province in southwestern China, and its primary demographic group is the Han population. The aim of this study was to contribute data detailing 17 Y-short tandem repeat (Y-STR) loci from 3291 Chengdu Han male samples analyzed with the AmpFLSTR® Yfiler® PCR Amplification Kit. We observed 2228 different haplotypes, and haplotype diversity (HD) was 0.9992. Gene diversity (GD) values for the 17 Y-STR loci of the Chengdu Han population ranged from 0.4156 to 0.9529. Haplotype match probability (HMC) was 0.0011. Compared with 13 reference populations of six provinces surrounding Chengdu, we observed that the Chengdu Han population was significantly different from each of these populations.
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6
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Zhou H, Ren Z, Zhang H, Wang J, Huang J. Genetic profile of 17 Y chromosome STRs in the Guizhou Han population of southwestern China. Forensic Sci Int Genet 2016; 25:e6-e7. [DOI: 10.1016/j.fsigen.2016.05.010] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2015] [Revised: 05/14/2016] [Accepted: 05/14/2016] [Indexed: 10/21/2022]
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7
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Analysis of Y-chromosome short tandem repeat loci on 1082 Nantong Han individuals in eastern China. Forensic Sci Int Genet 2016; 23:e18-e19. [DOI: 10.1016/j.fsigen.2016.04.011] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2015] [Revised: 04/21/2016] [Accepted: 04/26/2016] [Indexed: 11/17/2022]
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8
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Nishi T, Nakamura T, Honda K. Detection of a novel X-chromosomal short tandem repeat marker in Xq28 in four ethnic groups. Leg Med (Tokyo) 2016; 19:43-6. [PMID: 26980253 DOI: 10.1016/j.legalmed.2016.01.010] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2015] [Revised: 12/28/2015] [Accepted: 01/27/2016] [Indexed: 12/17/2022]
Abstract
DNA testing of X-chromosomal short tandem repeat (X-STR) polymorphisms has been the focus of attention in several studies, mainly due to its applicability in the investigation of complex kinship cases. Studies of X-STR in analyses of DNA sequences, population studies and DNA testing applications have been reported. We performed detection and population genetic study of a novel tetranucleotide X-STR locus in the present study. We identified a unique X-STR locus consisting of two tetranucleotides in Xq28. Although the STR is a simple tetranucleotide, its polymorphism was comparatively high [polymorphism information content (PIC)=0.7140] in Japanese subjects. In addition, the STR varied in structure among ethnic groups. We conclude that this locus will be useful for forensic DNA testing and anthropological studies.
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Affiliation(s)
- Takeki Nishi
- Department of Forensic Medicine, The Jikei University School of Medicine, 3-25-8 Nishi-shinbashi, Minato-ku, 105-8461 Tokyo, Japan.
| | - Takako Nakamura
- Department of Legal Medicine, Faculty of Medicine, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8575, Japan
| | - Katuya Honda
- Department of Legal Medicine, Faculty of Medicine, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8575, Japan
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Genetic analysis of 17 Y-STR loci in Han population from Shandong Province in East China. Forensic Sci Int Genet 2016; 22:e15-e17. [PMID: 26857891 DOI: 10.1016/j.fsigen.2016.01.016] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2015] [Revised: 01/17/2016] [Accepted: 01/24/2016] [Indexed: 11/23/2022]
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10
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Bai R, Liu Y, Lv X, Shi M, Ma S. Genetic polymorphisms of 17 Y chromosomal STRs in She and Manchu ethnic populations from China. Forensic Sci Int Genet 2016; 22:e12-e14. [PMID: 26896052 DOI: 10.1016/j.fsigen.2016.01.011] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2015] [Accepted: 01/16/2016] [Indexed: 10/22/2022]
Abstract
To evaluate the utility of Yfiler haplotype for DNA testing in two ethnic populations of China, a sample of 413 unrelated individuals (152 Shes and 261 Manchus) was determined. In the She and Manchu populations, the haplotype diversity was 0.9990 and 0.9988, respectively, and the discrimination capacity was 0.9474 and 0.9080, respectively. Research results will be valuable for human identification and paternity tests in the two minority regions and for Chinese population genetic study in the future.
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Affiliation(s)
- Rufeng Bai
- Key Laboratory of Evidence Science (China University of Political Science and Law), Ministry of Education, Beijing 100088, PR China; Collaborative Innovation Center of Judicial Civilization, PR China; Department of Radiology, First Affiliated Hospital, Medical College of Shantou University, Shantou 515041, PR China
| | - Yaju Liu
- Xuchang Institute of Forensic Sciences, Public Security Bureau of Henan Province, Xuchang 461000, PR China
| | - Xiaojiao Lv
- Key Laboratory of Evidence Science (China University of Political Science and Law), Ministry of Education, Beijing 100088, PR China
| | - Meisen Shi
- Key Laboratory of Evidence Science (China University of Political Science and Law), Ministry of Education, Beijing 100088, PR China; Collaborative Innovation Center of Judicial Civilization, PR China.
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Han Y, Li L, Liu X, Chen W, Yang S, Wei L, Xia M, Ma T, Jin L, Li S. Genetic analysis of 17 Y-STR loci in Han and Korean populations from Jilin Province, Northeast China. Forensic Sci Int Genet 2016; 22:8-10. [PMID: 26799315 DOI: 10.1016/j.fsigen.2016.01.003] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2015] [Revised: 12/10/2015] [Accepted: 01/06/2016] [Indexed: 11/26/2022]
Abstract
In this study, 17 Y chromosomal short tandem repeats (Y-STRs) were analyzed in 302 male individuals from the Chinese Han and Korean populations of Jilin Province. The haplotype diversities of two populations reached 0.99969 and 0.99874, respectively. The Jilin Han and Korean populations differed from each other significantly. The Jilin Han population showed no significant difference from almost any other Han population, but it did show significant differences from most other Chinese ethnic populations. The haplotype frequencies in the Jilin Korean population studied here showed significant differences from all reference populations in earlier reports. These data provide a reference for the Y-STR database in Jilin Province, and they may be valuable for population genetic analysis.
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Affiliation(s)
- Yinan Han
- Department of ophthalmology, Eye and Ent hospital of Fudan University, Shanghai, China; Ministry of Education Key Laboratory of Contemporary Anthropology and State Key Laboratory of Genetic Engineering, Collaborative Innovation Center for Genetics and Development, School of Life Sciences, Fudan University, Shanghai, China
| | - Liming Li
- Ministry of Education Key Laboratory of Contemporary Anthropology and State Key Laboratory of Genetic Engineering, Collaborative Innovation Center for Genetics and Development, School of Life Sciences, Fudan University, Shanghai, China
| | - Xiaoyang Liu
- China-Japan Union Hospital, School of Pharmaceutical Sciences, Jilin University, Changchun, China
| | - Wenqing Chen
- Jilin Province Cancer Hospital, Changchun, China
| | - Shuping Yang
- Ministry of Education Key Laboratory of Contemporary Anthropology and State Key Laboratory of Genetic Engineering, Collaborative Innovation Center for Genetics and Development, School of Life Sciences, Fudan University, Shanghai, China
| | - Lanhai Wei
- Ministry of Education Key Laboratory of Contemporary Anthropology and State Key Laboratory of Genetic Engineering, Collaborative Innovation Center for Genetics and Development, School of Life Sciences, Fudan University, Shanghai, China
| | - Mingying Xia
- Ministry of Education Key Laboratory of Contemporary Anthropology and State Key Laboratory of Genetic Engineering, Collaborative Innovation Center for Genetics and Development, School of Life Sciences, Fudan University, Shanghai, China
| | - Teng Ma
- Ministry of Education Key Laboratory of Contemporary Anthropology and State Key Laboratory of Genetic Engineering, Collaborative Innovation Center for Genetics and Development, School of Life Sciences, Fudan University, Shanghai, China
| | - Li Jin
- Ministry of Education Key Laboratory of Contemporary Anthropology and State Key Laboratory of Genetic Engineering, Collaborative Innovation Center for Genetics and Development, School of Life Sciences, Fudan University, Shanghai, China.
| | - Shilin Li
- Ministry of Education Key Laboratory of Contemporary Anthropology and State Key Laboratory of Genetic Engineering, Collaborative Innovation Center for Genetics and Development, School of Life Sciences, Fudan University, Shanghai, China.
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Li L, Yu G, Li S, Jin L, Yan S. Genetic analysis of 17 Y-STR loci from 1019 individuals of six Han populations in East China. Forensic Sci Int Genet 2016; 20:101-102. [DOI: 10.1016/j.fsigen.2015.10.007] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2015] [Revised: 10/15/2015] [Accepted: 10/16/2015] [Indexed: 11/24/2022]
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13
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Alexandre J, Huang Q, Marques S, Lopez-Parra A, Arroyo-Pardo E, Amorim A, Alvarez L, Prata M. Enriching the knowledge on East Asia populations: Characterization of male lineages from Macau and Shanghai. FORENSIC SCIENCE INTERNATIONAL GENETICS SUPPLEMENT SERIES 2015. [DOI: 10.1016/j.fsigss.2015.09.128] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Shu L, Li L, Yu G, Yu B, Liu Y, Li S, Jin L, Yan S. Genetic analysis of 17 Y-STR loci in Han, Dong, Miao and Tujia populations from Hunan province, central-southern China. Forensic Sci Int Genet 2015; 19:250-251. [DOI: 10.1016/j.fsigen.2015.07.007] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2015] [Revised: 06/24/2015] [Accepted: 07/11/2015] [Indexed: 11/15/2022]
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15
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Population data of 17 Y-STR haplotypes in Jining Han population from Shandong province, East China. Forensic Sci Int Genet 2015; 19:47-49. [DOI: 10.1016/j.fsigen.2015.05.017] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2015] [Revised: 05/25/2015] [Accepted: 05/28/2015] [Indexed: 11/17/2022]
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16
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Li L, Ma T, Xu J, Yang Y, Yang S, Xia M, Sun H, Zhao X, Ping Y, Zhou H, Xie J, Zhao Z, Jin L, Li S. Genetic analysis of 17 Y-STR loci in Han population from Gansu province, northwestern China. Forensic Sci Int Genet 2015. [DOI: 10.1016/j.fsigen.2015.07.008] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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17
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Wang Y, Liu C, Zhang CC, Li R, LI Y, Ou XL, Sun HY. Analysis of 17 Y-STR loci haplotype and Y-chromosome haplogroup distribution in five Chinese ethnic groups. Electrophoresis 2015; 36:2546-52. [DOI: 10.1002/elps.201500089] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2015] [Revised: 06/12/2015] [Accepted: 06/12/2015] [Indexed: 01/08/2023]
Affiliation(s)
- Ying Wang
- Department of Forensic Medicine, Zhongshan School of Medicine; Sun Yat-sen University; Guangzhou P. R. China
| | - Chao Liu
- Guangdong Provincial Key Laboratory of Forensic Genetics; Guangzhou P. R. China
- Guangzhou Institute of Criminal Science and Technology; Guangzhou P. R. China
| | - Chu-chu Zhang
- Department of Forensic Medicine, Zhongshan School of Medicine; Sun Yat-sen University; Guangzhou P. R. China
| | - Ran Li
- Department of Forensic Medicine, Zhongshan School of Medicine; Sun Yat-sen University; Guangzhou P. R. China
| | - Yue LI
- Guangdong Provincial Key Laboratory of Forensic Genetics; Guangzhou P. R. China
- Guangzhou Institute of Criminal Science and Technology; Guangzhou P. R. China
| | - Xue-ling Ou
- Department of Forensic Medicine, Zhongshan School of Medicine; Sun Yat-sen University; Guangzhou P. R. China
| | - Hong-yu Sun
- Department of Forensic Medicine, Zhongshan School of Medicine; Sun Yat-sen University; Guangzhou P. R. China
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18
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Guo F. Population genetics for 17 Y-STR loci in Mongolian ethnic minority from Liaoning Province, Northeast China. Forensic Sci Int Genet 2015; 17:153-154. [DOI: 10.1016/j.fsigen.2015.05.008] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2015] [Revised: 05/03/2015] [Accepted: 05/09/2015] [Indexed: 11/28/2022]
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Analysis of 24 Y chromosomal STR haplotypes in a Chinese Han population sample from Henan Province, Central China. Forensic Sci Int Genet 2015; 17:83-86. [PMID: 25864156 DOI: 10.1016/j.fsigen.2015.04.001] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2014] [Revised: 03/29/2015] [Accepted: 04/03/2015] [Indexed: 11/23/2022]
Abstract
We analyzed haplotypes for 24 Y chromosomal STRs (Y-STRs), including 17 Yfiler loci (DYS19, DYS385a/b, DYS389I/II, DYS390, DYS391, DYS392, DYS393, DYS437, DY438, DYS439, DYS448, DYS456, DYS458, DYS635 and Y-GATA-H4) and 7 additional STRs (DYS388, DYS444, DYS447, DYS449, DYS522 and DYS527a/b) in 1100 unrelated Chinese Han individuals from Henan Province using AGCU Y24 STR kit systems. The calculated average gene diversity (GD) values ranged from 0.4105 to 0.9647 for the DYS388 and DYS385a/b loci, respectively. The discriminatory capacity (DC) was 72.91% with 802 observed haplotypes using 17 Yfiler loci, by the addition of 7 Y-STRs to the Yfiler system, the DC was increased to 79.09% while showing 870 observed haplotypes. Among the additional 7 Y-STRs, DYS449, DYS527a/b, DYS444 and DYS522 were major contributors to enhancing discrimination. In the analysis of molecular variance, the Henan Han population clustered with Han origin populations and showed significant differences from other Non-Han populations. In the present study, we report 24 Y-STR population data in Henan Han population, and we emphasize the need for adding additional markers to the commonly used 17 Yfiler loci to achieve more improved discriminatory capacity in a population with low genetic diversity.
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Liu Y, Liao L, Gu M, Ye Y. Population genetics for 17 Y-STR loci in a Chinese Han population sample from Mudanjiang city, Northeast China. Forensic Sci Int Genet 2014; 13:e16-7. [DOI: 10.1016/j.fsigen.2014.05.009] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2014] [Revised: 05/19/2014] [Accepted: 05/20/2014] [Indexed: 11/16/2022]
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21
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Preliminary assessment of the prototype Yfiler® Plus kit in a population study of Northern Italian males. Int J Legal Med 2014; 129:729-30. [DOI: 10.1007/s00414-014-1078-x] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2014] [Accepted: 08/28/2014] [Indexed: 10/24/2022]
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22
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Sun HB, Yang X, Ha F, Zhang ZL. Genetic polymorphism of 17 Y-STR loci in Han Chinese living in Lanzhou. ACTA ACUST UNITED AC 2013; 33:902-904. [DOI: 10.1007/s11596-013-1219-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2013] [Revised: 10/25/2013] [Indexed: 10/25/2022]
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23
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Brenner CH. Understanding Y haplotype matching probability. Forensic Sci Int Genet 2013; 8:233-43. [PMID: 24315614 DOI: 10.1016/j.fsigen.2013.10.007] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2013] [Revised: 10/06/2013] [Accepted: 10/19/2013] [Indexed: 11/28/2022]
Abstract
The Y haplotype population-genetic terrain is better explored from a fresh perspective rather than by analogy with the more familiar autosomal ideas. For haplotype matching probabilities, versus for autosomal matching probabilities, explicit attention to modelling - such as how evolution got us where we are - is much more important while consideration of population frequency is much less so. This paper explores, extends, and explains some of the concepts of "Fundamental problem of forensic mathematics - the evidential strength of a rare haplotype match". That earlier paper presented and validated a "kappa method" formula for the evidential strength when a suspect matches a previously unseen haplotype (such as a Y-haplotype) at the crime scene. Mathematical implications of the kappa method are intuitive and reasonable. Suspicions to the contrary raised in rest on elementary errors. Critical to deriving the kappa method or any sensible evidential calculation is understanding that thinking about haplotype population frequency is a red herring; the pivotal question is one of matching probability. But confusion between the two is unfortunately institutionalized in much of the forensic world. Examples make clear why (matching) probability is not (population) frequency and why uncertainty intervals on matching probabilities are merely confused thinking. Forensic matching calculations should be based on a model, on stipulated premises. The model inevitably only approximates reality, and any error in the results comes only from error in the model, the inexactness of the approximation. Sampling variation does not measure that inexactness and hence is not helpful in explaining evidence and is in fact an impediment. Alternative haplotype matching probability approaches that various authors have considered are reviewed. Some are based on no model and cannot be taken seriously. For the others, some evaluation of the models is discussed. Recent evidence supports the adequacy of the simple exchangability model on which the kappa method rests. However, to make progress toward forensic calculation of Y haplotype mixture evidence a different tack is needed. The "Laplace distribution" model of Andersen et al. [3] which estimates haplotype frequencies by identifying haplotype clusters in population data looks useful.
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Affiliation(s)
- Charles H Brenner
- Human Rights Center, U.C. Berkeley, Berkeley, CA, United States; DNA·VIEW, 6801 Thornhill Drive, Oakland, CA 94611-1336, United States.
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