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Liu YS, Chen JG, Mei T, Guo YX, Meng HT, Li JF, Wei YY, Jin XY, Zhu BF, Zhang LP. Genetic variation and forensic characteristic analysis of 25 STRs of a novel fluorescence co-amplification system in Chinese Southern Shaanxi Han population. Oncotarget 2017; 8:55443-55452. [PMID: 28903432 PMCID: PMC5589671 DOI: 10.18632/oncotarget.19317] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2017] [Accepted: 06/05/2017] [Indexed: 11/25/2022] Open
Abstract
We analyzed the genetic polymorphisms of 15 autosomal and 10 Y-chromosomal STR loci in 214 individuals of Han population from Southern Shaanxi of China and studied the genetic relationships between Southern Shaanxi Han and other populations. We observed a total of 150 alleles at 15 autosomal STR loci with the corresponding allelic frequencies ranging from 0.0023 to 0.5210, and the combined power of discrimination and exclusion for the 15 autosomal STR loci were 0.99999999999999998866 and 0.999998491, respectively. For the 10 Y-STR loci, totally 100 different haplotypes were obtained, of which 94 were unique. The discriminatory capacity and haplotype diversity values of the 10 Y-STR loci were 0.9259 and 0.998269, respectively. The results demonstrated high genetic diversities of the 25 STR loci in the population for forensic applications. We constructed neighbor-joining tree and conducted principal component analysis based on 15 autosomal STR loci and conducted multidimensional scaling analysis and constructed neighbor-joining tree based on 10 Y-STR loci. The results of population genetic analyses based on both autosomal and Y-chromosome STRs indicated that the studied Southern Shaanxi Han population had relatively closer genetic relationship with Eastern Han population, and distant relationships with Croatian, Serbian and Moroccan populations.
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Affiliation(s)
- Yao-Shun Liu
- Department of Biochemistry and Molecular Biology, Basic Medicine College of Xinjiang Medical University, Urumqi, Xinjiang 830011, P. R. China.,Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Department of Forensic Genetics, School of Forensic Medicine, Southern Medical University, Guangzhou, Guangdong 510515, P. R. China
| | - Jian-Gang Chen
- Department of Biochemistry and Molecular Biology, Basic Medicine College of Xinjiang Medical University, Urumqi, Xinjiang 830011, P. R. China.,Science and Technology Institute, Xinjiang Public Security Department, Urumqi, Xinjiang 830006, P.R. China
| | - Ting Mei
- Department of Biochemistry and Molecular Biology, Basic Medicine College of Xinjiang Medical University, Urumqi, Xinjiang 830011, P. R. China.,Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China
| | - Yu-Xin Guo
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China
| | - Hao-Tian Meng
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China
| | - Jian-Fei Li
- School of Marxism, Xi'an Jiaotong University, Xi'an, Shaanxi 710049, P.R. China
| | - Yuan-Yuan Wei
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China
| | - Xiao-Ye Jin
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China
| | - Bo-Feng Zhu
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Department of Forensic Genetics, School of Forensic Medicine, Southern Medical University, Guangzhou, Guangdong 510515, P. R. China
| | - Li-Ping Zhang
- Department of Biochemistry and Molecular Biology, Basic Medicine College of Xinjiang Medical University, Urumqi, Xinjiang 830011, P. R. China
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Shen CM, Hu L, Yang CH, Yin CY, Li ZD, Meng HT, Guo YX, Mei T, Chen F, Zhu BF. Genetic polymorphisms of 54 mitochondrial DNA SNP loci in Chinese Xibe ethnic minority group. Sci Rep 2017; 7:44407. [PMID: 28327596 PMCID: PMC5361124 DOI: 10.1038/srep44407] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2016] [Accepted: 01/26/2017] [Indexed: 12/13/2022] Open
Abstract
We analyzed the genetic polymorphisms of 54 mitochondrial DNA (mtDNA) variants in Chinese Xibe ethnic minority group. A total of 137 unrelated healthy volunteers from Chinese Xibe group were the objects of our study. Among the selected loci, there were 51 variable positions including transitions and transversions, and single nucleotide transitions were common (83.93%) versus transversions. These variations defined 64 different mtDNA haplotypes exclusive of (CA)n and 9 bp deletion variation. The haplotype diversity and discrimination power in Xibe population were 0.9800 ± 0.004 and 0.9699, respectively. Besides, we compared Xibe group with 18 other populations and reconstructed a phylogenetic tree using Neighbor-Joining method. The result revealed that Xibe group was a close to Xinjiang Han and Yanbian Korean groups. Our data also indicated that Xibe group has a close relationship with Daur and Ewenki groups, which is reflected by the history that Xibe was influenced by Daur and Ewenki groups during the development of these groups. In conclusion, the variants we studied are polymorphic and could be used as informative genetic markers for forensic and population genetic application.
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Affiliation(s)
- Chun-Mei Shen
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi’an Jiaotong University, Xi’an, Shaanxi, 710004, P. R. China
- Clinical Reaserch Center of Shaanxi Province for Dental and Maxillofacial diseases, College of Stomatology, Xi’an Jiaotong University, Xi’an, Shaanxi, 710004, P. R. China
- Department of Forensic Genetics, School of Forensic Medicine, Southern Medical University, Guangzhou, Guangdong, 510515, P. R. China
- Institute of Brain and Behavioral Sciences, College of Life Sciences, Shaanxi Normal University, Xi’an, Shaanxi, 710062, P. R. China
| | - Li Hu
- Department of Forensic Medicine, Nanjing Medical University, Nanjing, Jiangsu, 210029, P. R. China
| | - Chun-Hua Yang
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi’an Jiaotong University, Xi’an, Shaanxi, 710004, P. R. China
- Clinical Reaserch Center of Shaanxi Province for Dental and Maxillofacial diseases, College of Stomatology, Xi’an Jiaotong University, Xi’an, Shaanxi, 710004, P. R. China
| | - Cai-Yong Yin
- Department of Forensic Medicine, Nanjing Medical University, Nanjing, Jiangsu, 210029, P. R. China
| | - Zhi-Dan Li
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi’an Jiaotong University, Xi’an, Shaanxi, 710004, P. R. China
- Clinical Reaserch Center of Shaanxi Province for Dental and Maxillofacial diseases, College of Stomatology, Xi’an Jiaotong University, Xi’an, Shaanxi, 710004, P. R. China
| | - Hao-Tian Meng
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi’an Jiaotong University, Xi’an, Shaanxi, 710004, P. R. China
- Clinical Reaserch Center of Shaanxi Province for Dental and Maxillofacial diseases, College of Stomatology, Xi’an Jiaotong University, Xi’an, Shaanxi, 710004, P. R. China
| | - Yu-Xin Guo
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi’an Jiaotong University, Xi’an, Shaanxi, 710004, P. R. China
- Clinical Reaserch Center of Shaanxi Province for Dental and Maxillofacial diseases, College of Stomatology, Xi’an Jiaotong University, Xi’an, Shaanxi, 710004, P. R. China
| | - Ting Mei
- Department of Biochemistry and Molecular Biology, Basic Medicine College, Xinjiang Medical University, Urumqi, 830011, P. R. China
| | - Feng Chen
- Department of Forensic Medicine, Nanjing Medical University, Nanjing, Jiangsu, 210029, P. R. China
| | - Bo-Feng Zhu
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi’an Jiaotong University, Xi’an, Shaanxi, 710004, P. R. China
- Clinical Reaserch Center of Shaanxi Province for Dental and Maxillofacial diseases, College of Stomatology, Xi’an Jiaotong University, Xi’an, Shaanxi, 710004, P. R. China
- Department of Forensic Genetics, School of Forensic Medicine, Southern Medical University, Guangzhou, Guangdong, 510515, P. R. China
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Yao J, Wang LM, Gui J, Xing JX, Xuan JF, Wang BJ. Population data of 15 autosomal STR loci in Chinese Han population from Liaoning Province, Northeast China. Forensic Sci Int Genet 2016; 23:e20-e21. [DOI: 10.1016/j.fsigen.2016.04.012] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2016] [Revised: 04/25/2016] [Accepted: 04/26/2016] [Indexed: 11/26/2022]
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Meng H, Guo Y, Dong Q, Yang G, Yan J, Shi J, Zhu B. Autosomal-STR based genetic structure of Chinese Xibe ethnic group and its relationships to various groups. Int J Legal Med 2016; 130:1501-1503. [PMID: 27085525 DOI: 10.1007/s00414-016-1369-5] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2016] [Accepted: 04/01/2016] [Indexed: 10/21/2022]
Abstract
The short tandem repeat (STR) is one of the most widely used genetic makers in forensic DNA labs worldwide. In the present study, we investigated the genetic structure of 19 autosomal STRs and 1 sex-determining locus (amelogenin) in the Xibe ethnic group in China, as well as its relationships to other groups. One hundred and ninety-five alleles were detected in 222 unrelated healthy Xibe individuals. The values of combined power of discrimination and probability of exclusion of all 19 STR loci were 0.99999999999999999999996912 and 0.999999997538, respectively. Principal component analysis revealed relationships between the Xibe group and other groups, which showed a relatively close genetic relationship between the Xibe and Korean groups.
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Affiliation(s)
- Haotian Meng
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, 710004, China
- Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, Hospital of Stomatology, Xi'an Jiaotong University, Xi'an, 710004, China
- Research Center of Stomatology, Stomatological Hospital, Xi'an Jiaotong University, Xi'an, 710004, People's Republic of China
| | - Yuxin Guo
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, 710004, China
- Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, Hospital of Stomatology, Xi'an Jiaotong University, Xi'an, 710004, China
- Research Center of Stomatology, Stomatological Hospital, Xi'an Jiaotong University, Xi'an, 710004, People's Republic of China
| | - Qian Dong
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, 710004, China
- Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, Hospital of Stomatology, Xi'an Jiaotong University, Xi'an, 710004, China
- Research Center of Stomatology, Stomatological Hospital, Xi'an Jiaotong University, Xi'an, 710004, People's Republic of China
| | - Guang Yang
- Department of Pathology and Laboratory Medicine, Loma Linda University Medical Center, Loma Linda, CA, 92354, USA
| | - Jiangwei Yan
- Key Laboratory of Genome Sciences, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, 100101, People's Republic of China
| | - Jianfeng Shi
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, 710004, China
- Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, Hospital of Stomatology, Xi'an Jiaotong University, Xi'an, 710004, China
- Research Center of Stomatology, Stomatological Hospital, Xi'an Jiaotong University, Xi'an, 710004, People's Republic of China
| | - Bofeng Zhu
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, 710004, China.
- Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, Hospital of Stomatology, Xi'an Jiaotong University, Xi'an, 710004, China.
- Research Center of Stomatology, Stomatological Hospital, Xi'an Jiaotong University, Xi'an, 710004, People's Republic of China.
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Meng HT, Zhang LP, Wu H, Yang CH, Chen JG, Wang Y, Yan JW, Wang HD, Zhang YD, Liu WJ, Zhu BF. Genetic diversities of 20 novel autosomal STRs in Chinese Xibe ethnic group and its genetic relationships with neighboring populations. Gene 2015; 557:222-8. [DOI: 10.1016/j.gene.2014.12.037] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2014] [Revised: 12/15/2014] [Accepted: 12/16/2014] [Indexed: 11/17/2022]
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