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Dai X, Zhu Q, Wang C, Rukeye A, Cao Z, Shan T, Wang Y, Zhang J. F ST estimates of 94 populations in China based on STR markers. Forensic Sci Int Genet 2023; 64:102854. [PMID: 36893618 DOI: 10.1016/j.fsigen.2023.102854] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2022] [Revised: 02/14/2023] [Accepted: 03/02/2023] [Indexed: 03/06/2023]
Abstract
The proper assessment of DNA evidence in cases of personal identification is a recurring theme in forensics. It is common practice to evaluate the strength of DNA evidence using the likelihood ratio (LR). The accurate use of population allele frequencies is a crucial problem in LR calculation. Allele frequency differences among different populations could be estimated by the FST values. Thus, FST would also affect LR values by correcting the allele frequencies. In this study, Chinese population allele frequency data were selected from population reports published in Chinese and English journals. The population-specific FST values of each population, the overall FST values of each province, each region, and the whole country, and the locus-specific FST values of different loci were calculated. The LRs using different allele frequencies and different FST values were compared based on the combination of simulated genotypes. As a result, the FST values of 94 populations, 19 provinces, 7 regions, and the whole country were obtained. The LR was overestimated using allele frequencies of the combined population containing multiple populations rather than using allele frequencies of a population, and the LRs after FST correction were lower than those without correction. Conclusively, the correction in conjunction with corresponding FST values can make the LRs more accurate and reasonable.
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Affiliation(s)
- Xuan Dai
- West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China
| | - Qiang Zhu
- West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China
| | - Chu Wang
- West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China
| | - Aosiman Rukeye
- West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China
| | - Ze Cao
- West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China
| | - Tiantian Shan
- West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China
| | - Yufang Wang
- West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China.
| | - Ji Zhang
- West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China.
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Zhou J, Zhang X, Li X, Sui J, Zhang S, Zhong H, Zhang Q, Zhang X, Huang H, Wen Y. Genetic structure and demographic history of Northern Han people in Liaoning Province inferred from genome-wide array data. Front Ecol Evol 2022. [DOI: 10.3389/fevo.2022.1014024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
In this study, we used typical and advanced population genetic analysis methods [principal component analysis (PCA), ADMIXTURE, FST, f3-statistics, f4-statistics, qpAdm/qpWave, qpGraph, ALDER (Admixture-induced Linkage Disequilibrium for Evolutionary Relationships) and TreeMix] to explore the genetic structure of 80 Han individuals from four different cities in Liaoning Province and reconstruct their demographic history based on the newly generated genome-wide data. We found that Liaoning Han people have genetic similarities with other northern Han people (Shandong, Henan, and Shanxi) and Liaoning Manchu people. Millet farmers in the Yellow River Basin (YRB) and the West Liao River Basin (WLRB) (57–98%) and hunter-gatherers in the Mongolian Plateau (MP) and the Amur River Basin (ARB) (40–43%) are the main ancestral sources of the Liaoning Han people. Our study further supports the “northern origin hypothesis”; YRB-related ancestry accounts for 83–98% of the genetic makeup of the Liaoning Han population. There are clear genetic influences of northern East Asian populations in the Liaoning Han people, ancient Northeast Asian-related ancestry is another dominant ancestral component, and large-scale population admixture has happened between Tungusic Manchu people and Han people. There are genetic differences among the Liaoning Han people, and we found that these differences are associated with different migration routes of Hans during the “Chuang Guandong” period in historical records.
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Wang H, Xin C, Meng X, Xing S, Guo B, Chen Y, Wang BJ, Yao J. Genetic polymorphism and forensic application of 23 autosomal STR loci in the Han population of Panjin City, Liaoning Province, Northeastern China. Ann Hum Biol 2022; 49:254-259. [PMID: 35815629 DOI: 10.1080/03014460.2022.2100479] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
BACKGROUND Short tandem repeats (STRs) are consecutive repetition of a repeat motif and widely used in forensic medicine and human genetics because of their high polymorphism. SUBJECTS AND METHODS In the current study, 23 autosomal STR loci were genotyped from 1263 unrelated healthy individuals living in Panjin City, Liaoning Province, Northeastern China using the VeriFilerTM Express PCR Amplification Kit. The population comparison was performed between the Panjin Han population and the other relevant groups to further explore the structure of Panjin Han and its relationship with the other groups. RESULTS The results found 316 alleles across the 23 STRs and the corresponding allelic frequencies ranged from 0.5198 to 0.0004. Except for D3S1358, TPOX, TH01, and D3S1358, all STR loci were highly polymorphic (PIC > 0.7), with the Penta E locus having the highest degree of polymorphism (0.9147). For population comparison, the exact test of population differentiation found that no significant difference was observed between the Panjin Han and the other Han populations, except for Guangdong Han and Jiangxi Han. CONCLUSION The Panjin Han population showed significant differences with the other ethnic groups in China (Bouyei, Dong, Hui, Miao, Tibetan, and Uygur) and the foreign ethnic groups.
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Affiliation(s)
- Hongbo Wang
- Department of Anatomy, Shenyang Medical College, Shenyang, China
| | | | - Xinyao Meng
- Department of Anatomy, Shenyang Medical College, Shenyang, China
| | - Shihan Xing
- Department of Anatomy, Shenyang Medical College, Shenyang, China
| | - Baotong Guo
- Department of Anatomy, Shenyang Medical College, Shenyang, China
| | - Yuhan Chen
- Department of Anatomy, Shenyang Medical College, Shenyang, China
| | - Bao-Jie Wang
- School of Forensic Medicine, China Medical University, Shenyang, China
| | - Jun Yao
- School of Forensic Medicine, China Medical University, Shenyang, China
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Wang F, Du Z, Han B, Cao S, Fu F, Luo Z, Mu Z, Chen J, Qiu P, Fan H. Genetic diversity, forensic characteristics and phylogenetic analysis of the Qiongzhong aborigines residing in the tropical rainforests of Hainan Island via 19 autosomal STRs. Ann Hum Biol 2021; 48:335-342. [PMID: 34223783 DOI: 10.1080/03014460.2021.1951352] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
BACKGROUND The genetic landscape of the Qiongzhong aborigines, who reside in "the Heart of Hainan," is still unclear. The Goldeneye™ DNA ID System 20 A is available for forensic and population genetics applications. AIM To obtain genetic polymorphisms of 19 autosomal STR loci in the Qiongzhong aborigines, and to explore the genetic relationships with a total of 69,132 people from forty-five populations. SUBJECTS AND METHODS Genotype data on 19 autosomal STRs were collected from 724 Qiongzhong aborigines and phylogenetic relationships were conducted by multidimensional scaling analysis (MDS), principal component analysis (PCA) and neighbor-joining (N-J) phylogenetic tree construction. RESULTS No evidence of deviation from Hardy-Weinberg equilibrium was identified. A total of 233 distinct alleles were observed with allele frequencies ranging from 0.0007 to 0.5375. The combined power of discrimination (CPD) and combined power of exclusion (CPE) for the 19 autosomal STR loci were 1-8.28 × 10-34 and 0.999999987, respectively. CONCLUSION Our phylogenetic results demonstrated that (a) the populations of Southeast Asian countries have thorough integrations with southern China in terms of ethnicity and genetics due to long-term cultural and trade exchanges, and (b) based on genetic and linguistic analysis, the Qiongzhong aborigines have a close relationship with Fujian Han Chinese.HighlightsThe STR landscape of Qiongzhong aborigines inhabited in Hainan tropical rainforests was depicted by 19 autosomal STRs.A total of 69,132 people from forty-five populations were selected for a more extensive examination of genetic similarities and differences by multivariate statistical methods (MDS, PCA and N-J tree construction).The genetic analyses indicated that the populations of Southeast Asian countries are very genetically close to southern Chinese populations.From the genetic and linguistic perspective, the Qiongzhong aborigines have a close relationship with Han Chinese from Fujian Province.
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Affiliation(s)
- Fenfen Wang
- First Clinical Medical College, Hainan Medical University, Haikou, China
| | - Zhengming Du
- First Clinical Medical College, Hainan Medical University, Haikou, China
| | - Bingbing Han
- School of Traditional Chinese Medicine, Hainan Medical University, Haikou, China
| | - Shengping Cao
- First Clinical Medical College, Hainan Medical University, Haikou, China
| | - Fangshu Fu
- School of Biomedical Information and Engineering, Hainan Medical University, Haikou, China
| | - Zhenming Luo
- First Clinical Medical College, Hainan Medical University, Haikou, China
| | - Ziqing Mu
- School of Management, Hainan Medical University, Haikou, China
| | - Jirui Chen
- First Clinical Medical College, Hainan Medical University, Haikou, China
| | - Pingming Qiu
- School of Forensic Medicine, Southern Medical University, Guangzhou, China
| | - Haoliang Fan
- First Clinical Medical College, Hainan Medical University, Haikou, China.,School of Forensic Medicine, Southern Medical University, Guangzhou, China.,School of Basic Medicine and Life Science, Hainan Medical University, Haikou, China
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Population genetic data of 22 autosomal STR loci for the Mong people in Vietnam. Leg Med (Tokyo) 2020; 48:101825. [PMID: 33338949 DOI: 10.1016/j.legalmed.2020.101825] [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: 08/31/2020] [Revised: 11/10/2020] [Accepted: 12/04/2020] [Indexed: 11/22/2022]
Abstract
This study investigated 22 autosomal short tandem repeat (STR) loci in 156 unrelated individuals from the Mong ethnic minority in Ha Giang Province, Vietnam. Allele frequencies and forensic parameters were calculated, showing the combined Powers of Discrimination reaching 1.000000000000000000000000000000 and the combined Power of Exclusion greater than 0.999999986623. Phylogenetic analysis indicated that the Vietnamese Mong population has close genetic relationships with other Hmong-Mien populations.
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Li W, Wang X, Wang X, Wang F, Du Z, Fu F, Wu W, Wang S, Mu Z, Chen C, Hu X, Ding J, Meng Y, Qiu P, Fan H. Forensic characteristics and phylogenetic analyses of one branch of Tai-Kadai language-speaking Hainan Hlai (Ha Hlai) via 23 autosomal STRs included in the Huaxia ™ Platinum System. Mol Genet Genomic Med 2020; 8:e1462. [PMID: 32862500 PMCID: PMC7549582 DOI: 10.1002/mgg3.1462] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2020] [Revised: 07/20/2020] [Accepted: 08/04/2020] [Indexed: 01/10/2023] Open
Abstract
BACKGROUND Hainan Island, located in the South China Sea and separated from the Leizhou Peninsula by Qiongzhou Strait, is the second largest island after Taiwan in China. With the expansion of Han Chinese and the gradual formation of "South Hlai and North Han", nowadays, Hainan Hlai is the second largest population after Han Chinese in Hainan Island. Ha Hlai, distributed in southwest and southern Hainan Island, is the dominant branch of Hlai and speaks Ha localism. METHODS We utilized the Huaxia™ Platinum PCR Amplification System (including 23 autosomal STRs and 2 sex-linked markers) to obtain the first STR profiling batch of 657 Ha Hlai individuals (497 males and 160 females). In order to explore the genetic relationships between the studied Ha Hlai and other reference populations with different language families, population genetic analyses, including PCA, MDS, STRUCTURE, and phylogenetic analysis, were conducted based upon the raw data and allelic frequencies of the polymorphic autosomal STR markers. RESULTS In total, 271 distinct alleles were observed at the 23 STR loci. The number of diverse alleles ranged from 7 at TPOX locus to 23 at FGA locus, and the allelic frequencies varied from 0.0008 to 0.5533. In addition, the CPE and CPD were 1-7.39 × 10-10 and 1-3.13 × 10-28 , respectively. The phylogenetic analyses indicated that Ha Hlai is a Tai-Kadai language-speaking and relatively isolated population which has a close genetic and geographical relationship with Hainan Hlai, and M95 is the dominant haplogroup in Ha Hlai (56.18%). CONCLUSION The 23 autosomal STR genetic markers were highly polymorphic as well as potentially useful for forensic applications in Hainan Ha Hlai population. The phylogenetic analyses demonstrated that small geographic scale gene flows could not be ignored and the shaping of the unique gene pool for each population was the combination effects of geographic, language, and cultural isolations.
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Affiliation(s)
- Wenhui Li
- School of Basic Medicine and Life ScienceHainan Medical UniversityHaikouChina
- Forensic Science Center of Hainan Medical UniversityHainan Medical UniversityHaikouChina
| | - Xianwen Wang
- Criminal Technical DetachmentHaikou City Public Security BureauHaikouChina
| | - Xiehong Wang
- Criminal Technical DetachmentHaikou City Public Security BureauHaikouChina
| | - Fenfen Wang
- First Clinical Medical CollegeHainan Medical UniversityHaikouChina
| | - Zhengming Du
- First Clinical Medical CollegeHainan Medical UniversityHaikouChina
| | - Fangshu Fu
- School of Biomedical Information and EngineeringHainan Medical UniversityHaikouChina
| | - Wenlong Wu
- First Clinical Medical CollegeHainan Medical UniversityHaikouChina
| | - Shuya Wang
- School of Public HealthHainan Medical UniversityHaikouChina
| | - Ziqing Mu
- School of ManagementHainan Medical UniversityHaikouChina
| | - Chunwei Chen
- Public Security and Judicial Appraisal Center of Sanya CitySanyaChina
| | - Xiaomin Hu
- Hainan Zhujian Center for Molecular Cytogenetic Clinical TestingHaikouChina
| | - Jiuyang Ding
- School of Forensic MedicineGuizhou Medical UniversityGuiyangChina
| | - Yunle Meng
- School of Forensic MedicineSouthern Medical UniversityGuangzhouChina
| | - Pingming Qiu
- School of Forensic MedicineSouthern Medical UniversityGuangzhouChina
- Multi‐Omics Innovative Research Center of Forensic Identification, Department of Forensic Genetics, School of Forensic MedicineSouthern Medical UniversityGuangzhouChina
| | - Haoliang Fan
- School of Basic Medicine and Life ScienceHainan Medical UniversityHaikouChina
- Forensic Science Center of Hainan Medical UniversityHainan Medical UniversityHaikouChina
- School of Forensic MedicineSouthern Medical UniversityGuangzhouChina
- Multi‐Omics Innovative Research Center of Forensic Identification, Department of Forensic Genetics, School of Forensic MedicineSouthern Medical UniversityGuangzhouChina
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Wu X, Zheng JL, Lou Y, Wei XH, Wang BJ, Yao J. Genetic polymorphisms of 20 autosomal STR loci in the Han population of Zhangzhou City, Southeastern China. Leg Med (Tokyo) 2020; 46:101726. [DOI: 10.1016/j.legalmed.2020.101726] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2020] [Revised: 04/18/2020] [Accepted: 06/01/2020] [Indexed: 01/10/2023]
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8
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Lu Y, Sun HJ, Zhou JC, Wu X. Genetic polymorphisms, forensic efficiency and phylogenetic analysis of 17 autosomal STR loci in the Han population of Wuxi, Eastern China. Ann Hum Biol 2019; 46:601-605. [DOI: 10.1080/03014460.2019.1693628] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Affiliation(s)
- Yan Lu
- School of Forensic Medicine, China Medical University, Shenyang, PR China
- Key Laboratory of Health Ministry in Congenital Malformation, the Affiliated Shengjing Hospital of China Medical University, Shenyang, PR China
| | - Hong-jie Sun
- Institute of Criminal Science and Technology, Wuxi Public Security Bureau, Wuxi, PR China
| | - Ji-chuan Zhou
- School of Forensic Medicine, China Medical University, Shenyang, PR China
| | - Xu Wu
- School of Forensic Medicine, China Medical University, Shenyang, PR China
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9
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The Ong Be language-speaking population in Hainan Island: genetic diversity, phylogenetic characteristics and reflections on ethnicity. Mol Biol Rep 2019; 46:4095-4103. [DOI: 10.1007/s11033-019-04859-8] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2018] [Accepted: 05/04/2019] [Indexed: 01/10/2023]
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10
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Zhao ZL, Xia L, Zhao C, Ameen F, Alyahya S, Yao J. Population genetics of 15 autosomal STR loci in the Han population of Ili Kazakh Autonomous Prefecture, Northwestern China. Ann Hum Genet 2019; 83:318-324. [PMID: 30895616 DOI: 10.1111/ahg.12314] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2018] [Revised: 02/20/2019] [Accepted: 03/05/2019] [Indexed: 01/26/2023]
Abstract
PURPOSE China harbors 56 ethnic groups and Han accounts for >92% of the total Chinese population. We investigated the frequencies of 15 autosomal short tandem repeat (STR) loci in the Han population of the Ili Kazakh Autonomous Prefecture with the aim of expanding the available population information in human genetics databases and for forensic DNA analysis. SUBJECTS AND METHODS We explored the genetic characteristics of 15 autosomal STR loci in 552 unrelated Chinese Han individuals from Ili Kazakh Autonomous Prefecture, Northwestern China using the AmpFISTR Identifiler PCR Amplification Kit. Moreover, phylogenetic analysis was performed between the Han population and other relevant populations based on the autosomal STR genotyping. The neighbor-joining tree and principle component analysis were generated based on the Nei's standard genetic distance and allelic frequencies, respectively. RESULTS A total of 171 alleles were observed among 552 unrelated individuals and allelic frequencies ranged from 0.5145 to 0.0009. The combined power of discrimination and combined power of exclusion of the 15 autosomal STR loci were 0.9999999999999999964 and 0.999998243616671, respectively. CONCLUSIONS Population comparison revealed that the Ili Han population were lining up together with other Han populations in China while showing significant differences from other Chinese and worldwide populations.
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Affiliation(s)
- Zhi-Liang Zhao
- Hospital Office, Chengdu First People's Hospital, Chengdu, Sichuan Province, China.,Department of Anesthesia, Critical Care and Pain Medicine, Massachusetts General Hospital, Harvard Medical School, Charlestown, Massachusetts
| | - Lu Xia
- Department of Rehabilitation, Chengdu First People's Hospital, Chengdu, Sichuan Province, China
| | - Cong Zhao
- Department of Gastroenterology, Chengdu First People's Hospital, Chengdu, Sichuan Province, China
| | - Fuad Ameen
- Department of Botany and Microbiology, College of Science, King Saud University, Riyadh, Saudi Arabia
| | - Sami Alyahya
- National Center for Biotechnology, King Abdul Aziz City for Science and Technology, Riyadh, Saudi Arabia
| | - Jun Yao
- School of Forensic Medicine, China Medical University, Shenbei New District, Shenyang, China
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11
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Feng C, Wang X, Yu H, Wang X, Zhang G. Genetic polymorphisms, forensic efficiency, and phylogenetic analysis of 15 autosomal STR loci in the Uygur population of Ili Kazakh Autonomous Prefecture, Northwestern China. Ann Hum Genet 2018; 83:46-53. [DOI: 10.1111/ahg.12283] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2018] [Revised: 07/30/2018] [Accepted: 07/31/2018] [Indexed: 11/28/2022]
Affiliation(s)
- Chun‐Mei Feng
- School of Forensic Medicine China Medical University Shenyang P.R. China
- Department of Biotechnology Laboratory Mudanjiang Medical College Mudanjiang P.R. China
| | - Xin Wang
- DNA Laboratory of Criminal Police Detachment Suzhou Public Security Bureau Suzhou P.R. China
| | - Hao Yu
- School of Forensic Medicine China Medical University Shenyang P.R. China
| | - Xiao‐Long Wang
- School of Forensic Medicine China Medical University Shenyang P.R. China
| | - Guo‐Hua Zhang
- School of Forensic Medicine China Medical University Shenyang P.R. China
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12
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AbdEl-Hafez AF, El-Alfy SH, Swelim HH, Hassan NHA. Genetic Variation at 15 Autosomal STR Loci Among Seven Egyptian Populations. Biochem Genet 2018; 57:170-191. [DOI: 10.1007/s10528-018-9879-0] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2017] [Accepted: 07/20/2018] [Indexed: 11/25/2022]
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13
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Feng C, Wang X, Wang X, Yu H, Zhang G. Genetic polymorphisms, forensic efficiency and phylogenetic analysis of 15 autosomal STR loci in the Kazak population of Ili Kazak Autonomous Prefecture, northwestern China. Ann Hum Biol 2018; 45:160-165. [DOI: 10.1080/03014460.2018.1445289] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Affiliation(s)
- Chunmei Feng
- School of Forensic Medicine, China Medical University, Shenyang, Liaoning, PR China
- Department of Biotechnology Laboratory, Mudanjiang Medical College, Mudanjiang, Heilongjiang, PR China
| | - Xin Wang
- DNA Laboratory of Criminal Police Detachment, Suzhou Public Security Bureau, Suzhou, Jiangsu, PR China
| | - Xiaolong Wang
- School of Forensic Medicine, China Medical University, Shenyang, Liaoning, PR China
| | - Hao Yu
- School of Forensic Medicine, China Medical University, Shenyang, Liaoning, PR China
| | - Guohua Zhang
- School of Forensic Medicine, China Medical University, Shenyang, Liaoning, PR China
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Genetic polymorphisms of 15 autosomal STR loci in 3962 individuals from the Han population of Jiangxi, Southeast China. Forensic Sci Int Genet 2017; 31:e57-e58. [DOI: 10.1016/j.fsigen.2017.08.010] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2017] [Revised: 08/04/2017] [Accepted: 08/08/2017] [Indexed: 11/30/2022]
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15
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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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16
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Xu XM, Xu ZH, Wang DW, Yao J. Population data of 18 autosomal STR loci in the Chinese Han population from Heilongjiang Province, Northeast China. Forensic Sci Int Genet 2017; 29:e33-e34. [DOI: 10.1016/j.fsigen.2017.04.002] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2017] [Revised: 03/27/2017] [Accepted: 04/02/2017] [Indexed: 01/10/2023]
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17
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Yang M, Ren Z, Ji J, Zhou H, Zhang H, Dai J, Wang J, Huang J. Population genetic data and mutations of 22 autosomal STR loci in Guizhou Han population. Forensic Sci Int Genet 2017; 29:e29-e30. [DOI: 10.1016/j.fsigen.2017.03.008] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2016] [Revised: 02/20/2017] [Accepted: 03/05/2017] [Indexed: 11/16/2022]
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18
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Genetic polymorphisms of 20 autosomal STR loci in 5141 individuals from the Han population of Xiamen, Southeast China. Forensic Sci Int Genet 2017; 29:e31-e32. [DOI: 10.1016/j.fsigen.2017.03.023] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2016] [Revised: 02/27/2017] [Accepted: 03/30/2017] [Indexed: 01/10/2023]
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19
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Population data of 15 autosomal STR loci in Chinese Han population from Yangjiang, Southern China. Forensic Sci Int Genet 2017; 28:e14-e15. [DOI: 10.1016/j.fsigen.2017.01.004] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2016] [Revised: 10/31/2016] [Accepted: 01/07/2017] [Indexed: 11/20/2022]
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20
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Yao J, Xiong KY, Zhang Y. Population data of 19 autosomal STR loci in the Chinese Han population from Jiujiang, Southern China. Forensic Sci Int Genet 2017; 28:e47-e48. [PMID: 28302373 DOI: 10.1016/j.fsigen.2017.03.007] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2016] [Revised: 02/21/2017] [Accepted: 03/04/2017] [Indexed: 01/10/2023]
Affiliation(s)
- Jun Yao
- School of Forensic Medicine, China Medical University, No. 77, Puhe Road, Shenbei New District, Shenyang, Liaoning, 110122, China
| | - Ke-Yang Xiong
- Fifth Battalion, Interpol detachment, Public Security Bureau of Yangjiang City, No. 99, Dongfeng San Road, Jiangcheng District, Yangjiang, Guangdong, 529500, China
| | - Yong Zhang
- Cancer Hospital of China Medical University, Liaoning Cancer Hospital & Institute, No. 44, Xiaoheyan Road, Dadong District, Shenyang, Liaoning, 110042, China.
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21
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Xu XM, Feng Z, Yao J. Population data of 15 autosomal STR loci in Chinese Han population from Jilin Province, Northeast China. Forensic Sci Int Genet 2017; 27:187-188. [DOI: 10.1016/j.fsigen.2016.12.012] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2016] [Revised: 12/01/2016] [Accepted: 12/29/2016] [Indexed: 10/20/2022]
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22
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Genetic Variation of 25 Y-Chromosomal and 15 Autosomal STR Loci in the Han Chinese Population of Liaoning Province, Northeast China. PLoS One 2016; 11:e0160415. [PMID: 27483472 PMCID: PMC4970702 DOI: 10.1371/journal.pone.0160415] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2016] [Accepted: 07/19/2016] [Indexed: 11/19/2022] Open
Abstract
In the present study, we investigated the genetic characteristics of 25 Y-chromosomal and 15 autosomal short tandem repeat (STR) loci in 305 unrelated Han Chinese male individuals from Liaoning Province using AmpFISTR® Yfiler® Plus and IdentifilerTM PCR amplification kits. Population comparison was performed between Liaoning Han population and different ethnic groups to better understand the genetic background of the Liaoning Han population. For Y-STR loci, the overall haplotype diversity was 0.9997 and the discrimination capacity was 0.9607. Gene diversity values ranged from 0.4525 (DYS391) to 0.9617 (DYS385). Rst and two multi-dimensional scaling plots showed that minor differences were observed when the Liaoning Han population was compared to the Jilin Han Chinese, Beijing Han Chinese, Liaoning Manchu, Liaoning Mongolian, Liaoning Xibe, Shandong Han Chinese, Jiangsu Han Chinese, Anhui Han Chinese, Guizhou Han Chinese and Liaoning Hui populations; by contrast, major differences were observed when the Shanxi Han Chinese, Yunnan Bai, Jiangxi Han Chinese, Guangdong Han Chinese, Liaoning Korean, Hunan Tujia, Guangxi Zhuang, Gansu Tibetan, Xishuangbanna Dai, South Korean, Japanese and Hunan Miao populations. For autosomal STR loci, DP ranged from 0.9621 (D2S1338) to 0.8177 (TPOX), with PE distributing from 0.7521 (D18S51) to 0.2988 (TH01). A population comparison was performed and no statistically significant differences were detected at any STR loci between Liaoning Han, China Dong, and Shaanxi Han populations. The results showed that the 25 Y-STR and 15 autosomal STR loci in the Liaoning Han population were valuable for forensic applications and human genetics, and Liaoning Han was an independent endogenous ethnicity with a unique subpopulation structure.
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23
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Yao J, Xing JX, Xuan JF, Wang BJ. Population data of 15 autosomal STR loci in Chinese Han population from Jiangsu Province, Eastern China. Forensic Sci Int Genet 2016; 24:112-113. [PMID: 27376693 DOI: 10.1016/j.fsigen.2016.06.015] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2016] [Revised: 06/14/2016] [Accepted: 06/20/2016] [Indexed: 10/21/2022]
Affiliation(s)
- Jun Yao
- School of Forensic Medicine, China Medical University, No.77, Puhe Road, Shenbei New District, Shenyang, Liaoning 110122, China
| | - Jia-Xin Xing
- School of Forensic Medicine, China Medical University, No.77, Puhe Road, Shenbei New District, Shenyang, Liaoning 110122, China
| | - Jin-Feng Xuan
- School of Forensic Medicine, China Medical University, No.77, Puhe Road, Shenbei New District, Shenyang, Liaoning 110122, China
| | - Bao-Jie Wang
- School of Forensic Medicine, China Medical University, No.77, Puhe Road, Shenbei New District, Shenyang, Liaoning 110122, China.
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