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Sun N, Tao L, Wang R, Zhu K, Hai X, Wang CC. The genetic structure and admixture of Manchus and Koreans in northeast China. Ann Hum Biol 2023; 50:161-171. [PMID: 36809229 DOI: 10.1080/03014460.2023.2182912] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/23/2023]
Abstract
BACKGROUND The fine-scale genetic profiles and population history of Manchus and Koreans remain unclear. AIM To infer a fine-scale genetic structure and admixture of Manchu and Korean populations. SUBJECTS AND METHODS We collected and genotyped 16 Manchus from Liaoning and 18 Koreans from Jilin province with about 700K genome-wide SNPs. We analysed the data using principal component analysis (PCA), ADMIXTURE, Fst, TreeMix, f-statistics, qpWave, and qpAdm. RESULTS Manchus and Koreans showed a genetic affinity with northern East Asians. Chinese Koreans showed a long-term genetic continuity with Bronze Age populations from the West Liao River and had a strong affinity with Koreans in South Korea and Japan. Manchus had a different genetic profile compared with other Tungusic populations since the Manchus received additional genetic influence from the southern Chinese but didn't have West Eurasian-related admixture. CONCLUSIONS The genetic formation of Manchus involving southern Chinese was consistent with the extensive interactions between Manchus and populations from central and southern China. The large-scale genetic continuity between ancient West Liao River farmers and Koreans highlighted the role farming expansion played in the peopling of the Korean Peninsula.
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Affiliation(s)
- Na Sun
- College of Foreign Languages, Huaqiao University, 362021, Quanzhou, China
| | - Le Tao
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Rui Wang
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Kongyang Zhu
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Xiangjun Hai
- Key Laboratory of Environmental Ecology and Population Health in Northwest Minority Areas, Northwest Minzu University, Lanzhou, China
| | - Chuan-Chao Wang
- State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiamen 361102, China.,Department of Anthropology and Ethnology, Institute of Anthropology, School of Sociology and Anthropology, Xiamen University 361005, Xiamen, China.,State Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen 361102, China.,Institute of Artificial Intelligence, Xiamen University, Xiamen 361005, China.,Ministry of Education Key Laboratory of Contemporary Anthropology, Department of Anthropology and Human Genetics, School of Life Sciences, Fudan University, Shanghai 200433, China
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2
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Zhao C, Xu H, Fang Y, Zhao M, Lan Q, Chen M, Mei S, Zhu B. Systematic selections and forensic application evaluations of 111 individual identification SNPs in the Chinese Inner Mongolia Manchu group. Front Genet 2022; 13:944580. [PMID: 36134022 PMCID: PMC9483854 DOI: 10.3389/fgene.2022.944580] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2022] [Accepted: 07/25/2022] [Indexed: 11/26/2022] Open
Abstract
Single nucleotide polymorphism (SNP) possesses a promising application in forensic individual identification due to its wide distribution in the human genome and the ability to carry out the genotyping of degraded biological samples by designing short amplicons. Some commonly used individual identification SNPs are less polymorphic in East Asian populations. In order to improve the individual identification efficiencies in East Asian populations, SNP genetic markers with relatively higher polymorphisms were selected from the 1,000 Genome Project phase III database in East Asian populations. A total of 111 individual identification SNPs (II-SNPs) with the observed heterozygosity values greater than 0.4 were screened in East Asian populations, and then, the forensic efficiencies of these selected SNPs were also evaluated in Chinese Inner Mongolia Manchu group. The observed heterozygosity and power of discrimination values at 111 II-SNPs in the Inner Mongolia Manchu group ranged from 0.4011 to 0.7005, and 0.5620 to 0.8025, respectively, and the average value of polymorphism information content was greater than 0.3978. The cumulative match probability and combined probability of exclusion values at II-SNPs were 7.447E-51 and 1-4.17E-12 in the Inner Mongolia Manchu group, respectively. The accumulative efficiency results indicated that the set of II-SNPs could be used as a potential tool for forensic individual identification and parentage testing in the Manchu group. The sequencing depths ranged from 781× to 12374×. And the mean allele count ratio and noise level were 0.8672 and 0.0041, respectively. The sequencing results indicated that the SNP genetic marker detection based on the massively parallel sequencing technology for SNP genetic markers had high sequencing performance and could meet the sequencing requirements of II-SNPs in the studied group.
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Affiliation(s)
- Congying Zhao
- Guangzhou Key Laboratory of Forensic Multi-Omics for Precision Identification, School of Forensic Medicine, Southern Medical University, Guangzhou, China
| | - Hui Xu
- Guangzhou Key Laboratory of Forensic Multi-Omics for Precision Identification, School of Forensic Medicine, Southern Medical University, Guangzhou, China
| | - Yating Fang
- Guangzhou Key Laboratory of Forensic Multi-Omics for Precision Identification, School of Forensic Medicine, Southern Medical University, Guangzhou, China
| | - Ming Zhao
- Guangzhou Key Laboratory of Forensic Multi-Omics for Precision Identification, School of Forensic Medicine, Southern Medical University, Guangzhou, China
| | - Qiong Lan
- Guangzhou Key Laboratory of Forensic Multi-Omics for Precision Identification, School of Forensic Medicine, Southern Medical University, Guangzhou, China
| | - Man Chen
- Guangzhou Key Laboratory of Forensic Multi-Omics for Precision Identification, School of Forensic Medicine, Southern Medical University, Guangzhou, China
| | - Shuyan Mei
- Guangzhou Key Laboratory of Forensic Multi-Omics for Precision Identification, School of Forensic Medicine, Southern Medical University, Guangzhou, China
| | - Bofeng Zhu
- Guangzhou Key Laboratory of Forensic Multi-Omics for Precision Identification, School of Forensic Medicine, Southern Medical University, Guangzhou, China
- Microbiome Medicine Center, Department of Laboratory Medicine, Zhujiang Hospital, Southern Medical University, Guangzhou, China
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi’an Jiaotong University, Xi’an, China
- *Correspondence: Bofeng Zhu,
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3
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Kumar A, Kumar R, Kumawat RK, Shrivastava P, Yadav R, Chaubey G. Population genetic data of 22 autosomal STR loci for the Scheduled Caste population of Rajasthan India. Ann Hum Biol 2021; 48:598-604. [PMID: 34802358 DOI: 10.1080/03014460.2021.2009030] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Abstract
AIM To study the genetic structure of the Scheduled Caste population of Rajasthan and its relationship with Indian and global populations using expanded 20 CODIS STR loci (autosomal) markers. SUBJECTS AND METHODS Blood samples of 226 healthy, unrelated adult individuals of the Scheduled Caste population of the Indian state of Rajasthan were taken from the routine casework of authors after obtaining written informed consent. Autosomal STR markers included in PowerPlex® Fusion 5 C and GlobalFiler™ PCR amplification kits were used to explore the genetic diversity of the studied population. Amplicons were separated using Genetic Analyser 3500XL as per the recommended protocol. RESULTS Observed heterozygosity for the studied population ranged from 0.681(CSF1PO) to 0.881 (D1S1656).Combined Discrimination Power and Combined Exclusion Power were observed as 1 and 0.9999999852, respectively. The highest Discrimination Power was observed for the locus D1S1656. In the population comparison test, Nei's Da distance-based Neighbor-Joining (NJ) dendrogram revealed two significant clusters of geographically close Indian and East Asian populations along with a few small groups of outlier populations. CONCLUSION The matching probability for 20 STR markers was observed as 7.02 × 10-24 and paternity index as 5.55 × 107. These values play a key role in forensic applications.The studied population showed a higher genetic affinity with geographically closer populations than the distant ones. This caste-based population data is expected to play an important role in forensic DNA applications and genetic studies.
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Affiliation(s)
- Anand Kumar
- DNA Division, State Forensic Science Laboratory, Jaipur, India
| | - Rajesh Kumar
- DNA Division, State Forensic Science Laboratory, Jaipur, India
| | - R K Kumawat
- DNA Division, State Forensic Science Laboratory, Jaipur, India
| | - Pankaj Shrivastava
- DNA Fingerprinting Unit, State Forensic Science Laboratory, Department of Home (Police), Government of MP, Sagar, India
| | - Rajesh Yadav
- Department of Zoology, JECRC University, Jaipur, India
| | - Gyaneshwer Chaubey
- Cytogenetics Laboratory, Department of Zoology, Banaras Hindu University, Varanasi, India
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4
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Haque I, Dixit S, Kumar A, Kumar A, Verma S, Kumar D, Srivastava A, Kumawat RK, Shrivastava D, Chaubey G, Shrivastava P. An evaluation of inter and intra population structure of Uttar Pradesh, inferred from 24 autosomal STRs. Ann Hum Biol 2021; 49:69-79. [PMID: 34852697 DOI: 10.1080/03014460.2021.1995043] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/01/2022]
Abstract
Aim: Present study was designed to explore the STR diversity and genomic history of the inhabitants of the most populous subdivision of the country. A set of 24 hyper variable autosomal STRs was used to estimate the genetic diversity within the studied population. A panel of 15 autosomal STRs, which is most common in the previously reported data sets, was used to estimate the genetic diversity between the studied population and obtained unique relations were reported here.Method: The genetic diversity and polymorphism among 636 individuals of different ethnic groups, residing in Bareilly, Pilibhit, Shahjahanpur, Gorakhpur, Jhansi and Varanasi regions of Uttar Pradesh, India was investigated. This investigation was carried out via 24 autosomal STRs.Result: Studied 24 loci showed the highest value of combined power of discrimination (CPD =1), combined power of exclusion (CPE =0.99999999985), combined paternity index (CPI =6.10x109) and lowest combined matching probability (CPM =7.90x10-31).Conclusion: Studied population showed the genetic closeness with the population of Uttarakhand, Jats of Delhi, Jat Sikh (Punjab) and population of Rajasthan. The locus SE33 and Penta E was found to be most useful in the terms of highest discrimination power, lowest matching probability, highest power of exclusion and highest polymorphism information content for Uttar Pradesh population among the tested loci.
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Affiliation(s)
- Ikramul Haque
- Advanced DNA Laboratory, Central Forensic Science Laboratory, Chandigarh-160036, India
| | - Shivani Dixit
- Advanced DNA Laboratory, Central Forensic Science Laboratory, Chandigarh-160036, India.,Jaipur National University, Jaipur, Rajasthan-302017, India
| | - Akash Kumar
- Dr. A.P.J. Abdul Kalam Institute of Forensic Science & Criminology, Bundelkhand University, Jhansi, U.P-284128, India.,DNA Fingerprinting Unit, State Forensic Science Laboratory, Department of Home (Police), Govt. of MP, Sagar, Madhya Pradesh-470001, India
| | - Akshay Kumar
- DNA Fingerprinting Unit, State Forensic Science Laboratory, Department of Home (Police), Govt. of MP, Sagar, Madhya Pradesh-470001, India
| | - Sunita Verma
- Advanced DNA Laboratory, Central Forensic Science Laboratory, Chandigarh-160036, India
| | - Devinder Kumar
- Advanced DNA Laboratory, Central Forensic Science Laboratory, Chandigarh-160036, India
| | - Ankit Srivastava
- Dr. A.P.J. Abdul Kalam Institute of Forensic Science & Criminology, Bundelkhand University, Jhansi, U.P-284128, India
| | - R K Kumawat
- DNA Division, State Forensic Science Laboratory, Rajasthan, Jaipur -302016, India
| | | | | | - Pankaj Shrivastava
- Dr. A.P.J. Abdul Kalam Institute of Forensic Science & Criminology, Bundelkhand University, Jhansi, U.P-284128, India
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5
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Shrivastava P, Dixit S, Kumawat RK, Srivastava A. Efficiency analysis of VersaPlex™ 27PY system in Central Indian Population: First report from Indian population. Leg Med (Tokyo) 2021; 54:101983. [PMID: 34736143 DOI: 10.1016/j.legalmed.2021.101983] [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: 07/17/2021] [Revised: 08/30/2021] [Accepted: 10/17/2021] [Indexed: 10/20/2022]
Abstract
In the current scenario, DNA typing is the need of forensic science field due to its ability to provide results in much shorter time. In view of advancement of forensic DNA typing and incensement in the number of STRs markers, Promega offered a new VersaPlex™ 27PY system with 27 loci (23 autosomal STR loci, Amelogenin, DYS391 and two rapidly mutating Y-STR loci (DYS570 and DYS576)). In this study, the efficacy of "23 autosomal STR loci" for paternity testing and personal identification was demonstrated in Indian population. For this, 217 central Indians were tested and all the statistical parameters of forensic and population genetic interest were calculated. In addition, sensitivity of the kit was also tested for forensic casework. During investigation with VersaPlex™ 27PY system, allele 11 at locus TPOX was observed to be most frequent with the highest allelic frequency 0.432. Studied 23 loci showed valuable together with highest value of combined power of discrimination (CPD = 1), combined power of exclusion (CPI = 0.9999999989) and lowest value of combined matching probability (CPM = 7.92x10-28).
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Affiliation(s)
- Pankaj Shrivastava
- DNA Fingerprinting Unit, State Forensic Science Laboratory, Department of Home (Police), Govt. of MP, Sagar 470001, India.
| | - Shivani Dixit
- DNA Fingerprinting Unit, State Forensic Science Laboratory, Department of Home (Police), Govt. of MP, Sagar 470001, India
| | - R K Kumawat
- DNA Division, State Forensic Science Laboratory, Rajasthan, Jaipur 302016, India
| | - Ankit Srivastava
- Institute of Forensic Science and Criminology, Bundelkhand University, Jhansi 284128, UP, India
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6
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Zhang X, He G, Li W, Wang Y, Li X, Chen Y, Qu Q, Wang Y, Xi H, Wang CC, Wen Y. Genomic Insight Into the Population Admixture History of Tungusic-Speaking Manchu People in Northeast China. Front Genet 2021; 12:754492. [PMID: 34659368 PMCID: PMC8515022 DOI: 10.3389/fgene.2021.754492] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2021] [Accepted: 08/30/2021] [Indexed: 11/13/2022] Open
Abstract
Manchu is the third-largest ethnic minority in China and has the largest population size among the Tungusic-speaking groups. However, the genetic origin and admixture history of the Manchu people are far from clear due to the sparse sampling and a limited number of markers genotyped. Here, we provided the first batch of genome-wide data of genotyping approximate 700,000 single-nucleotide polymorphisms (SNPs) in 93 Manchu individuals collected from northeast China. We merged the newly generated data with data of publicly available modern and ancient East Asians to comprehensively characterize the genetic diversity and fine-scale population structure, as well as explore the genetic origin and admixture history of northern Chinese Manchus. We applied both descriptive methods of ADMIXTURE, fineSTRUCTURE, F ST , TreeMix, identity by decedent (IBD), principal component analysis (PCA), and qualitative f-statistics (f 3, f 4, qpAdm, and qpWave). We found that Liaoning Manchus have a close genetic relationship and significant admixture signal with northern Han Chinese, which is in line with the cluster patterns in the haplotype-based results. Additionally, the qpAdm-based admixture models showed that modern Manchu people were formed as major ancestry related to Yellow River farmers and minor ancestry linked to ancient populations from Amur River Bain, or others. In summary, the northeastern Chinese Manchu people in Liaoning were an exception to the coherent genetic structure of Tungusic-speaking populations, probably due to the large-scale population migrations and genetic admixtures in the past few hundred years.
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Affiliation(s)
- Xianpeng Zhang
- Institute of Biological Anthropology, Jinzhou Medical University, Jinzhou, China
| | - Guanglin He
- State Key Laboratory of Cellular Stress Biology, National Institute for Data Science in Health and Medicine, School of Life Sciences, Xiamen University, Xiamen, China
- Department of Anthropology and Ethnology, Institute of Anthropology, School of Sociology and Anthropology, Xiamen University, Xiamen, China
- State Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen, China
- School of Humanities, Nanyang Technological University, Singapore, Singapore
| | - Wenhui Li
- Institute of Biological Anthropology, Jinzhou Medical University, Jinzhou, China
| | - Yunfeng Wang
- Xinbin Manchu Autonomous County People’s Hospital, Fushun, China
| | - Xin Li
- Institute of Biological Anthropology, Jinzhou Medical University, Jinzhou, China
| | - Ying Chen
- Institute of Biological Anthropology, Jinzhou Medical University, Jinzhou, China
| | - Quanying Qu
- Institute of Biological Anthropology, Jinzhou Medical University, Jinzhou, China
| | - Ying Wang
- Institute of Biological Anthropology, Jinzhou Medical University, Jinzhou, China
| | - Huanjiu Xi
- Institute of Biological Anthropology, Jinzhou Medical University, Jinzhou, China
| | - Chuan-Chao Wang
- State Key Laboratory of Cellular Stress Biology, National Institute for Data Science in Health and Medicine, School of Life Sciences, Xiamen University, Xiamen, China
- Department of Anthropology and Ethnology, Institute of Anthropology, School of Sociology and Anthropology, Xiamen University, Xiamen, China
- State Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen, China
| | - Youfeng Wen
- Institute of Biological Anthropology, Jinzhou Medical University, Jinzhou, China
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7
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Nath S, Shrivastava P, Kumawat RK, Dixit S, Chaubey G. Genomic polymorphism in tribal population of Tripura: Signifying their closer affinity with the Nepalese and Tibetan populations. Ann Hum Biol 2021; 48:360-368. [PMID: 34340604 DOI: 10.1080/03014460.2021.1957148] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
BACKGROUND India is the second most populous country in the world, which is aligned into various community segments. AIM To evaluate the genetic diversity of the tribal population of Tripura, we carried out this study. SUBJECTS AND METHODS 15 autosomal STR markers were used for investigation of genomic diversity, inter- and intra- population relationships among the studied population, and other reported neighbouring tribal and caste populations. RESULTS Results indicated that the tribals of Tripura share their closer genetic affinity with the Trans-Himalayan (Nepalese, Bhutanese and Tibetan) populations. Locus D18S51 was found as the most discriminatory among all the studied loci with uppermost discrimination power (PD = 0.964) and lowest matching probability (Pm = 0.036) in the study. All the evaluated loci herein are useful, having the maximum value of combined power of discrimination (CPD = 1), combined power of exclusion (CPE = 0.99999746), combined paternity index (CPI = 3 × 105) and combined matching probability (CPm = 2.12 × 1 0 -7). CONCLUSION Population genetic analysis showed that the studied population has genetic relatedness with the compared Nepalese and Tibetan populations i.e., Kathmandu, Tibet, Newar, and Gorkhas, followed by eastern and central Indian populations.
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Affiliation(s)
- Subhankar Nath
- DNA Typing Division, State Forensic Science Laboratory, Narsingarh, Agartala, India
| | - Pankaj Shrivastava
- DNA Fingerprinting Unit, State Forensic Science Laboratory, Department of Home (Police), Govt. of MP, Sagar, India
| | - R K Kumawat
- DNA Division, State Forensic Science Laboratory, Jaipur, India
| | - Shivani Dixit
- DNA Fingerprinting Unit, State Forensic Science Laboratory, Department of Home (Police), Govt. of MP, Sagar, India
| | - Gyaneshwer Chaubey
- Cytogenetics Laboratory, Department of Zoology, Banaras Hindu University, Varanasi, India
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8
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Leishangthem S, Kushwaha KPS, Chauhan T, Kumawat RK, Chaubey G, Shrivastava P. Evaluation of the genomic diversity and shared ancestry of the Meitei community of Manipur (India) with the East Asian populations using autosomal STRs. Ann Hum Biol 2021; 47:642-651. [PMID: 32911994 DOI: 10.1080/03014460.2020.1821772] [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] [Indexed: 10/23/2022]
Abstract
AIM To study molecular diversity and genomic heritage of the Meitei community of Manipur using 20 autosomal gene loci markers. SUBJECTS AND METHODS Blood samples were collected from 120 unrelated, healthy individuals of the Meitei population following ethical standards. DNA was extracted using the Phenol chloroform organic extraction method and amplified using the PowerPlex® 21 system. Genetic profiles of the individuals were generated using the Genetic Analyser 3500XL following the recommended protocol. RESULTS The studied population showed Observed Heterozygosity (Hobs) from 0.583 (TH01) to 0.90 (D6S1043) among all the studied loci. The discrimination power and exclusion power for all the studied loci were found to be 1 and 0.9999999988, respectively, with the maximum power of discrimination being found at Penta E locus. CONCLUSIONS All the studied loci showed a high degree of matching probability and paternity index of 2.83 × 10-24 and 7.35 × 108, respectively; these are high-level statistical values and indicate that these loci might play a very important role in the application of DNA reports in the courts of justice. The studied population showed a relatively closer genetic affinity with Newar, Kathmandu, and Han Chinese populations compared with the South and West Indian populations. The outcomes of this study will enrich the STR database of the Indian population and this is the first global report on genetic diversity in the Meitei community of Manipur, India, at 20 autosomal STR genetic markers.
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Affiliation(s)
| | - K P S Kushwaha
- LNJN National Institute of Criminology and Forensic Science, Delhi, India
| | - Tanya Chauhan
- LNJN National Institute of Criminology and Forensic Science, Delhi, India
| | - R K Kumawat
- DNA Division, State Forensic Science Laboratory, Jaipur, India
| | - Gyaneshwer Chaubey
- Department of Zoology, Cytogenetics Laboratory, Banaras Hindu University, Varanasi, India
| | - Pankaj Shrivastava
- Department of Home (Police), Govt. of MP, DNA Fingerprinting Unit, State Forensic Science Laboratory, Sagar, India
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9
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Kumar A, Kumar R, Kumawat R, Shrivastava P, Chaubey G. Genomic diversity at 22 STR loci (extended CODIS STR) in the population of Rajasthan, India. GENE REPORTS 2021. [DOI: 10.1016/j.genrep.2021.101150] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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10
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Luo L, Gao H, Yao L, Liu H, Zhang H, Wu J, He G, Chen P. Updated population genetic data of 15 autosomal STR loci in a Shandong Han population from East China and genetic relationships among 26 Chinese populations. Ann Hum Biol 2020; 47:472-477. [PMID: 32342713 DOI: 10.1080/03014460.2020.1749928] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Affiliation(s)
- Li Luo
- Center of Forensic Expertise, Affiliated hospital of Zunyi Medical University, Zunyi, Guizhou, China
- Department of Forensic Medicine, Zunyi Medical University, Zunyi, Guizhou, China
| | - Hongyan Gao
- Center of Forensic Expertise, Affiliated hospital of Zunyi Medical University, Zunyi, Guizhou, China
- Department of Forensic Medicine, Zunyi Medical University, Zunyi, Guizhou, China
| | - Lilan Yao
- Center of Forensic Expertise, Affiliated hospital of Zunyi Medical University, Zunyi, Guizhou, China
- Department of Forensic Medicine, Zunyi Medical University, Zunyi, Guizhou, China
| | - Haidong Liu
- Criminal Investigation Detachment, Jining City Public Security Bureau, Jining, Shandong, China
| | - Hao Zhang
- Department of Forensic Medicine, Zunyi Medical University, Zunyi, Guizhou, China
| | - Jian Wu
- Center of Forensic Expertise, Affiliated hospital of Zunyi Medical University, Zunyi, Guizhou, China
- Department of Forensic Medicine, Zunyi Medical University, Zunyi, Guizhou, China
| | - Guanglin He
- Institute of Forensic Medicine, West China School of Basic Science and Forensic Medicine, Sichuan University, Chengdu, Sichuan, China
| | - Pengyu Chen
- Center of Forensic Expertise, Affiliated hospital of Zunyi Medical University, Zunyi, Guizhou, China
- Department of Forensic Medicine, Zunyi Medical University, Zunyi, Guizhou, China
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11
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Sreekumar R, Thekkatavan A, Shrivastava P, Kumawat RK, Dixit S, Chaubey G. Allelic frequency database of 15 polymorphic autosomal STRs in the Malayalam-speaking population of Kerala, India. Int J Legal Med 2020; 134:1679-1681. [PMID: 32239318 DOI: 10.1007/s00414-020-02286-0] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/24/2019] [Accepted: 03/24/2020] [Indexed: 11/28/2022]
Abstract
In this study, we assessed and established an allelic frequency database of Malayalam-speaking population of south western Indian state Kerala, using 15 polymorphic short tandem repeats (STRs) genetic markers. For this study, 464 unrelated healthy individuals were randomly selected following the ethical standards. The most polymorphic and most discriminating locus was D2S1338, with a value of 0.860 and 0.968, respectively. The range of heterozygosity extended from a minimum of 0.668 (TH01) to a maximum of 0.847 (D2S1338). The combined discrimination power (CPD) and combined exclusion power (CPE) were 1 and 0.999997861, respectively, for all 15 autosomal STR loci under study. The combined probability of match (CPM) and combined paternity index (CPI) for all 15 autosomal STR loci were found to be 9.85 × 10-19 and 4.18 × 105, respectively.
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Affiliation(s)
- R Sreekumar
- State Forensic Science Laboratory, Thiruvananthapuram, Kerala, 695010, India
| | - Ajeesh Thekkatavan
- Biology Division, Regional Forensic Science Laboratory, Kannur, Kerala, 670002, India
| | - Pankaj Shrivastava
- DNA Fingerprinting Unit, State Forensic Science Laboratory, Department of Home (Police), Government of MP, Sagar, 470001, India.
| | - R K Kumawat
- DNA Division, State Forensic Science Laboratory, Jaipur, Rajasthan, 302016, India
| | - Shivani Dixit
- DNA Fingerprinting Unit, State Forensic Science Laboratory, Department of Home (Police), Government of MP, Sagar, 470001, India
| | - Gyaneshwer Chaubey
- Cytogenetics Laboratory, Department of Zoology, Banaras Hindu University, Varanasi, UP, India
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12
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Kumar A, Kumar R, Kumawat RK, Tilawat A, Shrivastava P, Chaubey G. Genetic variation (population database) at 20 autosomal STR loci in the population of Rajasthan (north-western India). Int J Legal Med 2020; 134:1667-1669. [PMID: 32211958 DOI: 10.1007/s00414-020-02280-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2019] [Accepted: 03/13/2020] [Indexed: 10/24/2022]
Abstract
To explore the genetic diversity and establish the allelic database of the population of Rajasthan, we assessed 571 randomly selected unrelated healthy individuals residing in the state. Blood samples of the selected individuals were collected with the compliance of ethical standards. Locus Penta E was observed to be the most polymorphic (0.908), whereas locus TPOX was observed to be the least polymorphic (0.639). The observed heterozygosity ranged from a minimum of 0.667 (TPOX) to a maximum of 0.925 (Penta E). The combined value of the power of discrimination (PD) and power of exclusion (PE) for all the studied 20 short tandem repeat (STR) loci were observed to be 1 and 0.999999997560235 respectively. The combined values of matching probability (PM) and paternity index (PI) for all the studied 20 STR loci were 7 × 10-26 and 4 × 108 respectively. The obtained genetic data are useful for forensic DNA applications and expected to enrich the genetic database of Indian populations.
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Affiliation(s)
- Anand Kumar
- DNA Division, State Forensic Science Laboratory, Jaipur, Rajasthan, 302016, India.
| | - Rajesh Kumar
- DNA Division, State Forensic Science Laboratory, Jaipur, Rajasthan, 302016, India.
| | - R K Kumawat
- DNA Division, State Forensic Science Laboratory, Jaipur, Rajasthan, 302016, India.
| | - Ajay Tilawat
- DNA Division, State Forensic Science Laboratory, Jaipur, Rajasthan, 302016, India
| | - Pankaj Shrivastava
- DNA Fingerprinting Unit, State Forensic Science Laboratory, Department of Home (Police), Govt. of MP, Sagar, 470001, India
| | - Gyaneshwer Chaubey
- Cytogenetics Laboratory, Department of Zoology, Banaras Hindu University, Varanasi, Uttar Pradesh, India
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13
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Wang Y, Chen F, Fu Y, Zhang S, Zhang H, Lai M, Xu E. Genetic polymorphisms of 19 autosomal STR loci in 3510 individuals from Han population of Zhejiang province, Southeast China. Forensic Sci Int 2019; 306:110045. [PMID: 31751867 DOI: 10.1016/j.forsciint.2019.110045] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2019] [Revised: 10/11/2019] [Accepted: 11/01/2019] [Indexed: 12/01/2022]
Affiliation(s)
- Yan Wang
- Department of Pathology and Pathophysiology, Key Laboratory of Disease Proteomics of Zhejiang Province, Zhejiang University School of Medicine, Hangzhou 310058, PR China
| | - Fang Chen
- Department of Pathology and Pathophysiology, Key Laboratory of Disease Proteomics of Zhejiang Province, Zhejiang University School of Medicine, Hangzhou 310058, PR China
| | - Ying Fu
- Forensic Center, Zhejiang University School of Medicine, Hangzhou 310029, PR China
| | - Shuai Zhang
- Forensic Center, Zhejiang University School of Medicine, Hangzhou 310029, PR China
| | - Honghe Zhang
- Department of Pathology and Pathophysiology, Key Laboratory of Disease Proteomics of Zhejiang Province, Zhejiang University School of Medicine, Hangzhou 310058, PR China
| | - Maode Lai
- Department of Pathology and Pathophysiology, Key Laboratory of Disease Proteomics of Zhejiang Province, Zhejiang University School of Medicine, Hangzhou 310058, PR China.
| | - Enping Xu
- Department of Pathology and Pathophysiology, Key Laboratory of Disease Proteomics of Zhejiang Province, Zhejiang University School of Medicine, Hangzhou 310058, PR China; Forensic Center, Zhejiang University School of Medicine, Hangzhou 310029, PR China.
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14
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Chen P, Wu J, Luo L, Gao H, Wang M, Zou X, Li Y, Chen G, Luo H, Yu L, Han Y, Jia F, He G. Population Genetic Analysis of Modern and Ancient DNA Variations Yields New Insights Into the Formation, Genetic Structure, and Phylogenetic Relationship of Northern Han Chinese. Front Genet 2019; 10:1045. [PMID: 31737039 PMCID: PMC6832103 DOI: 10.3389/fgene.2019.01045] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2019] [Accepted: 09/30/2019] [Indexed: 11/30/2022] Open
Abstract
Modern East Asians derived from the admixture of aborigines and incoming farmers expanding from Yellow and Yangtze River Basins. Distinct genetic differentiation and subsequent admixture between Northeast Asians and Southeast Asians subsequently evidenced by the mitochondrial DNA, Y-chromosomal variations, and autosomal SNPs. Recently, population geneticists have paid more attention to the genetic polymorphisms and background of southern-Han Chinese and southern native populations. The genetic legacy of northern-Han remains uncharacterized. Thus, we performed this comprehensive population genetic analyses of modern and ancient genetic variations aiming to yield new insight into the formation of modern Han, and the genetic ancestry and phylogenetic relationship of the northern-Han Chinese population. We first genotyped 25 forensic associated markers in 3,089 northern-Han Chinese individuals using the new-generation of the Huaxia Platinum System. And then we performed the first meta-analysis focused on the genetic affinity between Asian Neolithic∼Iron Age ancients and modern northern-Han Chinese by combining mitochondrial variations in 417 ancient individuals from 13 different archeological sites and 812 modern individuals, as well as Y-chromosomal variations in 114 ancient individuals from 12 Neolithic∼Iron Age sites and 2,810 modern subjects. We finally genotyped 643,897 genome-wide nucleotide polymorphisms (SNPs) in 20 Shanxi Han individuals and combined with 1,927 modern humans and 40 Eurasian ancient genomes to explore the genetic structure and admixture of northern-Han Chinese. We addressed genetic legacy, population structure and phylogenetic relationship of northern-Han Chinese via various analyses. Our population genetic results from five different reference datasets indicated that Shanxi Han shares a closer phylogenetic relationship with northern-neighbors and southern ethnically close groups than with Uyghur and Tibetan. Genome-wide variations revealed that modern northern-Han derived their ancestry from Yakut-related population (25.2%) and She-related population (74.8%). Summarily, the genetic mixing that led to the emergence of a Han Chinese ethnicity occurred at a very early period, probably in Neolithic times, and this mixing involved an ancient Tibeto-Burman population and a local pre-Sinitic population, which may have been linguistically Altaic.
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Affiliation(s)
- Pengyu Chen
- Center of Forensic Expertise, Affiliated Hospital of Zunyi Medical University, Zunyi, China.,Department of Forensic Medicine, Zunyi Medical University, Zunyi, China
| | - Jian Wu
- Center of Forensic Expertise, Affiliated Hospital of Zunyi Medical University, Zunyi, China.,Department of Forensic Medicine, Zunyi Medical University, Zunyi, China
| | - Li Luo
- Center of Forensic Expertise, Affiliated Hospital of Zunyi Medical University, Zunyi, China.,Department of Forensic Medicine, Zunyi Medical University, Zunyi, China
| | - Hongyan Gao
- Center of Forensic Expertise, Affiliated Hospital of Zunyi Medical University, Zunyi, China.,Department of Forensic Medicine, Zunyi Medical University, Zunyi, China
| | - Mengge Wang
- Institute of Forensic Medicine, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu, China
| | - Xing Zou
- Institute of Forensic Medicine, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu, China
| | - Yingxiang Li
- Department of Bioinformatics, WeGene, Shenzhen, China
| | - Gang Chen
- Department of Bioinformatics, WeGene, Shenzhen, China
| | - Haibo Luo
- Department of Forensic Medicine, Zunyi Medical University, Zunyi, China
| | - Limei Yu
- Key Laboratory of Cell Engineering in Guizhou Province, Affiliated Hospital of Zunyi Medical University, Zunyi, China
| | - Yanyan Han
- Department of Nutrition and Food Hygiene, School of Public Health, Zunyi Medical University, Zunyi, China
| | - Fuquan Jia
- Department of Forensic Medicine, Inner Mongolia Medical University, Hohhot, China
| | - Guanglin He
- Institute of Forensic Medicine, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu, China
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15
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Sheng X, Wang Y, Zhang J, Chen L, Lin Y, Zhao Z, Li C, Zhang S. Forensic investigation of 23 autosomal STRs and application in Han and Mongolia ethnic groups. Forensic Sci Res 2018; 3:138-144. [PMID: 30483662 PMCID: PMC6197138 DOI: 10.1080/20961790.2018.1428782] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2017] [Accepted: 01/12/2018] [Indexed: 12/03/2022] Open
Abstract
A forensic validation study of the Early Access Huaxia™ Platinum Polymerase Chain Reaction (PCR) kit was completed to document the performance capabilities and limitations. The genotyping of DNA samples was consistent across a large range of template DNA concentrations, with complete profiles obtained at 0.125 ng; however, no more than 2 mm × 1.2 mm punches of samples would be recommended for direct amplification. The size precision and accuracy test revealed the genotyping ability; while consistent results were obtained when comparing the kit with other commercially available systems. In addition, the whole PCR amplification can finish within approximately 45 min, making the system suitable for fast-detection. However, only partial profiles may be obtained with challenging samples, including DNA stored on Foam-Tipped Applicators (FTA) cards or some case samples. For the forensic application in ethnic groups, a total of 282 and 229 alleles were obtained in Han and Mongolia, respectively. Since the 23 short tandem repeats were independent from each other, the cumulative power of exclusion in duos was 0.999 999 157 188 and the cumulative power of exclusion in trios was 0.999 999 999 859 in the Han group while the cumulative power of exclusion in duos (CPEduo) was 0.999 998 848 26 and cumulative power of exclusion in trios (CPEtrio) was 0.999 999 999 79 in the Mongolia group. And good internal consistency was found between the two investigated groups and the Sichuan Han, Hui, Tibetan and Uygur according to available reference data.
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Affiliation(s)
- Xiang Sheng
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science, Shanghai, China.,Department of Forensic Medicine, Medical College of Soochow University, Suzhou, China
| | - Yali Wang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science, Shanghai, China.,Department of Forensic Medicine, Inner Mongolia Medical University, Hohhot, China
| | - Jiashuo Zhang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science, Shanghai, China.,Department of Forensic Medicine, Medical College of Soochow University, Suzhou, China
| | - Liqin Chen
- Department of Forensic Medicine, Inner Mongolia Medical University, Hohhot, China
| | - Yuan Lin
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science, Shanghai, China
| | - Zhenmin Zhao
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science, Shanghai, China
| | - Chengtao Li
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science, Shanghai, China
| | - Suhua Zhang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Science, Shanghai, China
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16
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Xing J, Adnan A, Rakha A, Kasim K, Noor A, Xuan J, Zhang X, Yao J, McNevin D, Wang B. Genetic analysis of 12 X-STRs for forensic purposes in Liaoning Manchu population from China. Gene 2018; 683:153-158. [PMID: 30326331 DOI: 10.1016/j.gene.2018.10.020] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2018] [Revised: 10/04/2018] [Accepted: 10/09/2018] [Indexed: 11/29/2022]
Abstract
X-chromosomal short tandem repeats (X-STRs) have been widely used in forensic practice involving complicated cases of kinship and also play an increasingly important role in population genetics. X-STRs have been studied in regional populations of China but there is a lack of data for the Manchu population. In this study, we have investigated the forensic genetic properties of 12 X-STRs in the Investigator Argus X-12 Kit (QIAGEN, Hilden, Germany) in 772 Manchu (male = 514, female = 258) individuals from the Xiuyan and Huanren Manchu autonomous counties of Liaoning province. We observed a total of 166 alleles at 12 X-STR loci with allele frequencies ranging from 0.001295to 0.615285. The most polymorphic locus was DXS10135 with 24 alleles while DXS7423 was the least polymorphic locus with 5 alleles. We found significant linkage disequilibrium (LD) between the following pairs of markers for males: DXS10103/DXS10101, DXS10135/DXS10146, DXS10101/DXS10148, DXS10135/DXS10148, DXS7423/DXS10148 and DXS10079/DXS10148. For females, LD was only observed for DXS10103/DXS10101. The combined power of discrimination was 0.9999999979699 for males and 0.999999999999998 for females. The numbers of observed haplotypes in Manchu males were 310, 172, 182 and 172 in four linkage groups; LG1, LG2, LG3 and LG4, respectively, however, these linkage groups did not form stable haplotypes as indicated by linkage equilibrium (LE) of STRs within the groups and significant LD between the groups. This study represents an extensive report on X-STR marker variation in the Manchu population for forensic applications and population genetic studies.
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Affiliation(s)
- Jiaxin Xing
- Department of Forensic Genetics, School of Forensic Medicine, China Medical University Shenyang, Liaoning 110122, China
| | - Atif Adnan
- Department of Forensic Genetics, School of Forensic Medicine, China Medical University Shenyang, Liaoning 110122, China.
| | - Allah Rakha
- Department of Forensic Science, University of Health Sciences, Lahore 54000, Pakistan
| | - Kadirya Kasim
- Department of Forensic Genetics, School of Forensic Medicine, China Medical University Shenyang, Liaoning 110122, China
| | - Anam Noor
- Department of Forensic Science, University of Health Sciences, Lahore 54000, Pakistan
| | - Jinfeng Xuan
- Department of Forensic Genetics, School of Forensic Medicine, China Medical University Shenyang, Liaoning 110122, China
| | - Xicen Zhang
- Department of Forensic Genetics, School of Forensic Medicine, China Medical University Shenyang, Liaoning 110122, China
| | - Jun Yao
- Department of Forensic Genetics, School of Forensic Medicine, China Medical University Shenyang, Liaoning 110122, China
| | - Dennis McNevin
- Centre for Forensic Science, School of Mathematical and Physical Sciences, University of Technology Sydney, Australia
| | - Baojie Wang
- Department of Forensic Genetics, School of Forensic Medicine, China Medical University Shenyang, Liaoning 110122, China.
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17
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Sun L, Shi K, Tan L, Zhang Q, Fu L, Zhang X, Fu G, Li S, Cong B. Analysis of genetic polymorphisms and mutations at 19 STR loci in Hebei Han population. Forensic Sci Int Genet 2017; 31:e50-e51. [PMID: 28818430 DOI: 10.1016/j.fsigen.2017.07.016] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2017] [Revised: 07/22/2017] [Accepted: 07/31/2017] [Indexed: 01/06/2023]
Affiliation(s)
- Lijuan Sun
- Department of Forensic Medicine, Hebei Medical University, Hebei Key Laboratory of Forensic Medicine, No.361 Zhongshan East Road, Shijiazhuang, Hebei 050017, PR China
| | - Ke Shi
- Department of Forensic Medicine, Hebei Medical University, Hebei Key Laboratory of Forensic Medicine, No.361 Zhongshan East Road, Shijiazhuang, Hebei 050017, PR China
| | - Lu Tan
- Department of Forensic Medicine, Hebei Medical University, Hebei Key Laboratory of Forensic Medicine, No.361 Zhongshan East Road, Shijiazhuang, Hebei 050017, PR China
| | - Qian Zhang
- Department of Forensic Medicine, Hebei Medical University, Hebei Key Laboratory of Forensic Medicine, No.361 Zhongshan East Road, Shijiazhuang, Hebei 050017, PR China
| | - Lihong Fu
- Department of Forensic Medicine, Hebei Medical University, Hebei Key Laboratory of Forensic Medicine, No.361 Zhongshan East Road, Shijiazhuang, Hebei 050017, PR China
| | - Xiaojing Zhang
- Department of Forensic Medicine, Hebei Medical University, Hebei Key Laboratory of Forensic Medicine, No.361 Zhongshan East Road, Shijiazhuang, Hebei 050017, PR China
| | - Guangping Fu
- Department of Forensic Medicine, Hebei Medical University, Hebei Key Laboratory of Forensic Medicine, No.361 Zhongshan East Road, Shijiazhuang, Hebei 050017, PR China
| | - Shujin Li
- Department of Forensic Medicine, Hebei Medical University, Hebei Key Laboratory of Forensic Medicine, No.361 Zhongshan East Road, Shijiazhuang, Hebei 050017, PR China.
| | - Bin Cong
- Department of Forensic Medicine, Hebei Medical University, Hebei Key Laboratory of Forensic Medicine, No.361 Zhongshan East Road, Shijiazhuang, Hebei 050017, PR China.
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18
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Liu Y, Liu Y, Guo J, Fu X, Wang Z, Liu Y, Cai J, Zha L. Genetic polymorphism of 29 STR loci in the Hunan Han population from China. Forensic Sci Res 2017; 4:351-353. [PMID: 32002495 PMCID: PMC6968709 DOI: 10.1080/20961790.2017.1306430] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022] Open
Affiliation(s)
- Yanfang Liu
- Department of Forensic Science, School of Basic Medical Sciences, Central South University, Changsha, China
| | - Ying Liu
- Department of Oral and Maxillofacial Surgery, Xiangya Stomatological Hospital, Central South University, Changsha, China
| | - Juanjuan Guo
- Department of Forensic Science, School of Basic Medical Sciences, Central South University, Changsha, China
| | - Xiaoliang Fu
- Department of Forensic Science, School of Basic Medical Sciences, Central South University, Changsha, China
| | - Zhihui Wang
- Department of Forensic Science, School of Basic Medical Sciences, Central South University, Changsha, China
| | - Yujie Liu
- Department of Trade and Economic, School of Economy and Trade, Hunan University of Commerce, Changsha, China
| | - Jifeng Cai
- Department of Forensic Science, School of Basic Medical Sciences, Central South University, Changsha, China
| | - Lagabaiyila Zha
- Department of Forensic Science, School of Basic Medical Sciences, Central South University, Changsha, China
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19
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Zou X, Li Y, Li P, Nie Q, Wang T, Hu Y, Zhu Y, Li J, Tang R. Genetic polymorphisms for 19 autosomal STR loci of Chongqing Han ethnicity and phylogenetic structure exploration among 28 Chinese populations. Int J Legal Med 2017; 131:1539-1542. [PMID: 28342005 DOI: 10.1007/s00414-017-1577-7] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2017] [Accepted: 03/16/2017] [Indexed: 10/19/2022]
Abstract
The allele frequencies and forensic statistical parameters of 19 autosomal short tandem repeat (STR) loci (D8S1179, D21S11, D7S820, CSF1P0, D3S1358, THOl, D13S317, D16S539, D2S1338, D19S433, vWA, TPOX, D18S51, D5S818, FGA, D6S1043, Penta D, Penta E, and D12S391) included in the Goldeneye™ DNA ID system 20A kit were obtained in 671 Chinese Han individuals residing in Chongqing, Southwest China. All 19 STR loci were identified in agreement with the Hardy-Weinberg equilibrium. A total of 238 alleles were observed with corresponding allele frequencies that varied from 0.0007 to 0.5119. The combined power of discrimination and the combined probability of exclusion for 19 STR loci in the Chongqing Han population were 0.99999999999999999999998954 and 0.99999998387, respectively. The findings indicated that the 19 autosomal STR loci were highly polymorphic in the Chongqing Han population and can be used as a powerful tool in personal identification and parentage testing. Our genetic study enriched the Chinese local forensic reference database. Population comparisons and phylogenetic analyses revealed that genetic heterogeneity widely existed among the Chongqing Han, Xinjiang Uyghur, and Kazakh populations as well as demonstrated that genetic similarity was tightly associated with those of close geographic origin or of the same ethnic origin.
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Affiliation(s)
- Xing Zou
- Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University, Chongqing, 400016, China
| | - YongGuo Li
- Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University, Chongqing, 400016, China
| | - Ping Li
- Department of Forensic Genetics, Institute of Forensic Science, Guangzhou Public Security Bureau, Guangzhou, Guangdong, 510000, China
| | - QianYun Nie
- Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University, Chongqing, 400016, China
| | - Ting Wang
- Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University, Chongqing, 400016, China
| | - Yue Hu
- Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University, Chongqing, 400016, China
| | - Ying Zhu
- Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University, Chongqing, 400016, China
| | - JianBo Li
- Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University, Chongqing, 400016, China
| | - RenKuan Tang
- Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University, Chongqing, 400016, China.
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20
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Population genetic analyses of 20 autosomal STR loci in Chinese Han population from Tianjin in Northern China. Forensic Sci Int Genet 2017; 27:184-185. [DOI: 10.1016/j.fsigen.2016.11.010] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2016] [Revised: 10/18/2016] [Accepted: 11/29/2016] [Indexed: 01/20/2023]
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21
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He GL, Chen PY, Gao B, Han YY, Zou X, Song F, Yan J, Hou YP. Phylogenetic analysis among 27 Chinese populations and genetic polymorphisms of 20 autosomal STR loci in a Chinese Uyghur ethnic minority group. AUST J FORENSIC SCI 2017. [DOI: 10.1080/00450618.2016.1275793] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Affiliation(s)
- Guang-Lin He
- Department of Forensic Genetics, West China School of Basic Science and Forensic Medicine, Sichuan University (West China University of Medical Sciences) , Chengdu, China
| | - Peng-Yu Chen
- Center of Forensic Expertise, Affiliated Hospital of Zunyi Medical University , Zunyi, China
- Department of Forensic Medicine, Zunyi Medical University , Zunyi, China
| | - Bo Gao
- Institute of Forensic Science, Yili Public Security Bureau of Xinjiang , Kuitun, China
| | - Yan-Yan Han
- Department of Nutrition and Food Hygiene, School of Public Health, Zunyi Medical University , Zunyi, China
| | - Xing Zou
- Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University , Chongqing, China
| | - Feng Song
- Department of Forensic Genetics, West China School of Basic Science and Forensic Medicine, Sichuan University (West China University of Medical Sciences) , Chengdu, China
| | - Jing Yan
- Department of Forensic Genetics, West China School of Basic Science and Forensic Medicine, Sichuan University (West China University of Medical Sciences) , Chengdu, China
| | - Yi-Ping Hou
- Department of Forensic Genetics, West China School of Basic Science and Forensic Medicine, Sichuan University (West China University of Medical Sciences) , Chengdu, China
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22
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Feng Z, Xia M, Bao H, Wang L, Jin L, Li L, Li S. Genetic polymorphisms of 18 short tandem repeat loci in 3550 individuals from the Han population of Changchun, Northeast China. Int J Legal Med 2016; 130:1481-1483. [DOI: 10.1007/s00414-016-1339-y] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2016] [Accepted: 02/15/2016] [Indexed: 10/22/2022]
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23
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Yin C, Ji Q, Li K, Mu H, Zhu B, Yan J, Yu Y, Wang J, Chen F. Analysis of 19 STR loci reveals genetic characteristic of eastern Chinese Han population. Forensic Sci Int Genet 2014; 14:108-9. [PMID: 25450780 DOI: 10.1016/j.fsigen.2014.09.015] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2014] [Revised: 09/08/2014] [Accepted: 09/15/2014] [Indexed: 11/17/2022]
Affiliation(s)
- Caiyong Yin
- Department of Forensic Medicine, Nanjing Medical University, Nanjing, Jiangsu 210029, China
| | - Qiang Ji
- Department of Forensic Medicine, Nanjing Medical University, Nanjing, Jiangsu 210029, China.
| | - Kai Li
- Department of Forensic Medicine, Nanjing Medical University, Nanjing, Jiangsu 210029, China
| | - Haofang Mu
- Center of Forensic Sciences, Beijing Genomics Institute, Beijing 101300, China
| | - Bofeng Zhu
- School of Medicine, Xi'an Jiaotong University, Xi'an 710061, China
| | - Jiangwei Yan
- Key Laboratory of Genome Sciences, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China
| | - Yanfang Yu
- Department of Forensic Medicine, Nanjing Medical University, Nanjing, Jiangsu 210029, China
| | - Jianwen Wang
- Department of Forensic Medicine, Nanjing Medical University, Nanjing, Jiangsu 210029, China
| | - Feng Chen
- Department of Forensic Medicine, Nanjing Medical University, Nanjing, Jiangsu 210029, China; Vascular Biology Center, Georgia Regents University, Augusta, GA 30912, United States.
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24
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Yuan JY, Wang XY, Shen CM, Liu WJ, Yan JW, Wang HD, Pu HW, Wang YL, Yang G, Zhang YD, Meng HT, Jing H, Zhu BF. Genetic profile characterization and population study of 21 autosomal STR in Chinese Kazak ethnic minority group. Electrophoresis 2013; 35:503-10. [PMID: 24132724 DOI: 10.1002/elps.201300398] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2013] [Revised: 10/05/2013] [Accepted: 10/07/2013] [Indexed: 11/08/2022]
Affiliation(s)
- Jing-Yi Yuan
- The Department of Dermatology, The Second Affiliated Hospital of Medical School of Xi'an Jiaotong University; Xi'an P. R. China
| | - Xiao-Ye Wang
- Ninth Hospital of Xi'an, Ninth Affiliated Hospital of Medical College of Xi'an Jiaotong University; Xi'an P. R. China
| | | | - Wen-Juan Liu
- School of Medicine; Xi'an Jiaotong University; Xi'an P. R. China
| | - Jiang-Wei Yan
- Beijing Institute of Genomics; Chinese Academy of Sciences; Beijing P. R. China
| | - Hong-Dan Wang
- Henan Provincial People's Hospital; People's Hospital of Zhengzhou University; Zhengzhou P. R. China
| | - Hong-Wei Pu
- Clinical Medical Research Institute; First Affiliated Hospital of Xinjiang Medical University; Urumqi P. R. China
| | - Yan-Li Wang
- First Affiliated Hospital of Medical School of Xi'an Jiaotong University; Xi'an P. R. China
| | - Guang Yang
- Vascular Biology Center; Georgia Health Sciences University; Augusta GA USA
| | - Yu-Dang Zhang
- School of Medicine; Xi'an Jiaotong University; Xi'an P. R. China
| | - Hao-Tian Meng
- School of Medicine; Xi'an Jiaotong University; Xi'an P. R. China
| | - Hang Jing
- School of Medicine; Xi'an Jiaotong University; Xi'an P. R. China
| | - Bo-Feng Zhu
- School of Medicine; Xi'an Jiaotong University; Xi'an P. R. China
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