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Mohammad AK, Ismael B, Ali KA, Albarzinji BM. Genetic Polymorphisms and Forensic Parameters of Thirteen X-Chromosome Markers in the Iraqi Kurdish Population. J Nucleic Acids 2024; 2024:9125094. [PMID: 38720934 PMCID: PMC11074882 DOI: 10.1155/2024/9125094] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2023] [Revised: 03/13/2024] [Accepted: 03/16/2024] [Indexed: 05/12/2024] Open
Abstract
X-chromosome short tandem repeat (X-STR) tools are crucial in forensic genetics and human population fields. This study presents the development and validation of a multiplex STR system consisting of thirteen X-STR loci and amelogenin specific to the human X chromosome. The system was optimized and tested for species specificity, sensitivity, stability, and DNA mixture using 9947A female and 9948 male control genomic DNA. The amplified products of nine loci were sequenced to determine the correct amplicon length. Allele frequencies, forensic parameters, mean exclusion chance (MEC), linkage disequilibrium (LD), and allelic patterns were investigated using DNA samples from 225 (159 male, 66 female) unrelated Kurdish individuals who live in Sulaymaniyah province in the Kurdistan region of Iraq. The most informative locus in the Kurdish population was GATA172D05, while the least informative locus was DXS10164. The results demonstrated that the 13 X-STR system is highly polymorphic and sensitive for forensic DNA identification. Genetic distance-based clustering, metric multidimensional scaling (MDS), and correlation matrix were analyzed for 19 ethnic groups and populations. The phylogenetic tree showed that populations clustered according to their ethnogeographic relationships. The findings revealed genetic links between the Iraqi Kurds, Caucasians, Iraqi Arabs, United States (U.S.) ethnic groups, and Chinese populations.
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Affiliation(s)
- Ara K. Mohammad
- Molecular Biology Department, Kurdistan Institution for Strategic Studies and Scientific Research (KISSR), Sulaymaniyah, Iraq
| | - Bahez Ismael
- Molecular Biology Department, Kurdistan Institution for Strategic Studies and Scientific Research (KISSR), Sulaymaniyah, Iraq
| | - Khanzad Ahmed Ali
- Molecular Biology Department, Kurdistan Institution for Strategic Studies and Scientific Research (KISSR), Sulaymaniyah, Iraq
| | - Balnd M. Albarzinji
- Molecular Biology Department, Kurdistan Institution for Strategic Studies and Scientific Research (KISSR), Sulaymaniyah, Iraq
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2
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Zeye MMJ, Ouedraogo SY, Bado P, Zoure AA, Djigma FW, Wu X, Simpore J. Forensic autosomal and gonosomal short tandem repeat marker reference database for populations in Burkina Faso. Sci Rep 2024; 14:7369. [PMID: 38548827 PMCID: PMC10979005 DOI: 10.1038/s41598-024-58179-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2023] [Accepted: 03/26/2024] [Indexed: 04/01/2024] Open
Abstract
Tandem repeat genetic profiles used in forensic applications varies between populations. Despite the diversity and security issues in the Sahel that require the identification of victims (soldiers and civilians), Burkina Faso (BF) remains understudied. To fill this information gap, 396 unrelated individuals from BF were genotyped using a MICROREADER 21 ID System kit. All 20 short tandem repeat (STR) loci tested passed the Hardy-Weinberg equilibrium (HWE) test. The combined powers of exclusion for duos (CPE duos) and trios (CPE trios) for the 20 tested loci were 0.9999998 and 0.9999307, respectively. The probability that two individuals would share the same DNA profiles among the BF population was 9.80898 × 10-26. For the X-chromosome STR analysis, 292 individuals were included in this study using a MICROREADER 19X Direct ID System kit. Among the 19 loci, no significant deviations from HWE test were observed in female samples after Bonferroni correction (p < 0.05/19 = 0.0026), except for loci GATA165B12 and DXS7423. The results showed that the combined power of exclusion (CPE) and the combined power of discrimination in females (CPDF) and males (CPDM) were 0.999999760893, 0.999999999992, and 1, respectively. Comparison with other African sub-populations showed that geographical proximity is a reliable indicator of genetic relatedness.
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Affiliation(s)
- Moutanou Modeste Judes Zeye
- Department of Medical Parasitology, School of Basic Medical Sciences, Central South University, No. 172, Tongzipo Road, Changsha, 410013, Hunan, People's Republic of China
- Laboratory of Molecular Biology and Genetics (LMBG) (Labiogene), University Joseph KI-ZERBO, CERBA/LABIOGENE, 01, BP 364, Ouagadougou 01, Burkina Faso
- Human Evolution, Department of Organismal Biology, Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden
| | - Serge Yannick Ouedraogo
- Department of Oncology, School of Clinical Medicine, Shandong Cancer Hospital, Shandong First Medical University, Shandong Academy of Medical Sciences, 6699 Qingdao Road, Huaiyin District, Jinan, 250000, Shandong, People's Republic of China
- Laboratory of Molecular Biology and Genetics (LMBG) (Labiogene), University Joseph KI-ZERBO, CERBA/LABIOGENE, 01, BP 364, Ouagadougou 01, Burkina Faso
| | - Prosper Bado
- Laboratory of Molecular Biology and Genetics (LMBG) (Labiogene), University Joseph KI-ZERBO, CERBA/LABIOGENE, 01, BP 364, Ouagadougou 01, Burkina Faso
| | - Abdou Azaque Zoure
- Department of Biomedical and Public Health, Research Institute of Health Sciences (IRSS/CNRST), 03 BP 7192, Ouagadougou 01, Burkina Faso
| | - Florencia W Djigma
- Laboratory of Molecular Biology and Genetics (LMBG) (Labiogene), University Joseph KI-ZERBO, CERBA/LABIOGENE, 01, BP 364, Ouagadougou 01, Burkina Faso
| | - Xiang Wu
- Department of Medical Parasitology, School of Basic Medical Sciences, Central South University, No. 172, Tongzipo Road, Changsha, 410013, Hunan, People's Republic of China.
| | - Jacques Simpore
- Laboratory of Molecular Biology and Genetics (LMBG) (Labiogene), University Joseph KI-ZERBO, CERBA/LABIOGENE, 01, BP 364, Ouagadougou 01, Burkina Faso.
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3
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Mejri A, Baeta M, Al-Haj-Taib R, Herrera RJ, Benammar-Elgaaied A, de Pancorbo MM, Fadhlaoui-Zid K. Genetic polymorphisms of 17 X-STR loci in two Tunisian populations from Sousse and Makthar. Ann Hum Biol 2022; 49:342-347. [PMID: 36255378 DOI: 10.1080/03014460.2022.2136755] [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
BACKGROUND Tunisia has a complex demographic history of migrations from within Africa, Europe, and the Middle East. However, only one population study based on X-STR markers has been reported so far. AIM To investigate the genetic polymorphisms of 17 X-STRs in two Tunisian populations from the cities of Sousse and Makthar, and to reveal the genetic relationships with other reference populations. SUBJECTS AND METHODS A total of 194 unrelated healthy individuals were analysed for 17 X-STR markers. RESULTS Our results indicate that DXS6809 is the most polymorphic locus, whereas DXS6807 is the least informative marker in the populations of Sousse and Makthar. In addition, forensic statistical parameters, such as the power of discrimination in males and females, as well as the mean of exclusion in duos and trios, reveal that the panel of 17 X-STRs is highly informative and useful in different forensic applications. Overall, pairwise genetic distances (Fst) and non-metric MDS plots demonstrate clustering of different populations according to their geographic locations and their historical relationships. CONCLUSION Overall, the study of X-STR markers of the Tunisian populations can help to promote the establishment of a forensic DNA reference database in Tunisia and provide reference for future anthropological research.
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Affiliation(s)
- Abir Mejri
- Laboratory of Genetics, Immunology, and Human Pathologies, Faculty of Science of Tunis, University Tunis El Manar, Tunis, Tunisia
| | - Miriam Baeta
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU, Vitoria-Gasteiz, Spain
| | - Rim Al-Haj-Taib
- Laboratory of Genetics, Immunology, and Human Pathologies, Faculty of Science of Tunis, University Tunis El Manar, Tunis, Tunisia
| | - Rene J Herrera
- Department of Molecular Biology, Colorado College, Colorado Springs, CO, USA
| | - Amel Benammar-Elgaaied
- Laboratory of Genetics, Immunology, and Human Pathologies, Faculty of Science of Tunis, University Tunis El Manar, Tunis, Tunisia
| | - Marian M de Pancorbo
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU, Vitoria-Gasteiz, Spain
| | - Karima Fadhlaoui-Zid
- Laboratory of Genetics, Immunology, and Human Pathologies, Faculty of Science of Tunis, University Tunis El Manar, Tunis, Tunisia.,Department of Biology, College of Science, Taibah University, Al Madinah Al Monawarah, Saudi Arabia.,Higher Institute of Biotechnology of Beja, University of Jendouba, Beja, Tunisia
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4
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Forensic characteristic of 19 X-STRs in Chuanqing, Tujia and Yi groups from Guizhou province and their genetic relationships with other reference populations. GENE REPORTS 2022. [DOI: 10.1016/j.genrep.2022.101553] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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5
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Baeta M, Prieto-Fernández E, Núñez C, Kleinbielen T, Villaescusa P, Palencia-Madrid L, Alvarez-Gila O, Martínez-Jarreta B, de Pancorbo MM. Study of 17 X-STRs in Native American and Mestizo populations of Central America for forensic and population purposes. Int J Legal Med 2021; 135:1773-1776. [PMID: 33742257 DOI: 10.1007/s00414-021-02536-9] [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: 11/24/2020] [Accepted: 02/10/2021] [Indexed: 11/30/2022]
Abstract
In the present work, an extensive analysis of the X-chromosomal pool of Native American and Mestizo groups of Central America (Guatemala, El Salvador, Nicaragua, and Panama) has been carried out. Allele and haplotype frequency databases, as well as other forensic parameters for these populations, are presented. The admixture analysis supports the tri-hybrid composition in terms of ancestry in the Mestizo populations, with a predominant Native American contribution (54-69%), followed by European (19-28%) and African contributions (12-19%). Pairwise FST genetic distances highlight the genetic proximity between the northernmost Central American populations, especially among admixed populations. The unique and complex nature of this area, where populations from different origins intercrossed, as well as the informativity of X-STR data, highpoint the great interest of this genetic study. Furthermore, the X-chromosome databases for Central American populations here provided will be not only useful for forensic and population purposes not only in the target countries but also in the host countries.
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Affiliation(s)
- Miriam Baeta
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU, Vitoria-Gasteiz, Spain
| | - Endika Prieto-Fernández
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU, Vitoria-Gasteiz, Spain
| | - Carolina Núñez
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU, Vitoria-Gasteiz, Spain
| | - Tamara Kleinbielen
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU, Vitoria-Gasteiz, Spain
| | - Patricia Villaescusa
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU, Vitoria-Gasteiz, Spain
| | - Leire Palencia-Madrid
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU, Vitoria-Gasteiz, Spain
| | - Oscar Alvarez-Gila
- Department of Medieval, Early Modern and American History, Faculty of Letters, University of the Basque Country UPV/EHU, Vitoria-Gasteiz, Spain
| | | | - Marian M de Pancorbo
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU, Vitoria-Gasteiz, Spain.
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6
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Tao R, Zhang J, Xia R, Yang Z, Wang S, Zhang X, Yang Q, Zhang S, Li C. Genetic investigation and phylogenetic analysis of three Chinese ethnic groups using 16 X chromosome STR loci. Ann Hum Biol 2020; 47:59-64. [PMID: 32064953 DOI: 10.1080/03014460.2019.1704871] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
Background: The value of using X-chromosomal short tandem repeats (X-STRs) as genetic markers in human genetics has been widely recognised. However, the 16 X-STRs in the Goldeneye® DNA ID System 17X kit have not been thoroughly applied.Aim: To investigate the genetic polymorphisms of 16 X-STRs in three main ethnic minorities (Tibetan, Mongolian and Kazakh) in China and to reveal the phylogenetic relationships of different populations.Subjects and methods: A total of 245 Tibetan, 168 Mongolian and 105 Kazakh individuals were genotyped using this 17X kit. The allelic frequencies and other parameters were calculated. An additional eight Chinese populations and nine global populations were included in genetic comparisons based on 16 or 8 overlapped X-STRs.Results: A total of 147 alleles were observed from 16 X-STRs with allelic frequencies ranging from 0.0024 to 0.7952 in the three studied groups. Based on 16 X-STRs, Tibetans, Kazakhs and Mongolians showed more similarity to each other and were genetically distinct from the Shanghai Han group; based on 8 X-STRs, only the genetic relationships between different nations could be clarified.Conclusions: Our study presents an extensive report on a novel X-STR assay in three Chinese ethnic groups and a comprehensive genetic comparison between different populations based on these X-STRs.
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Affiliation(s)
- Ruiyang Tao
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, Shanghai, P.R. China.,Institute of Forensic Medicine, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu, P.R. China
| | - Jingyi Zhang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, Shanghai, P.R. China.,Department of Forensic Science, Medical School of Soochow University, Suzhou, P.R. China
| | - Ruocheng Xia
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, Shanghai, P.R. China.,Department of Forensic Medicine, School of Basic Medical Science, Wenzhou Medical University, Wenzhou, P.R. China
| | - Zihao Yang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, Shanghai, P.R. China.,Department of Forensic Medicine, School of Basic Medical Science, Wenzhou Medical University, Wenzhou, P.R. China
| | - Shouyu Wang
- Institute of Forensic Medicine, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu, P.R. China
| | - Xiaochun Zhang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, Shanghai, P.R. China.,Department of Forensic Science, Medical School of Soochow University, Suzhou, P.R. China
| | - Qi Yang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, Shanghai, P.R. China.,Department of Forensic Science, Medical School of Soochow University, Suzhou, P.R. China
| | - Suhua Zhang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, Shanghai, P.R. China
| | - Chengtao Li
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, Shanghai, P.R. China.,Institute of Forensic Medicine, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu, P.R. China
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7
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Yang Z, Chen C, Zhang J, Tao R, Xia R, Zhang X, Zhang J, Yu L, Zhang S, Li C. Genetic polymorphisms in 16 X-STR loci analyzed in the She population from Zhejiang Province, China. Leg Med (Tokyo) 2019; 39:25-28. [PMID: 31176892 DOI: 10.1016/j.legalmed.2019.06.002] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2019] [Revised: 05/09/2019] [Accepted: 06/04/2019] [Indexed: 11/17/2022]
Abstract
Allele frequencies for 16 X-chromosomal STR (X-STR) loci (DXS6795, DXS9902, DXS8378, HPRTB, GATA165B12, DXS7132, DXS7424, DXS6807, DXS6803, GATA172D05, DXS6800, DXS10134, GATA31E08, DXS6810, DXS6789, and DXS10159) were obtained from a sample set of 296 unrelated individuals from the Zhejiang She population in China. We observed a total of 117 alleles in the group, with allele frequencies ranging from 0.0022 to 0.8143. The most informative marker for the studied population was DXS10134, with a polymorphism information content (PIC) of 0.8547, and the least polymorphic locus was DXS6800 (PIC = 0.3071). The power of discrimination (PD) varied from 0.3244 (DXS6800) to 0.8680 (DXS10134) in males and from 0.5263 (DXS6800) to 0.9693 (DXS10134) in females. The combined PDM and PDF was 0.999999996987156 and 0.999999999999993, respectively. The combined MECD and MECT was 0.999993100252466 and 0.999999973583357, respectively. In the population comparisons, a close relationship between the Zhejiang She and Eastern Han populations was observed. In general, the present findings indicate that the 16 X-STR loci examined are highly genetically polymorphic in the She population of Zhejiang, providing useful information on She for forensic science and population genetic studies.
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Affiliation(s)
- Zihao Yang
- Department of Forensic Medicine, School of Basic Medical Science, Wenzhou Medical University, Higher Education District, Wenzhou 325035, Zhejiang Province, PR China; Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, PR China, Shanghai 200063, PR China
| | - Chong Chen
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, PR China, Shanghai 200063, PR China; College of Medicine and Forensics, Xi'an Jiaotong University Health Science Center, Xi'an 710061, PR China
| | - Jingyi Zhang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, PR China, Shanghai 200063, PR China; College of Medicine and Forensics, Xi'an Jiaotong University Health Science Center, Xi'an 710061, PR China
| | - Ruiyang Tao
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, PR China, Shanghai 200063, PR China; Institute of Forensic Medicine, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, PR China
| | - Ruocheng Xia
- Department of Forensic Medicine, School of Basic Medical Science, Wenzhou Medical University, Higher Education District, Wenzhou 325035, Zhejiang Province, PR China; Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, PR China, Shanghai 200063, PR China
| | - Xiaochun Zhang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, PR China, Shanghai 200063, PR China; Department of Forensic Science, Medical School of Soochow University, Suzhou 215123, PR China
| | - Jiashuo Zhang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, PR China, Shanghai 200063, PR China; Department of Forensic Science, Medical School of Soochow University, Suzhou 215123, PR China
| | - Linsheng Yu
- Department of Forensic Medicine, School of Basic Medical Science, Wenzhou Medical University, Higher Education District, Wenzhou 325035, Zhejiang Province, PR China
| | - Suhua Zhang
- Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, PR China, Shanghai 200063, PR China.
| | - Chengtao Li
- Department of Forensic Medicine, School of Basic Medical Science, Wenzhou Medical University, Higher Education District, Wenzhou 325035, Zhejiang Province, PR China; Shanghai Key Laboratory of Forensic Medicine, Shanghai Forensic Service Platform, Academy of Forensic Sciences, Ministry of Justice, PR China, Shanghai 200063, PR China.
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8
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Chen M, Ren H, Liu Z, Zhao J, Chen C, Shi Y, Jia L, Cheng F, Chen T, Fan Q, Yang Y, Liu Y, Zhang G, Yan J. Genetic polymorphisms and mutation rates of 16 X-STRs in a Han Chinese population of Beijing and application examples in second-degree kinship cases. Int J Legal Med 2019; 134:163-168. [PMID: 30937593 DOI: 10.1007/s00414-019-02047-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2018] [Accepted: 03/19/2019] [Indexed: 10/27/2022]
Abstract
As a supplementary tool in forensic cases, X chromosomal short tandem repeats (X-STRs) might bridge large pedigree gaps and bring inspiration to forensic practices for the special mode of inheritance. To standardize the application of X-STRs, the DNA Commission of the International Society for Forensic Genetics (ISFG) presented recommendations concentrating on biostatistical evaluations. Following this guideline, in this study, 1247 (655 females and 592 males) unrelated individuals and 770 families originating from a Han Chinese population of Beijing were investigated with 16 X-STRs. The combined PDF and PDM were 0.999999999999994 and 0.999999997, respectively. The combined MECKrüger, MECKishida, MECDesmarais, and MECDesmarais duo were 0.999972736708864, 0.999999975670766, 0.999999975720931, and 0.999993489709197, respectively. In addition, a population comparison demonstrated that genetic heterogeneity widely exists between the Han population of Beijing and other populations, especially southern Han Chinese, European, and West African populations. Additionally, the overall mutation rates of the paternal and maternal germlines of the 16 X-STRs were 0.0021 and 0.0003, respectively. Among them, HPRTB showed the highest paternal mutation rate of 0.0094. Finally, based on these forensic parameters, the likelihood ratios of four second-degree kinship cases were evaluated. Comparing with autosomal STR, X-STR showed significant advantages for hypothesis exclusion. Our study indicated that the 16 X-STR loci are highly polymorphic in the Han population of Beijing and could be a satisfactory complimentary tool for forensic applications.
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Affiliation(s)
- Man Chen
- CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, 100101, People's Republic of China.,University of Chinese Academy of Sciences, Beijing, 100049, People's Republic of China
| | - He Ren
- Beijing Police College, Beijing, 102202, People's Republic of China
| | - Zhiyong Liu
- CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, 100101, People's Republic of China.,University of Chinese Academy of Sciences, Beijing, 100049, People's Republic of China
| | - Jing Zhao
- CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, 100101, People's Republic of China
| | - Chong Chen
- Beijing Tongda Shoucheng Institute of Forensic Science, Beijing, 100192, People's Republic of China
| | - Yan Shi
- Beijing Tongda Shoucheng Institute of Forensic Science, Beijing, 100192, People's Republic of China
| | - Li Jia
- Beijing Tongda Shoucheng Institute of Forensic Science, Beijing, 100192, People's Republic of China
| | - Feng Cheng
- School of Forensic Medicine, Shanxi Medical University, Taiyuan, 030009, People's Republic of China
| | - Tong Chen
- CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, 100101, People's Republic of China.,University of Chinese Academy of Sciences, Beijing, 100049, People's Republic of China
| | - Qingwei Fan
- School of Forensic Medicine, Shanxi Medical University, Taiyuan, 030009, People's Republic of China
| | - Yaran Yang
- CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, 100101, People's Republic of China
| | - Yacheng Liu
- Beijing Tongda Shoucheng Institute of Forensic Science, Beijing, 100192, People's Republic of China
| | - Gengqian Zhang
- School of Forensic Medicine, Shanxi Medical University, Taiyuan, 030009, People's Republic of China.
| | - Jiangwei Yan
- CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, 100101, People's Republic of China. .,University of Chinese Academy of Sciences, Beijing, 100049, People's Republic of China. .,School of Forensic Medicine, Shanxi Medical University, Taiyuan, 030009, People's Republic of China.
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9
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Fukuta M, Gaballah M, Takada K, Miyazaki H, Kato H, Aoki Y, Hamed SS, ElMorsi DAA, ElDakroory SA. Genetic polymorphism of 27 X-chromosomal short tandem repeats in an Egyptian population. Leg Med (Tokyo) 2019; 37:64-66. [PMID: 30711876 DOI: 10.1016/j.legalmed.2019.01.009] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2018] [Revised: 11/27/2018] [Accepted: 01/23/2019] [Indexed: 11/17/2022]
Abstract
We presented allele frequencies of 27 X-chromosomal short tandem repeats (DXS6807, DXS9902, DXS6795, DXS6810, DXS10076, DXS10077, DXS10078, DXS10162, DXS10163, DXS10164, DXS7132, DXS981, DXS6800, DXS6803, DXS6809, DXS6789, DXS6799, DXS7424, DXS101, DXS7133, GATA172D05, DXS10103, HPRTB, GATA31E08, DXS8377, DXS10147, and DXS7423) obtained from 352 unrelated individuals in Egypt. No deviation from Hardy-Weinberg equilibrium was detected. Two pairs of adjacent loci showed significant linkage disequilibrium. In the principal component analysis plot, the Egyptian data were located between Europe and sub-Saharan Africa, away from Asia.
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Affiliation(s)
- Mamiko Fukuta
- Department of Forensic Medicine, Nagoya City University Graduate School of Medical Sciences, Nagoya, Japan.
| | - Mohammed Gaballah
- Egyptian Forensic Medicine Authority, Ministry of Justice, Cairo, Egypt
| | - Kazushi Takada
- Department of Forensic Medicine, Nagoya City University Graduate School of Medical Sciences, Nagoya, Japan
| | - Hiroki Miyazaki
- Department of Forensic Medicine, Nagoya City University Graduate School of Medical Sciences, Nagoya, Japan
| | - Hideaki Kato
- Department of Forensic Medicine, Nagoya City University Graduate School of Medical Sciences, Nagoya, Japan
| | - Yasuhiro Aoki
- Department of Forensic Medicine, Nagoya City University Graduate School of Medical Sciences, Nagoya, Japan
| | - Sameera Sh Hamed
- Forensic Medicine and Clinical Toxicology Department, Faculty of Medicine, Mansoura University, Mansoura, Egypt
| | - Doaa A A ElMorsi
- Forensic Medicine and Clinical Toxicology Department, Faculty of Medicine, Mansoura University, Mansoura, Egypt
| | - Sahar A ElDakroory
- Forensic Medicine and Clinical Toxicology Department, Faculty of Medicine, Mansoura University, Mansoura, Egypt
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10
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Messoussi M, Prieto-Fernández E, Baeta M, Núñez C, Gaaied ABAE, de Pancorbo MM, Fadhlaoui-Zid K. Genetic variation of 17 X-chromosome STR loci in Tunisian population of Nabeul. Int J Legal Med 2018; 133:85-88. [PMID: 29569161 DOI: 10.1007/s00414-018-1827-3] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2017] [Accepted: 03/13/2018] [Indexed: 10/17/2022]
Abstract
In the present study, the genetic variations of 17 X-STR markers (DXS8378, DXS9898, DXS7133, GATA31E08, GATA172D05, DXS6801, DXS7423, DXS6809, DXS6799, DXS7132, DXS9902, DXS6800, DXS6789, DXS10075, DXS10079, DXS6807, and DXS6803) were analyzed in 139 unrelated individuals in Nabeul, aiming to perform an X-STR database for anthropological and forensic purposes. Our results indicate that DXS6809 was the most polymorphic locus, whereas DXS6807 was the least informative marker. In addition, the obtained values for the statistical parameters of forensic interest, i.e., the power of discrimination in males (PDM) and females (PDF), as well as the mean exclusion chance in duos (MECD) and trios (MECT) have demonstrated that this panel of 17 X-STRs is highly informative and useful for forensic application and anthropological research. Additionally, pairwise genetic distances based on FST were calculated between Nabeul population and other populations extracted from the literature. Genetic distances were represented in a non-metric MDS plot and clustering of populations according to their geographic locations and their historical relationship was detected.
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Affiliation(s)
- Monia Messoussi
- Laboratory of Genetics, Immunology, and Human Pathologies, Faculty of Science of Tunis, University Tunis El Manar, Tunis, Tunisia
| | - Endika Prieto-Fernández
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU, Avda, Miguel de Unamuno, 3, 01006, Vitoria-Gasteiz, Spain
| | - Miriam Baeta
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU, Avda, Miguel de Unamuno, 3, 01006, Vitoria-Gasteiz, Spain
| | - Carolina Núñez
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU, Avda, Miguel de Unamuno, 3, 01006, Vitoria-Gasteiz, Spain
| | - Amel Ben Ammar-El Gaaied
- Laboratory of Genetics, Immunology, and Human Pathologies, Faculty of Science of Tunis, University Tunis El Manar, Tunis, Tunisia
| | - Marian M de Pancorbo
- BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU, Avda, Miguel de Unamuno, 3, 01006, Vitoria-Gasteiz, Spain
| | - Karima Fadhlaoui-Zid
- Laboratory of Genetics, Immunology, and Human Pathologies, Faculty of Science of Tunis, University Tunis El Manar, Tunis, Tunisia.
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Investigation of 12 X-STR loci in Mongolian and Eastern Han populations of China with comparison to other populations. Sci Rep 2018. [PMID: 29523825 PMCID: PMC5844901 DOI: 10.1038/s41598-018-22665-3] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/02/2022] Open
Abstract
Due to the unique inheritance pattern, X-chromosomal short tandem repeats (X-STRs) have several advantages in complex kinship cases, such as deficiency cases or grandparent-grandchild and half-sisters testing. In our study, 541 unrelated individuals gathered from Mongolian and Eastern Chinese Han populations were successfully genotyped using the Investigator Argus X-12 kit. We calculated allele/haplotype frequencies and other forensic parameters of the two populations and further explored their genetic distance with already published Chinese populations and six global populations. Our results showed that the 12 X-STR markers were highly informative in the two populations when compared with nine other Chinese populations: significant differences were found at several loci. Geographically neighboring populations or different ethnic groups within the same area appeared to have closer evolutionary relationships. We also analyzed population genetic structure by performing clustering with the STRUCTURE program and Principal Coordinate Analysis (PCoA), and we found that the Chinese and other populations enrolled in this study could be distinguished. Furthermore, Mongolian males were distinguishable from the other studied males by a moderate genetic distance. Our study also expanded the X-STR database, which could facilitate the appropriate application of the 12 X-STR markers in the forensic field in China.
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