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Curtis R, Ward D, Taylor D, Henry J. Investigation of X-STR haplotype diversity in the Australian Aboriginal population. AUST J FORENSIC SCI 2022. [DOI: 10.1080/00450618.2022.2048690] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Affiliation(s)
- Rhianna Curtis
- Division of Biology, Forensic Science SA, Adelaide, South Australia
| | - Denise Ward
- Division of Biology, Forensic Science SA, Adelaide, South Australia
| | - Duncan Taylor
- Division of Biology, Forensic Science SA, Adelaide, South Australia
- College of Science and Engineering, Flinders University of South Australia, Adelaide, South Australia
| | - Julianne Henry
- Division of Biology, Forensic Science SA, Adelaide, South Australia
- College of Science and Engineering, Flinders University of South Australia, Adelaide, South Australia
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Khacha-Ananda S, Mahawong P. Genetic analysis of 12 X-short tandem repeats loci in a northern Thai population. MEDICINE, SCIENCE, AND THE LAW 2021; 61:34-43. [PMID: 33045921 DOI: 10.1177/0025802420965000] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Short tandem repeats (STRs) are widely used as DNA markers in paternity testing and criminal investigations because of their high genetic polymorphism among individuals in population. However, many factors influence genetic variations of STRs. Therefore, understanding STR information within individual populations could provide database and scientifically reliable STR genotyping for forensic genetic purposes. We aimed to examine allele frequencies of X-STRs, including some forensic parameters, in a northern Thai population. A retrospective descriptive study was conducted by collecting X-STR data from unrelated individuals living in a northern region of Thailand. The allele frequency and forensic parameters - for example polymorphism information content (PIC), power of discrimination in females and males (PDf and PDm), mean exclusion chance (MEC) and haplotype frequency - were calculated. The Hardy-Weinberg equilibrium was analysed. A total of 132 alleles were observed, with corresponding allele frequency ranging from 0.0064 to 0.4904. The PIC of all loci was >0.6, representing high genetic polymorphism, except DXS8378 and DXS7423. Notably, DXS10135 was the most diverse loci with the highest PD and MEC, while DXS7423 was the least polymorphic marker with the lowest PD and MEC. The highest haplotype diversity in male data was on linkage group III (DXS10101-DXS10103-HPRTB) by 0.9895. The genetic distance analysis demonstrated that the northern Thai population had a close relationship with Taiwanese (DA = 0.023). There are no significant deviations among the Hardy-Weinberg equilibrium except DXS10148. This study has established a northern Thai X-STRs reference database to be used as a tool for forensic genetic purposes.
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Affiliation(s)
- Supakit Khacha-Ananda
- Department of Forensic Medicine, Faculty of Medicine, Chiang Mai University, Thailand
| | - Phatcharin Mahawong
- Department of Forensic Medicine, Faculty of Medicine, Chiang Mai University, Thailand
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Meng HT, Shen CM, Zhang YD, Dong Q, Guo YX, Yang G, Yan JW, Liu YS, Mei T, Shi JF, Zhu BF. Chinese Xibe population genetic composition according to linkage groups of X-chromosomal STRs: population genetic variability and interpopulation comparisons. Ann Hum Biol 2017; 44:546-553. [PMID: 28412872 DOI: 10.1080/03014460.2017.1318951] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
BACKGROUND The Xibe population is one of China's officially recognised populations and is now distributed separately from west to east in the northern part of China. X-chromosomal short tandem repeats have a special inheritance pattern, and could be used as complements in forensic application, especially for complex or deficiency cases. SUBJECTS AND METHODS This study obtained the allelic and haplotypic frequencies of 19 X-STR loci in the Xibe population from Xinjiang Uygur Autonomous Region, China, and studied the genetic differentiations between the Xibe and other populations. RESULTS The combined power of discrimination in females and males and mean exclusion chances in deficiency cases, normal trios and duo cases was at least 0.999 999 994. In the haplotypic study, the Xibe population showed a more similar pattern of haplotype distribution with Asian populations than populations from other continents, while allelic study also indicated a closer relationship between the Xibe and Asian populations. CONCLUSIONS The 19 X-STR loci would be useful in forensic application in the studied population. The Xibe population showed a closer genetic relationship with Asian populations in the study, and more population data would be necessary for more detailed genetic relationship studies.
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Affiliation(s)
- Hao-Tian Meng
- a Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology , Xi'an Jiaotong University , Xi'an , PR China.,b Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology , Xi'an Jiaotong University , Xi'an , PR China.,c Department of Forensic Genetics, School of Forensic Medicine , Southern Medical University , Guangzhou , PR China
| | - Chun-Mei Shen
- d Blood Center of Shaanxi Province , Xi'an , PR China.,e Institute of Brain and Behavioral Sciences, College of Life Sciences , Shaanxi Normal University , Xi'an , PR China
| | - Yu-Dang Zhang
- a Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology , Xi'an Jiaotong University , Xi'an , PR China.,b Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology , Xi'an Jiaotong University , Xi'an , PR China.,f Institute of Forensic Sciences of Anhui Public Security Department , Hefei , PR China
| | - Qian Dong
- a Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology , Xi'an Jiaotong University , Xi'an , PR China.,b Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology , Xi'an Jiaotong University , Xi'an , PR China
| | - Yu-Xin Guo
- a Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology , Xi'an Jiaotong University , Xi'an , PR China.,b Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology , Xi'an Jiaotong University , Xi'an , PR China
| | - Guang Yang
- g Department of Pathology , Laboratory of Medicine, Loma Linda University Medical Center , Loma Linda , CA , USA
| | - Jiang-Wei Yan
- h Key Laboratory of Genome Sciences , Beijing Institute of Genomics, Chinese Academy of Sciences , Beijing , PR China
| | - Yao-Shun Liu
- i Department of Biochemistry , Preclinical Medicine College, Xinjiang Medical University , Urumqi , PR China
| | - Ting Mei
- i Department of Biochemistry , Preclinical Medicine College, Xinjiang Medical University , Urumqi , PR China
| | - Jian-Feng Shi
- a Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology , Xi'an Jiaotong University , Xi'an , PR China.,b Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology , Xi'an Jiaotong University , Xi'an , PR China
| | - Bo-Feng Zhu
- a Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology , Xi'an Jiaotong University , Xi'an , PR China.,b Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology , Xi'an Jiaotong University , Xi'an , PR China.,c Department of Forensic Genetics, School of Forensic Medicine , Southern Medical University , Guangzhou , PR China
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Chen MY, Ho CW, Pu CE, Wu FC. Genetic polymorphisms of 12 X-chromosomal STR loci in Taiwanese individuals and likelihood ratio calculations applied to case studies of blood relationships. Electrophoresis 2014; 35:1912-20. [DOI: 10.1002/elps.201300645] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2013] [Revised: 03/10/2014] [Accepted: 03/10/2014] [Indexed: 11/09/2022]
Affiliation(s)
- Meng-Yi Chen
- Department of Forensic Science; Investigation Bureau, Ministry of Justice; New Taipei City Taiwan Republic of China
- Department of Bioengineering; Tatung University; Taipei City Taiwan Republic of China
| | - Chin-Wen Ho
- Department of Bioengineering; Tatung University; Taipei City Taiwan Republic of China
| | - Chang-En Pu
- Department of Forensic Science; Investigation Bureau, Ministry of Justice; New Taipei City Taiwan Republic of China
| | - Fang-Chin Wu
- Department of Forensic Science; Investigation Bureau, Ministry of Justice; New Taipei City Taiwan Republic of China
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Samejima M, Nakamura Y, Minaguchi K. Population genetic study of six closely linked groups of X-STRs in a Japanese population. Int J Legal Med 2011; 125:895-900. [PMID: 21918845 DOI: 10.1007/s00414-011-0618-x] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2011] [Accepted: 08/29/2011] [Indexed: 10/17/2022]
Abstract
X chromosome STR (X-STR) polymorphisms are a useful tool in the fields of human population genetics and personal identification and are quite informative in the investigation of complex kinship or deficiency cases, especially where it is necessary to determine relationships with second-generation offspring in which the same X chromosome may have been inherited. We investigated eight X-STR systems using the Mentype Argus X-8 kit and further developed decaplex PCR for the DXS10148, DXS10161, DXS10160, DXS10159, DXS10079, DXS10075, DXS6799, DXS10102, DXS10106, and DXS10146 loci with the aim of constructing closely linked groups on the X chromosome. The studied population comprised 569 Japanese individuals (390 males and 179 females). Heterozygosity among the present 18 X-STRs showed a distribution of from 54.2% to 90.5%. We constructed six closely linked groups, each comprising three to five X-STRs: DXS10148- DXS10135-DXS8378, DXS10161- DXS10160-DXS10159, DXS7132-DXS10079-DXS10074-DXS10075-DXS981, DXS6809-DXS6789-DXS6799, DXS10102-HPRTB-DXS10101-DXS10106, and DXS8377-DXS10146-DXS10134-DXS7423. The forensic utility of these groups as haplotypes was then evaluated. Haplotype diversity values showed a distribution of from 0.9699 to 0.9959. Analysis of the present closely linked haplotypes will contribute to solving complex kinship cases involving X chromosome inheritance.
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Affiliation(s)
- Michinaga Samejima
- Department of Forensic Odontology, Tokyo Dental College, 1-2-2 Masago, Mihama-ku, Chiba City, Japan
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Hui L, Weijian Y, Xuelian D, Qigui L. Variations in short tandem repeats deduced on the basis of the number of repeats and the relationship of these variations with longevity. AGE (DORDRECHT, NETHERLANDS) 2011; 33:63-68. [PMID: 20582731 PMCID: PMC3063639 DOI: 10.1007/s11357-010-9160-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/28/2010] [Accepted: 06/14/2010] [Indexed: 05/29/2023]
Abstract
The objective of this study was to investigate the quantitative characteristics of short tandem repeat (STR) variations deduced on the basis of the number of STRs that are beneficial for human survival. The longevity group included 60 nonagenarian subjects, and the control group included 250 reference adults (age, 20-50 years). Alleles of 15 Combined DNA Index System STR loci were determined using a commercial polymerase chain reaction kit. An STR with the highest frequency distribution in a population (control group) was considered as a conservative STR, and the number of core unit repeats of this STR allele was considered as the median repeat number in the STR locus (STRm). The absolute difference between the STRm and the number of core unit repeats of other STR alleles can be considered as the quantitative marker of variation for that particular STR allele (M value). The mean M values of CSF1TPO in the longevity group were significantly higher than those in the control group (P < 0.05). These findings appear to suggest that at least one of the STR loci may be associated with longevity. The M value of STR may be a new and high-efficacy genetic marker.
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Affiliation(s)
- Liu Hui
- College of Medical Laboratory, Dalian Medical University, Dalian, People's Republic of China.
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