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Syukriani Y, Wulandari AS, Wanranto B, Hidayat Y. Thousands of years of Malay and Chinese population history in Indonesia and its implication on Paternity Index in DNA paternity testing. Sci Justice 2023; 63:229-237. [PMID: 36870702 DOI: 10.1016/j.scijus.2023.01.003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 04/09/2022] [Revised: 01/10/2023] [Accepted: 01/16/2023] [Indexed: 01/21/2023]
Abstract
The existence of the Chinese population in the predominantly Malay population in Indonesia can be traced back thousands of years, and it has been suspected that it played an essential role in the history of the Malay population origin in Maritime South East Asia. With the fact that the Malay-Indonesian population is currently predominant compared to the Chinese population in Indonesia (Chinese-Indonesian), the selection of the origin of the STRs allele frequency panel population becomes an issue in DNA profiling, including in paternity testing. This study analyses the genetic relationship between the Chinese-Indonesian and Malay-Indonesian populations and how this affects the Paternity Index (PI) calculation in paternity test cases. The study of the relationship between populations was carried out using neighbour-joining (NJ) tree analysis and multidimensional scaling (MDS) on the allele frequency panel of 19 autosomal STRs loci of Malay-Indonesian (n = 210) and Chinese-Indonesian (n = 78) populations. Four population groups were used as references: Malay-Malaysian, Filipino, Chinese, and Caucasian. An MDS analysis was also performed based on the pairwise FST calculation. The combined Paternity Index (CPI) calculation was carried out on 132 paternity cases from the Malay-Indonesian population with inclusive results using a panel of allele frequencies from the six populations. The pairwise FST MDS indicates a closer relationship between the Chinese-Indonesian and Malay-Indonesian compared to the Chinese population, which is in line with the CPIs comparison test. The outcome suggests that the alternative use of allele frequency database between Malay-Indonesian and Chinese-Indonesian for CPI calculations is not very influential. These results can also be considered in studying the extent of genetic assimilation between the two populations. In addition, these results support the robustness claim of multivariate analysis to represent phenomena that phylogenetic analyses may not be able to demonstrate, especially for massive panel data.
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Affiliation(s)
- Yoni Syukriani
- Department of Forensic and Legal Medicine, Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia.
| | - Ari Sri Wulandari
- Department of Forensic and Legal Medicine, Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia
| | - Busyra Wanranto
- Department of Forensic and Legal Medicine, Faculty of Medicine, Universitas Padjadjaran, Bandung, Indonesia; Faculty of Medicine, Syiah Kuala University, Banda Aceh, Indonesia
| | - Yuyun Hidayat
- Department of Statistics, Faculty of Mathematics and Natural Sciences, Universitas Padjadjaran, Bandung, Indonesia
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2
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Dash HR, Vajpayee K, Srivastava A, Das S. Prevalence and characterisation of size and sequence-based microvariant alleles at nine autosomal STR markers in the Central Indian population. Ann Hum Biol 2021; 48:614-620. [PMID: 34818952 DOI: 10.1080/03014460.2021.2010804] [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
BACKGROUND Though microvariant alleles are widely reported in global populations, they are not well characterised to date. AIM To study the prevalence and characterisation of size and sequence-based microvariant alleles. SUBJECTS AND METHODS Next Generation Sequencing (NGS) was used to sequence microvariant alleles at nine autosomal STR markers in 138 samples. RESULTS After sequencing 31 STR markers using Precision ID GlobalFilerTM NGS STR panel v2, only nine markers, i.e. D12S391, D19S433, D1S1656, D21S11, D2S441, D7S820, FGA, Penta D, and TH01 showed the prevalence of microvariant alleles. Occurrence of microvariant alleles was positively correlated with Total Possible Alleles (p < 0.005), Power of Discrimination (p < 0.01), Polymorphic Information Content (p < 0.01), and Power of Exclusion (p < 0.05) and negatively correlated with the Matching Probability (p < 0.01). The average allele frequency of the microvariant alleles was found to be significantly less than the allele frequency value of the complete alleles (p = 0.88). Further, sequencing of these microvariant alleles reveals the deletion of nucleotides from the start, end, or middle of the repeat unit is responsible for the generation of a microvariant allele. CONCLUSIONS Prevalence of microvariant alleles is rare in nature and is limited to 9 STR loci out of 31 STR loci tested in the central Indian population. The occurrence of microvariant alleles in a locus increases its forensic and paternity application.
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Affiliation(s)
- Hirak Ranjan Dash
- DNA Fingerprinting Unit, Forensic Science Laboratory, Bhopal, Madhya Pradesh, India
| | - Kamayani Vajpayee
- DNA Fingerprinting Unit, Forensic Science Laboratory, Bhopal, Madhya Pradesh, India.,School of Arts and Sciences, Ahmedabad University, Ahmedabad, India
| | - Ankit Srivastava
- Institute of Forensic Science and Criminology, Bundelkhand University, Jhansi, UP, India
| | - Surajit Das
- Department of Life Science, National Institute of Technology, Rourkela, Odisha, India
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Wu JZ, Wang LX, Yang XY, Pan DH, Lu XY, Liu CH, Han XL, Liu H, Shi MS, Liu C, Wen SQ. Forensic application of a novel MPS-based panel (90 STRs and 100 SNPs) in a non-exclusion parentage case with three autosomal STRs incompatibilities. Leg Med (Tokyo) 2021; 54:101987. [PMID: 34768042 DOI: 10.1016/j.legalmed.2021.101987] [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: 07/15/2021] [Revised: 10/22/2021] [Accepted: 10/26/2021] [Indexed: 10/19/2022]
Abstract
In kinship tests, the investigating of the forensic STRs usually provides decisive information to resolve relationship cases. We describe a parentage case with 3 genetic incompatibilities (D6S1043, D18S51 and D2S1338) between the child and alleged parent. With 90 STR loci and 100 SNP loci, the massively parallel sequencing (MPS)-based genotyping results support the certainty of parentage, and the mismatched alleles were considered to be mutations. MPS can provide additional allele sequence structures that can be used to infer the origins of the mutations. SNPs as supplementary markers can provide effective information to give an unequivocal statement of the parentage.
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Affiliation(s)
- Jia-Zi Wu
- MOE Key Laboratory of Contemporary Anthropology, Department of Anthropology and Human Genetics, School of Life Sciences, Fudan University, Shanghai 200438, China; Institute of Archaeological Science, Fudan University, Shanghai 200433, China
| | - Ling-Xiang Wang
- Institute of Archaeological Science, Fudan University, Shanghai 200433, China; Deepreads Biotech, Guangzhou 510663, China
| | - Xing-Yi Yang
- Guangzhou Forensic Science Institute, Guangzhou 510030, China
| | - Dong-Hua Pan
- Forensic Science Centre of Maoming Public Security Department, Guangdong Province, Maoming 525000, China
| | - Xiao-Yu Lu
- Institute of Archaeological Science, Fudan University, Shanghai 200433, China; Deepreads Biotech, Guangzhou 510663, China
| | - Chang-Hui Liu
- Guangzhou Forensic Science Institute, Guangzhou 510030, China
| | - Xiao-Long Han
- Guangzhou Forensic Science Institute, Guangzhou 510030, China
| | - Hong Liu
- Guangzhou Forensic Science Institute, Guangzhou 510030, China
| | - Mei-Sen Shi
- Criminal Justice College of China University of Political Science and Law, Beijing 100088, China.
| | - Chao Liu
- Guangzhou Forensic Science Institute, Guangzhou 510030, China.
| | - Shao-Qing Wen
- MOE Key Laboratory of Contemporary Anthropology, Department of Anthropology and Human Genetics, School of Life Sciences, Fudan University, Shanghai 200438, China; Institute of Archaeological Science, Fudan University, Shanghai 200433, China.
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Zhao GB, Ma GJ, Zhang C, Kang KL, Li SJ, Wang L. BGISEQ-500RS sequencing of a 448-plex SNP panel for forensic individual identification and kinship analysis. Forensic Sci Int Genet 2021; 55:102580. [PMID: 34454122 DOI: 10.1016/j.fsigen.2021.102580] [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: 02/23/2021] [Revised: 07/13/2021] [Accepted: 08/17/2021] [Indexed: 01/23/2023]
Abstract
Next generation sequencing (NGS)-based single nucleotide polymorphism (SNP) genotyping is widely used in the field of forensics. SNP genotyping data from several NGS platforms have been published, but forensic application trials of DNA nanoball sequencing platforms have been very limited. In this work, we developed a 448-plex SNP panel on the BGISEQ-500RS platform. The sequencing metrics of a total of 261 samples that were sequenced with this panel are reported in detail. The average sequencing depth was 8373 × and the average heterozygosity of the 448-plex assay was 0.85. Sensitivity analysis showed that 325 SNPs were successfully genotyped with as little as 50 pg of genomic DNA, with the mean quality score of the sequencing data above Q30. Forensic parameters were calculated based on the data of 142 unrelated Chinese Han individuals and the combined matching probability was as low as 5.21 × 10-101. Kinship analyses based on experiments and computer simulations showed that the 448-panel was as effective as the ForenSeq™ DNA Signature Prep Kit for second-degree kinship identification, and when the two panels were merged, the related pairs were almost completely distinguished from unrelated pairs. The 448-plex SNP panel on the BGISEQ-500RS platform provides a powerful tool for forensic individual identification and kinship analysis.
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Affiliation(s)
- Guang-Bin Zhao
- National Engineering Laboratory for Forensic Science, Key Laboratory of Forensic Genetics of Ministry of Public Security, Institute of Forensic Science, Ministry of Public Security, Beijing 100038, China
| | - Guan-Ju Ma
- College of Forensic Medicine, Hebei Medical University, Hebei Key Laboratory of Forensic Medicine, Shijiazhuang 050017, China
| | - Chi Zhang
- National Engineering Laboratory for Forensic Science, Key Laboratory of Forensic Genetics of Ministry of Public Security, Institute of Forensic Science, Ministry of Public Security, Beijing 100038, China
| | - Ke-Lai Kang
- National Engineering Laboratory for Forensic Science, Key Laboratory of Forensic Genetics of Ministry of Public Security, Institute of Forensic Science, Ministry of Public Security, Beijing 100038, China
| | - Shu-Jin Li
- College of Forensic Medicine, Hebei Medical University, Hebei Key Laboratory of Forensic Medicine, Shijiazhuang 050017, China.
| | - Le Wang
- National Engineering Laboratory for Forensic Science, Key Laboratory of Forensic Genetics of Ministry of Public Security, Institute of Forensic Science, Ministry of Public Security, Beijing 100038, China.
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Gvozdjan K, Casey H, Mowery C, Kumer L, Fisher C, Tyler J, Bayerl MG, Malysz J, Naik S, Rybka W, Ehmann C, Claxton D, Mineishi S, Baker M, Hong Z, Shike H. Unexpected Short-Tandem-Repeat Patterns in Posttransplant Chimerism Testing: Investigation of 3 Cases with Help from Forensic Science. Lab Med 2021; 51:635-641. [PMID: 32383456 DOI: 10.1093/labmed/lmaa022] [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: 11/12/2022] Open
Abstract
Chimerism testing by short tandem repeats (STRs) is used to monitor engraftment after allogeneic hematopoietic stem cell transplantation (HSCT). Generally, STR alleles are stable and transferred from parent to child or from donor to recipient. However, 3 cases did not follow this norm. Additional work-up with help from forensic literature solved these mysteries. In case 1, the patient received HSCT from his son. The son shared STR alleles in 22/23 loci except Penta E, which was explained by repeat expansion in the son. In case 2, the patient had been in remission for 14 years after HSCT for lymphoma and developed repeat expansion in CSF1PO in granulocytes. In case 3, a pre-HSCT patient demonstrated 3 alleles, with 2 peaks taller than the third, in the FGA locus (chromosome 4). A combination of a triallelic variant and leukemia-associated trisomy 4 explained the finding. STR number variants are rare and clinically inconsequential but can overlap malignancy-associated, clinically significant changes.
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Affiliation(s)
- Kristina Gvozdjan
- Department of Pathology, Penn State Milton S. Hershey Medical Center, Hershey, PA
| | - Heather Casey
- Department of Pathology, Penn State Milton S. Hershey Medical Center, Hershey, PA
| | - Carrie Mowery
- Department of Pathology, Penn State Milton S. Hershey Medical Center, Hershey, PA
| | - Lorie Kumer
- Department of Pathology, Penn State Milton S. Hershey Medical Center, Hershey, PA
| | - Carolyn Fisher
- Department of Pathology, Penn State Milton S. Hershey Medical Center, Hershey, PA
| | - Jennifer Tyler
- Department of Pathology, Penn State Milton S. Hershey Medical Center, Hershey, PA
| | - Mike G Bayerl
- Department of Pathology, Penn State Milton S. Hershey Medical Center, Hershey, PA
| | - Jozef Malysz
- Department of Pathology, Penn State Milton S. Hershey Medical Center, Hershey, PA
| | - Seema Naik
- Department of Hematology Oncology, Penn State Milton S. Hershey Medical Center, Hershey, PA
| | - Witold Rybka
- Department of Hematology Oncology, Penn State Milton S. Hershey Medical Center, Hershey, PA
| | - Christopher Ehmann
- Department of Hematology Oncology, Penn State Milton S. Hershey Medical Center, Hershey, PA
| | - David Claxton
- Department of Hematology Oncology, Penn State Milton S. Hershey Medical Center, Hershey, PA
| | - Shin Mineishi
- Department of Hematology Oncology, Penn State Milton S. Hershey Medical Center, Hershey, PA
| | - Maria Baker
- Department of Hematology Oncology, Penn State Milton S. Hershey Medical Center, Hershey, PA
| | - Zheng Hong
- Department of Hematology Oncology, Penn State Milton S. Hershey Medical Center, Hershey, PA
| | - Hiroko Shike
- Department of Pathology, Penn State Milton S. Hershey Medical Center, Hershey, PA
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Yuan L, Zhang J, Hao S, Liu Y. Identification of half-sisters from different mothers by autosomal and X chromosomal short tandem repeats: A case study. JOURNAL OF FORENSIC SCIENCE AND MEDICINE 2021. [DOI: 10.4103/jfsm.jfsm_30_21] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022] Open
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Ma G, Cong B, Li S. AUCP: An indicator for system effectiveness of panels in pairwise distant kinship identification. Forensic Sci Int 2020; 316:110539. [DOI: 10.1016/j.forsciint.2020.110539] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2020] [Revised: 09/15/2020] [Accepted: 10/05/2020] [Indexed: 11/26/2022]
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Liu Q, Ma G, Du Q, Lu C, Fu L, Wang Q, Fu G, Li S, Cong B. Development of an NGS panel containing 42 autosomal STR loci and the evaluation focusing on secondary kinship analysis. Int J Legal Med 2020; 134:2005-2014. [PMID: 32314064 DOI: 10.1007/s00414-020-02295-z] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2019] [Accepted: 04/03/2020] [Indexed: 12/11/2022]
Abstract
High-throughput next-generation sequencing (NGS) is a feasible technique to detect considerably more markers and simultaneously obtain length and sequence information in a single reaction. In this study, we developed an NGS panel including 42 commonly used autosomal short tandem repeats (STRs) and amelogenin on the Illumina MiSeq FGx™. Sequencing accuracy was validated by the consistency of 2800M Control DNA detected using the ForenSeq™ DNA Signature Prep Kit and Sanger sequencing. Nomenclature incompatibility was found between NGS-STR and CE-STR typing at 9 loci (D3S3045, D6S477, D7S3048, D9S925, D14S608, D17S1290, D18S535, D21S1270, GATA198B05), despite the correct sequence. The difference was caused by the two different methods of identifying motif sequence and a one-to-one correspondence can be found. We evaluated the panel by investigating consistency, sequencing sensitivity and the effectiveness of the 2nd-degree relationship identification. Herein, we present sequencing results from 58 unrelated individuals of the Hebei Han population. The total discrimination power (TDP) and cumulative probability of exclusion for trio paternity testing (CPEtrio) of the 42 NGS-STR panels reached 1-2.84 × 10-57 and 1-9.87 × 10-21, respectively. By family simulation and likelihood ratio (LR) calculation, this panel was shown to have effectiveness for the 2nd-degree kinship identification similar to the ForenSeq™ DNA Signature Prep Kit and certain advantages compared with it due to the relatively small number of loci. As expected, it provides new data for the development of NGS-STR typing technology.
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Affiliation(s)
- Qingxia Liu
- College of Forensic Medicine, Hebei Key Laboratory of Forensic Medicine, Hebei Medical University, Shijiazhuang, 050017, People's Republic of China
| | - Guanju Ma
- College of Forensic Medicine, Hebei Key Laboratory of Forensic Medicine, Hebei Medical University, Shijiazhuang, 050017, People's Republic of China
| | - Qingqing Du
- College of Forensic Medicine, Hebei Key Laboratory of Forensic Medicine, Hebei Medical University, Shijiazhuang, 050017, People's Republic of China
| | - Chaolong Lu
- College of Forensic Medicine, Hebei Key Laboratory of Forensic Medicine, Hebei Medical University, Shijiazhuang, 050017, People's Republic of China
| | - Lihong Fu
- College of Forensic Medicine, Hebei Key Laboratory of Forensic Medicine, Hebei Medical University, Shijiazhuang, 050017, People's Republic of China
| | - Qian Wang
- College of Forensic Medicine, Hebei Key Laboratory of Forensic Medicine, Hebei Medical University, Shijiazhuang, 050017, People's Republic of China
| | - Guangping Fu
- College of Forensic Medicine, Hebei Key Laboratory of Forensic Medicine, Hebei Medical University, Shijiazhuang, 050017, People's Republic of China
| | - Shujin Li
- College of Forensic Medicine, Hebei Key Laboratory of Forensic Medicine, Hebei Medical University, Shijiazhuang, 050017, People's Republic of China.
| | - Bin Cong
- College of Forensic Medicine, Hebei Key Laboratory of Forensic Medicine, Hebei Medical University, Shijiazhuang, 050017, People's Republic of China.
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Yuan L, Xu X, Ren H, Zhao Z, Wang T, Hao S, Zhang J, Liu Y, Xu Y. Study of autosomal short tandem repeat loci using ITO method in full-sibling identification. JOURNAL OF FORENSIC SCIENCE AND MEDICINE 2020. [DOI: 10.4103/jfsm.jfsm_4_20] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022] Open
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10
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Zhang L, Zhu S, Yang F, Bai X, Yao Y, Li J. Genetic diversity of 23 STR loci in Guangxi Zhuang population and its phylogenetic relationship with 25 other populations. Ann Hum Biol 2019; 46:502-508. [PMID: 31559867 DOI: 10.1080/03014460.2019.1673481] [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: 10/25/2022]
Abstract
Aim: To estimate genetic diversity of 23 STR loci included in the DNA TyperTM 25 Kit, and evaluate its effectiveness in forensic application.Subjects and methods: A total of 450 (251 males and 179 females) unrelated healthy individuals from Guangxi Zhuang population were amplified with DNA TyperTM 25 Kit, isolated by the 3730 Series Genetic AnalyzerTM, and genotyped using the GeneMapper ID-X. Genetic parameters and population relationships were analysed.Results: Allele frequencies ranged from 0.001 to 0.5889. The combined power of discrimination (CPD) and the combined power of exclusion (CPE) of the 23 STR loci were 0.999999999999999999 and 0.999996765, respectively. No deviations from Hardy-Weinberg equilibrium and linkage disequilibrium were observed. Inter-population comparison based on Fst, PCA, genetic distance, phylogenetic trees, and MDS showed that Zhuang population clustered with the populations holding a close geographic distance with Zhuang (Guangdong Han and Hainan Li populations).Conclusions: Our study indicated that the 23 autosomal STR loci included in DNA TyperTM 25 Kit can be used as forensic tools for individual identification and parentage testing. Moreover, the result of our mass investigation will enrich the forensic database of Chinese populations and serve for further study of the origin of anthropology.
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Affiliation(s)
- Li Zhang
- Department of Forensic Medicine, Faculty of Basic Medical Sciences, Chongqing Medical University, Chongqing, China
| | - Shisheng Zhu
- Faculty of Medical Technology, Chongqing Medical and Pharmaceutical College, Chongqing, China
| | - Fan Yang
- Institute of Forensic Science, Ministry of Public Security of China, Beijing, China
| | - Xue Bai
- Institute of Forensic Science, Ministry of Public Security of China, Beijing, China
| | - Yiren Yao
- Institute of Forensic Science, Ministry of Public Security of China, Beijing, China
| | - Jianbo Li
- Department of Forensic Medicine, Faculty of Basic Medical Sciences, Chongqing Medical University, Chongqing, China
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Utility of ForenSeq™ DNA Signature Prep Kit in the research of pairwise 2nd-degree kinship identification. Int J Legal Med 2019; 133:1641-1650. [PMID: 30687898 DOI: 10.1007/s00414-019-02003-6] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2018] [Accepted: 01/15/2019] [Indexed: 10/27/2022]
Abstract
The scope of forensic kinship analysis is being extended to more distant or complex relationships. However, current methods and standards in this field do not meet the needs of casework. The next-generation sequencing (NGS) technology may hold an advantage in this field to traditional methods due to its strong power to get much more genetic information. To evaluate the effectiveness of NGS to identify the 2nd-degree kinship pairs, DNA samples of 227 individuals from 49 Hebei Han pedigrees were tested by Goldeneye™ 20A kit using capillary electrophoresis (CE) to confirm the relationships within each pedigree, and those of 111 individuals within 97 confirmed grandparent-grandchild or avuncular pairs were analyzed by ForenSeq™ DNA Signature Prep Kit using MiSeq® FGx™ DNA sequencing platform. We calculated the likelihood ratio (LR) based on ITO method and the identical by state (IBS) score of 97 kinship pairs and compared with those of 97 unrelated pairs. According to the results summarized and analyzed by Fisher discriminant analysis and leave-one-out cross-validation (LOOCV) method, ITO method showed higher accuracy than IBS method, even with less information. Therefore, we proposed a recommendation of the thresholds for pairwise 2nd-degree kinship identification for Hebei Han population based on ITO method. When using ITO method based on 94 SNPs and the length information of 27 autosomal STRs, cumulative likelihood ratio (CLR) > 1 and CLR < 0.1 are recommended as the thresholds of confirming and excluding, respectively. The accuracy applying such thresholds is greater than 95%, indicating the promising application value of NGS in this field and providing a direction for further kinship identification strategy selection. Further studies are needed to get the population genetic data of loci contained in the kit based on all sequence information including flanking regions to make full use of the NGS data to improve the accuracy of kinship analysis.
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Tan Y, Bai P, Wang L, Wang H, Tian H, Jian H, Zhang R, Liu Y, Liang W, Zhang L. Two-person DNA mixture interpretation based on a novel set of SNP-STR markers. Forensic Sci Int Genet 2018; 37:37-45. [PMID: 30075395 DOI: 10.1016/j.fsigen.2018.07.021] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2018] [Revised: 06/23/2018] [Accepted: 07/25/2018] [Indexed: 12/21/2022]
Abstract
Autosomal short tandem repeats (STR) markers analysed by PCR and capillary electrophoresis (CE) represent the gold-standard for forensic DNA analysis. With the improved sensitivity of detection equipment, a larger number of mixed DNA profiles can be obtained from trace amounts of DNA that conventionally used to appear as a single source. More specifically, two-source DNA mixtures, comprising the victim's and the perpetrator's DNAs, are often encountered in forensic casework, where the victim's DNA represents a major component of the mixture. Unfortunately, unbalanced two-person DNA mixtures with a ratio larger than 20:1 (here we have named this kind of mixture extremely unbalanced DNA mixture) provide limited information on the minor component. Although the development of probabilistic software has made interpretation of results from mixed DNA easier, high mixture ratios lead to an uninformative likelihood ratio (LR), considering the minor component. Therefore, a technique that can be performed on the conventional CE platform, while enhancing the ability to detect minor DNA in extremely unbalanced DNA mixtures, may be very useful in forensic casework. Our previous research has reported that SNP-STRs, in conjunction with a PCR technique based on amplification refractory mutation system (ARMS), can be used to resolve extremely unbalanced two-person DNA mixtures. To further explore the capacity of SNP-STR markers to help analyse such DNA mixtures, we developed 11 novel SNP-STR markers. The ARMS-based PCR was then used to design allele-specific primers, where each primer targeted one SNP allele located in the flanking region of the tandem repeats. This method allowed primers to specifically and selectively amplify minor DNA without interference from DNA of the major component because the selected SNP allele was not shared with the major contributor. A survey of the selected 11 SNP-STRs in a southwest Chinese Han population showed high levels of polymorphism. Assays on two-person DNA mixtures showed that all the allele-specific primers could target minor DNA even when the amount of major DNA was a 100-fold higher. Therefore, this novel set of SNP-STR markers provides an alternative method for the analysis of extremely unbalanced two-person DNA mixtures.
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Affiliation(s)
- Yu Tan
- Department of Forensic Genetics, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China
| | - Peng Bai
- Department of Forensic Genetics, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China
| | - Li Wang
- Department of Obstetrics and Gynecology, West China Second University Hospital, Sichuan University, Key Laboratory of Birth Defects and Related Diseases of Women and Children (Sichuan University) of Ministry of Education, Chengdu, Sichuan, China
| | - Hui Wang
- Institute of Forensic Science, Chengdu Public Security Bureau, Chengdu 610081, Sichuan, China
| | - Huan Tian
- Department of Forensic Genetics, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China
| | - Hui Jian
- Department of Forensic Genetics, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China
| | - Ranran Zhang
- Department of Forensic Genetics, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China
| | - Yuqing Liu
- Department of Forensic Genetics, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China
| | - Weibo Liang
- Department of Forensic Genetics, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China.
| | - Lin Zhang
- Department of Forensic Genetics, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu 610041, Sichuan, China.
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He G, Wang Z, Zou X, Chen X, Liu J, Wang M, Hou Y. Genetic diversity and phylogenetic characteristics of Chinese Tibetan and Yi minority ethnic groups revealed by non-CODIS STR markers. Sci Rep 2018; 8:5895. [PMID: 29651125 PMCID: PMC5897523 DOI: 10.1038/s41598-018-24291-5] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2017] [Accepted: 03/13/2018] [Indexed: 12/16/2022] Open
Abstract
Non-CODIS STRs, with high polymorphism and allele frequency difference among ethnically and geographically different populations, play a crucial role in population genetics, molecular anthropology, and human forensics. In this work, 332 unrelated individuals from Sichuan Province (237 Tibetan individuals and 95 Yi individuals) are firstly genotyped with 21 non-CODIS autosomal STRs, and phylogenetic relationships with 26 previously investigated populations (9,444 individuals) are subsequently explored. In the Sichuan Tibetan and Yi, the combined power of discrimination (CPD) values are 0.9999999999999999999 and 0.9999999999999999993, and the combined power of exclusion (CPE) values are 0. 999997 and 0.999999, respectively. Analysis of molecular variance (AMOVA), principal component analysis (PCA), multidimensional scaling plots (MDS) and phylogenetic analysis demonstrated that Sichuan Tibetan has a close genetic relationship with Tibet Tibetan, and Sichuan Yi has a genetic affinity with Yunnan Bai group. Furthermore, significant genetic differences have widely existed between Chinese minorities (most prominently for Tibetan and Kazakh) and Han groups, but no population stratifications rather a homogenous group among Han populations distributed in Northern and Southern China are observed. Aforementioned results suggested that these 21 STRs are highly polymorphic and informative in the Sichuan Tibetan and Yi, which are suitable for population genetics and forensic applications.
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Affiliation(s)
- Guanglin He
- Institute of Forensic Medicine, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu, Sichuan, China
| | - Zheng Wang
- Institute of Forensic Medicine, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu, Sichuan, China
| | - Xing Zou
- Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University, Chongqing, China
| | - Xu Chen
- Department of Clinical Laboratory, the First People's Hospital of Liangshan Yi Autonomous Prefecture, Xichang, Sichuan, China
| | - Jing Liu
- Institute of Forensic Medicine, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu, Sichuan, China
| | - Mengge Wang
- Institute of Forensic Medicine, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu, Sichuan, China
| | - Yiping Hou
- Institute of Forensic Medicine, West China School of Basic Medical Sciences & Forensic Medicine, Sichuan University, Chengdu, Sichuan, China.
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Genetic polymorphism of 21 non-CODIS STR loci in Chengdu Han population and its interpopulation analysis between 25 populations in China. Leg Med (Tokyo) 2017; 31:14-16. [PMID: 29245019 DOI: 10.1016/j.legalmed.2017.12.007] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2017] [Revised: 10/26/2017] [Accepted: 12/08/2017] [Indexed: 12/11/2022]
Abstract
AGCU 21+1 STR kit contains 21 non-combined DNA index system (non-CODIS) short tandem repeats (STR) loci and a sex-determining locus amelogenin. In this study, we evaluated the genetic diversity and forensically relevant population statistics of 21 non-CODIS loci in 210 Chinese Han individuals from Chengdu city, Sichuan province, Southwest China. No significant deviations from Hardy-Weinberg equilibrium were observed within the 21 non-CODIS STR loci. The combined power of discrimination (CPD) and combined power of exclusion (CPE) were 0.99999999999999999994278, 0.999999355 respectively. To reveal interpopulation differentiations of mainland population of China, a neighbor-joining (N-J) phylogenetic tree was constructed based on Nei's genetic distances among Chengdu Han and 25 published populations. The phylogenetic analyses indicated that Chengdu Han population keeps a close genetic relationship with other Han populations.
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He G, Wang Z, Wang M, Hou Y. Genetic Diversity and Phylogenetic Differentiation of Southwestern Chinese Han: a comprehensive and comparative analysis on 21 non-CODIS STRs. Sci Rep 2017; 7:13730. [PMID: 29061987 PMCID: PMC5653741 DOI: 10.1038/s41598-017-13190-w] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2017] [Accepted: 09/19/2017] [Indexed: 11/08/2022] Open
Abstract
Short tandem repeats (STRs), with high polymorphism and complex evolution information, play a significant role in genetic association studies like population genetics, molecular anthropology and human forensics. However, human genetic diversity has only been partially sampled and available for Southwest Chinese Han population, as well as the genetic architecture of this population remains uncharacterized. In this work, 368 unrelated Han individuals from Sichuan province were firstly genotyped with 21 non-CODIS autosomal STRs, and phylogenetic relationships along administrative (Han Chinese from different regions) and ethnic divisions (minority ethnic groups) were subsequently investigated. The CMP and CPE were 6.2796 × 10-20 and 0.9999999, respectively. Analysis of molecular variance (AMOVA), principal component analysis (PCA), multidimensional scaling plots (MDS) and phylogenetic analysis consistently demonstrated that the Southwest Han population had a close genetic relationship with the geographically close population (Hunan Han) and kept a distant genetic relationship with some ethnic groups, most prominently for Gansu Yugu and Fujian She. Furthermore, no significant genetic distinction between the Northern Han and Southern Han was observed. Aforementioned results suggested that these 21 STRs are highly polymorphic and informative, which are suitable for human identification and population genetics.
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Affiliation(s)
- Guanglin He
- Institute of Forensic Medicine, West China School of Basic Science and Forensic Medicine, Sichuan University, Chengdu, 610041, China
| | - Zheng Wang
- Institute of Forensic Medicine, West China School of Basic Science and Forensic Medicine, Sichuan University, Chengdu, 610041, China
| | - Mengge Wang
- Institute of Forensic Medicine, West China School of Basic Science and Forensic Medicine, Sichuan University, Chengdu, 610041, China
| | - Yiping Hou
- Institute of Forensic Medicine, West China School of Basic Science and Forensic Medicine, Sichuan University, Chengdu, 610041, China.
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Yuan L, Xu X, Zhao D, Ren H, Hu C, Chen W, Hao S, Lu D, Zhang L. Study of autosomal STR loci with IBS method in full sibling identification. Leg Med (Tokyo) 2017; 26:14-17. [PMID: 28549542 DOI: 10.1016/j.legalmed.2017.01.010] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2016] [Revised: 01/25/2017] [Accepted: 01/31/2017] [Indexed: 10/20/2022]
Abstract
OBJECTIVE We investigated the application of 51 autosomal short tandem repeat (STR) loci with the identity by state (IBS) method and a discriminant function algorithm in full-sib identification. METHODS A total of 342 pairs of full sibs (FSs) and 3900 pairs of unrelated individuals (UIs) were genotyped for 51 STR loci. Groups were formed in accordance with discrimination power (DP) values and the number of loci, and IBS scores of FSs and UIs were analyzed and compared. The discriminant functions of FS-UI were determined by using the Fisher discriminant with SPSS software. RESULTS All IBS in FSs and UIs groups showed normal distributions and there were significant differences between FS-UI. Receiver operating characteristic curves revealed that the detection efficiency of full-sib identification was affected by both the locus polymorphism and the number of loci detected. Comparing the rate of false positive and false negative of discriminant function between groups, a higher average DP value and larger number of loci detected were associated with a lower rate of miscarriage of justice and were more helpful for full-sib identification. CONCLUSION STRs with higher DP values should be selected when additional autosomal markers are required for FS identification. Discriminant analysis with the IBS method is highly applicable for the FS-UI test.
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Affiliation(s)
- Li Yuan
- Collaborative Innovation Center of Judicial Civilization, Beijing 100088, PR China; Key Laboratory of Evidence Science (China University of Political Science and Law), Ministry of Education, Beijing 100088, PR China.
| | - Xu Xu
- Key Laboratory of Evidence Science (China University of Political Science and Law), Ministry of Education, Beijing 100088, PR China
| | - Dong Zhao
- Collaborative Innovation Center of Judicial Civilization, Beijing 100088, PR China; Key Laboratory of Evidence Science (China University of Political Science and Law), Ministry of Education, Beijing 100088, PR China
| | - He Ren
- Beijing Police College, Beijing 102022, PR China
| | - Chaohui Hu
- College of Mathematics and Computer Science, Hunan Normal University, Changsha 410081, PR China
| | - Wen Chen
- Key Laboratory of Evidence Science (China University of Political Science and Law), Ministry of Education, Beijing 100088, PR China
| | - Shicheng Hao
- Key Laboratory of Evidence Science (China University of Political Science and Law), Ministry of Education, Beijing 100088, PR China
| | - Di Lu
- Collaborative Innovation Center of Judicial Civilization, Beijing 100088, PR China; Key Laboratory of Evidence Science (China University of Political Science and Law), Ministry of Education, Beijing 100088, PR China
| | - Lin Zhang
- West China School of Preclinical and Forensic Medicine, Sichuan University, Chengdu 610041, PR China
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Genetic polymorphism of 21 non-CODIS STR loci for Guangdong (Southern China) Han population. Forensic Sci Int Genet 2017; 27:180-181. [DOI: 10.1016/j.fsigen.2016.11.005] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2016] [Revised: 10/10/2016] [Accepted: 11/21/2016] [Indexed: 10/20/2022]
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18
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Guo Y, Guo J, Liu Y, Fu X, Dong S, Zhong Y, Wang Z, Geng K, Lan L, Zha L, Cai J. Genetic polymorphic investigation of 21 autosomal short tandem repeat loci in the Chinese Li ethnic group. Forensic Sci Int Genet 2016; 24:e17-e18. [DOI: 10.1016/j.fsigen.2016.07.001] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2016] [Revised: 07/01/2016] [Accepted: 07/03/2016] [Indexed: 10/21/2022]
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19
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Guo J, Wang H, Liu B, Liu J, Deng J. Genetic diversity of 21 autosomal STR loci in the Han Chinese population from Hainan Province in South China. Forensic Sci Int Genet 2016; 25:e14-e15. [PMID: 27510303 DOI: 10.1016/j.fsigen.2016.08.001] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2016] [Revised: 07/31/2016] [Accepted: 08/01/2016] [Indexed: 11/26/2022]
Affiliation(s)
- Juanjuan Guo
- Department of Forensic Medicine, School of Basic Medical Sciences, Central South University, Changsha 410013, Hunan, PR China
| | - Han Wang
- Department Clinical Diagnostic Center, 302 Military Hospital of China, Beijing 100039, PR China
| | - Baoqin Liu
- Center of Reproductive Medicine, Affiliated Hospital of Hainan Medical University, Haikou 571199, Hainan, PR China
| | - Jinshan Liu
- Department of Internal Medicine, Affiliated Hospital of Inner Mongolia University for Nationalities, Tongliao 028000, Inner Mongolia, PR China
| | - Jianqiang Deng
- Department of Forensic Medicine, Hainan Medical University, Haikou 571199, PR China.
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20
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Jin B, Su Q, Luo H, Li Y, Wu J, Yan J, Hou Y, Liang W, Zhang L. Mutational analysis of 33 autosomal short tandem repeat (STR) loci in southwest Chinese Han population based on trio parentage testing. Forensic Sci Int Genet 2016; 23:86-90. [DOI: 10.1016/j.fsigen.2016.03.009] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2016] [Revised: 02/17/2016] [Accepted: 03/28/2016] [Indexed: 11/27/2022]
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21
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Shao C, Zhang Y, Zhou Y, Zhu W, Xu H, Liu Z, Tang Q, Shen Y, Xie J. Identification and characterization of the highly polymorphic locus D14S739 in the Han Chinese population. Croat Med J 2016; 56:482-9. [PMID: 26526885 PMCID: PMC4655933 DOI: 10.3325/cmj.2015.56.482] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022] Open
Abstract
AIM To systemically select and evaluate short tandem repeats (STRs) on the chromosome 14 and obtain new STR loci as expanded genotyping markers for forensic application. METHODS STRs on the chromosome 14 were filtered from Tandem Repeats Database and further selected based on their positions on the chromosome, repeat patterns of the core sequences, sequence homology of the flanking regions, and suitability of flanking regions in primer design. The STR locus with the highest heterozygosity and polymorphism information content (PIC) was selected for further analysis of genetic polymorphism, forensic parameters, and the core sequence. RESULTS Among 26 STR loci selected as candidates, D14S739 had the highest heterozygosity (0.8691) and PIC (0.8432), and showed no deviation from the Hardy-Weinberg equilibrium. 14 alleles were observed, ranging in size from 21 to 34 tetranucleotide units in the core region of (GATA)9-18 (GACA)7-12 GACG (GACA)2 GATA. Paternity testing showed no mutations. CONCLUSION D14S739 is a highly informative STR locus and could be a suitable genetic marker for forensic applications in the Han Chinese population.
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Affiliation(s)
| | | | | | | | | | | | | | | | - Jianhui Xie
- Jianhui Xie, Department of Forensic Medicine, Shanghai Medical College of Fudan University, Shanghai, China,
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Population data of 13 nonCODIS STR markers located inside the 6 nonsyndromic oculocutaneous albinism genes. Int J Legal Med 2016; 130:1485-1486. [DOI: 10.1007/s00414-016-1342-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2016] [Accepted: 02/16/2016] [Indexed: 11/26/2022]
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23
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Guo J, Liu Y, Peng Y, Fu Y, Yun L, Ding Z, Hu Z, Chen Y, Cai J, Zha L. Genetic polymorphism of 21 non-CODIS STR loci for Han population in Hunan Province, China. Forensic Sci Int Genet 2015; 17:81-82. [DOI: 10.1016/j.fsigen.2015.03.016] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/25/2014] [Revised: 03/20/2015] [Accepted: 03/29/2015] [Indexed: 10/23/2022]
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24
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Yuan L, Ou Y, Liao Q, Gui J, Bai X, Ge J, Ye J, Zhang L. Population genetics analysis of 38 STR loci in the She population from Fujian Province of China. Leg Med (Tokyo) 2014; 16:314-8. [DOI: 10.1016/j.legalmed.2014.05.008] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2013] [Revised: 04/15/2014] [Accepted: 05/23/2014] [Indexed: 11/30/2022]
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25
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Wu W, Hao H, Liu Q, Han X, Wu Y, Cheng J, Lu D. Analysis of linkage and linkage disequilibrium for syntenic STRs on 12 chromosomes. Int J Legal Med 2014; 128:735-9. [PMID: 24929640 DOI: 10.1007/s00414-014-1032-y] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2014] [Accepted: 06/02/2014] [Indexed: 11/30/2022]
Abstract
The purpose of this study is to evaluate allelic association and linkage of 18 adjacent syntenic short tandem repeat (STR) pairs form out of 30 markers located on 12 different autosomes. Linkage disequilibrium was tested by using the unknown gametic phase genotypes and phased haplotypes from 290 unrelated individuals from Chinese Han population. Genetic linkage analysis between syntenic STRs was performed based on 145 two-generation families which involved 628 meioses. The results showed no significant linkage disequilibrium at any STR pairs and independent inheritance between syntenic STR pairs was indicated. Significant linkage (maximum logarithm of odd (LOD) scores >3.0) was found in 6 out of the 18 adjacent syntenic STR pairs (D1S1627-D1S1677, CSF1PO-D5S818, D6S1017-D6S1043, D6S1043-D6S474, D12S391-vWA, and D19S253-D19S433). These significant linkage marker pairs had a genetic distance ranged from 11.94 to 41.33 cM deduced from HapMap. When recombination fractions determined in families were compared to those derived from Kosambi mapping function based on HapMap data, the latter may have an overestimation. In summary, our results demonstrated that product rule included syntenic STRs can be used for unrelated individual profile probability and the recombination fraction based on family data was superior to the estimation from HapMap for kinship analysis.
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Affiliation(s)
- Weiwei Wu
- Department of Criminal Investigation of Zhejiang Provincial Public Security Bureau, 66#, Minsheng Road, 310009, Hangzhou, People's Republic of China
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Gao Y, Han JT, Shen CM, Wu H, Yuan GL, Zhao LJ, Yan JW, Meng HT, Zhang YD, Liu WJ, Wang HD, White RE, Wei X. Structural polymorphism analysis of Chinese Mongolian ethnic group revealed by a new STR panel: genetic relationship to other groups. Electrophoresis 2014; 35:2008-13. [PMID: 24668876 DOI: 10.1002/elps.201300655] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2013] [Revised: 03/18/2014] [Accepted: 03/18/2014] [Indexed: 11/06/2022]
Abstract
Mongolian is the eighth largest ethnic minority on Chinese population data according to the 2010 census. In the present study, we presented the first report about the allelic frequencies and forensic statistical parameters at the 21 new STRs and analyzed linkage disequilibrium of pairwise loci in the Mongolian ethnic minority, China. Hardy-Weinberg equilibrium tests demonstrated no significant deviations except for the D1S1627 locus. The cumulative power of discrimination and power of exclusion of all the loci are 0.9999999999999999992576 and 0.9999997528, respectively. The results of analysis of molecular variance showed that significant differences between the Mongolian and the other eight populations were found at 1-9 STR loci. In population genetics, the results of principal component analysis, structure analysis, and phylogenetic reconstruction analysis indicated shorter genetic distance between the Mongolian group and the Ningxia Han. All the results suggest that the 21 new STR loci will contribute to Chinese population genetics and forensic caseworks in the Mongolian group.
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Affiliation(s)
- Ying Gao
- Department of Pediatrics, Shaanxi Provincial People's Hospital, Xi'an, P. R. China
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27
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Song F, Luo HB, Hou YP. Population data of 21 non-CODIS STR loci in the Chinese Uygur ethnic minority. Forensic Sci Int Genet 2014; 13:e1-2. [PMID: 24844609 DOI: 10.1016/j.fsigen.2014.04.007] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2014] [Revised: 04/18/2014] [Accepted: 04/19/2014] [Indexed: 11/18/2022]
Affiliation(s)
- Feng Song
- Department of Forensic Genetics, West China School of Basic Science and Forensic Medicine, Sichuan University (West China University of Medical Sciences), Chengdu 610041, Sichuan, China
| | - Hai-bo Luo
- Department of Forensic Genetics, West China School of Basic Science and Forensic Medicine, Sichuan University (West China University of Medical Sciences), Chengdu 610041, Sichuan, 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 610041, Sichuan, China.
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28
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Liu QL, Luo H, Zhao H, Huang XL, Cheng JD, Lu DJ. Recombination analysis of autosomal short tandem repeats in Chinese Han families. Electrophoresis 2013; 35:883-7. [PMID: 24323827 DOI: 10.1002/elps.201300417] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2013] [Revised: 10/26/2013] [Accepted: 10/28/2013] [Indexed: 11/08/2022]
Affiliation(s)
- Qiu-Ling Liu
- Faculty of Forensic Medicine; Zhongshan School of Medicine; Sun Yat-sen University; Guangzhou P. R. China
| | - Hong Luo
- Clinical Institute for Transfusion Medicine; Guangzhou Blood Center; Guangzhou P. R. China
| | - Hu Zhao
- Faculty of Forensic Medicine; Zhongshan School of Medicine; Sun Yat-sen University; Guangzhou P. R. China
| | - Xiao-Ling Huang
- Faculty of Forensic Medicine; Zhongshan School of Medicine; Sun Yat-sen University; Guangzhou P. R. China
| | - Jian-Ding Cheng
- Faculty of Forensic Medicine; Zhongshan School of Medicine; Sun Yat-sen University; Guangzhou P. R. China
| | - De-Jian Lu
- Faculty of Forensic Medicine; Zhongshan School of Medicine; Sun Yat-sen University; Guangzhou P. R. China
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29
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Zhu BF, Pan F, Shen CM, Yan JW, Wang HD, Guo JX, Wang YL, Meng HT, Liu WJ, Zhang YD, Liu R, Jing H, Xu P. Population genetics and forensic efficiency of twenty-one novel microsatellite loci of Chinese Yi ethnic group. Electrophoresis 2013; 34:3345-51. [PMID: 24174224 DOI: 10.1002/elps.201300362] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2013] [Revised: 09/11/2013] [Accepted: 09/12/2013] [Indexed: 11/09/2022]
Affiliation(s)
- Bo-Feng Zhu
- School of Medicine; Xi'an Jiaotong University; Xi'an P. R. China
| | - Feng Pan
- Institute for Health Informatics, and the Ministry of Education Key Lab of Hazard Assessment and Control in Special Operational Environment; Fourth Military Medical University; Xi'an P. R. China
| | | | - Jiang-Wei Yan
- Beijing Institute of Genomics; Chinese Academy of Science; Beijing P. R. China
| | - Hong-dan Wang
- Henan Provincial People's Hospital; People's Hospital of Zhengzhou University; Zhengzhou P. R. China
| | - Jian-Xin Guo
- First Affiliated Hospital; School of Medicine; Xi'an Jiaotong University; Xi'an P. R. China
| | - Yan-Li Wang
- First Affiliated Hospital; 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
| | - Wen-Juan Liu
- School of Medicine; Xi'an Jiaotong University; Xi'an P. R. China
| | - Yu-Dang Zhang
- School of Medicine; Xi'an Jiaotong University; Xi'an P. R. China
| | - Rui Liu
- Da-Tang Hospital; Xi'an P. R. China
| | - Hang Jing
- School of Medicine; Xi'an Jiaotong University; Xi'an P. R. China
| | - Peng Xu
- Department of Joint Surgery; Hong-Hui Hospital; Xi'an Jiaotong University College of Medicine; Xi'an P. R. China
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30
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Zha L, Liu Y, Guo Y, Li J, Wang K, Geng K, Liao Q, Liu J, Chen H, Cai J. Genetic polymorphism of 21 non-CODIS STR loci in the Chinese Mongolian ethnic minority. Forensic Sci Int Genet 2013; 9:e32-3. [PMID: 24041912 DOI: 10.1016/j.fsigen.2013.08.010] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2013] [Revised: 08/09/2013] [Accepted: 08/24/2013] [Indexed: 02/05/2023]
Abstract
In this research, we investigated the allele frequencies and forensic parameters of 21 non-, CODIS short tandem repeat (STR) loci (D6S474, D12ATA63, D22S1045, D10S1248, D1S1677, D11S4463, D1S1627, D3S4529, D2S441, D6S1017, D4S2408, D19S433, D17S1301, D1GATA113, D18S853, D20S482, D14S1434, D9S1122, D2S1776, D10S1435 and D5S2500) among 523 unrelated, Chinese Mongolians in the city of Tongliao, Horqin district, Inner Mongolia Autonomous Region.
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Affiliation(s)
- Lagabaiyila Zha
- Department of Biochemistry, School of Biological Science and Technology, Central South University, PR China; Department of Forensic Medicine, School of Basic Medicine Sciences, Central South University, PR China
| | - Ying Liu
- State Key Laboratory of Oral Diseases, West China Hospital of Stomatology, Sichuan University, PR China
| | - Yadong Guo
- Department of Forensic Medicine, School of Basic Medicine Sciences, Central South University, PR China
| | - Jun Li
- Department of Forensic Medicine, School of Basic Medicine Sciences, Central South University, PR China
| | - Ke Wang
- Department of Forensic Medicine, School of Basic Medicine Sciences, Central South University, PR China
| | - Kun Geng
- Department of Forensic Medicine, School of Basic Medicine Sciences, Central South University, PR China
| | - Qiao Liao
- Department of Forensic Medicine, School of Basic Medicine Sciences, Central South University, PR China
| | - Jinshan Liu
- Department of Internal Medicine, Affiliated Hospital of Inner Mongolia University for Nationalities, PR China
| | - Hanchun Chen
- Department of Biochemistry, School of Biological Science and Technology, Central South University, PR China
| | - Jifeng Cai
- Department of Forensic Medicine, School of Basic Medicine Sciences, Central South University, PR China.
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31
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Seo SC, Lee JY, Won JI. Validation of 4 type-STR analysis for identification of 50 Korean. BIOTECHNOL BIOPROC E 2013. [DOI: 10.1007/s12257-012-0790-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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32
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Polymorphic analysis of 21 new STR loci in Chinese Uigur group. Forensic Sci Int Genet 2013; 7:e97-8. [DOI: 10.1016/j.fsigen.2013.02.009] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2012] [Revised: 01/21/2013] [Accepted: 02/23/2013] [Indexed: 11/22/2022]
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33
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Zhang S, Zhang Z, Zhao S, Zhao Z, Li C. Genetic polymorphisms in 12 autosomal STRs in a Shanghai Han population from China. Electrophoresis 2013. [DOI: 10.1002/elps.201200423] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Suhua Zhang
- Shanghai Key Laboratory of Forensic Medicine, Institute of Forensic Sciences; Ministry of Justice; Shanghai; P. R. China
| | | | - Shumin Zhao
- Shanghai Key Laboratory of Forensic Medicine, Institute of Forensic Sciences; Ministry of Justice; Shanghai; P. R. China
| | - Zhenmin Zhao
- Shanghai Key Laboratory of Forensic Medicine, Institute of Forensic Sciences; Ministry of Justice; Shanghai; P. R. China
| | - Chengtao Li
- Shanghai Key Laboratory of Forensic Medicine, Institute of Forensic Sciences; Ministry of Justice; Shanghai; P. R. China
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Yuan GL, Shen CM, Wang HD, Liu WJ, Yang G, Yan JW, Qin HX, Xie T, Ran H, Yuan J, Liu Z, Zhu B. Genetic data provided by 21 autosomal STR loci from Chinese Tujia ethnic group. Mol Biol Rep 2012; 39:10265-71. [DOI: 10.1007/s11033-012-1903-6] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2012] [Accepted: 09/30/2012] [Indexed: 12/01/2022]
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