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Xiao C, Yang X, Yu Z, Wu W, Wang Y, Xu Q, Chen L. Genetic polymorphism and variability in the Guangdong Hakka, Teochew, and Cantonese groups: A comprehensive analysis of 19 X-STRs. Ann Hum Genet 2023; 87:232-240. [PMID: 37337755 DOI: 10.1111/ahg.12518] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2022] [Revised: 05/24/2023] [Accepted: 05/25/2023] [Indexed: 06/21/2023]
Abstract
BACKGROUND X chromosomeshort tandem repeat (X-STR) loci are playing an increasingly important role inforensic work, identifying female traces in male contamination and explainingcomplex kinship analyses. METHODS In this study, we analyzed thegenetic polymorphism of 19 X-STR loci in the Guangdong Hakka, Teochew and Cantonese groups, respectively, aswell as in the Guangdong Hakka, Teochew andCantonese pooled Han. The genetic diversity and forensic characteristics of the19 X-STRs and 7 linkage groups were investigated, respectively. RESULTS The experiments showed that the genetic diversity (GD) and polymorphism information content (PIC) in the pooledGuangdong Han ranged from 0.5320 to 0.9234 and 0.4369 to 0.9171, respectively, and the cumulative power of discrimination for males (PDM), power of discrimination for females (PDF) and mean paternity exclusion chance (MEC) were higher than 0.9999999, indicating that the 19 X-STRs had high geneticpolymorphism and discriminatory power. Genetic differences among Chinese Hansubgroups and among different Chinese populations were investigated byphylogenetic reconstruction and principal component analysis (PCA), respectively. Genetic analyses based on neighbor-joining (NJ) tree and principal component analysis plot showed that Cantonese, Teochew and Hakka were closely genetically related, and different populations with closer linguistic components had more genetic affinity. CONCLUSIONS This study adds to the forensic X-STR database and demonstrates the forensic efficiency of 19 X-STRs for the Hakka, Teochewand Cantonese populations in Guangdong, and the pooled Han of Hakka, Teochewand Cantonese people in Guangdong.
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Affiliation(s)
- Cheng Xiao
- Guangzhou Red Cross Hospital, Guangzhou, China
- School of Forensic Medicine, Southern Medical University, Guangzhou, China
| | - Xingyi Yang
- Guangzhou Forensic Science Institute, Guangzhou, China
| | - Zhonghao Yu
- Guangzhou Forensic Science Institute, Guangzhou, China
| | - Weibin Wu
- Guangzhou Forensic Science Institute, Guangzhou, China
| | - Yuan Wang
- School of Forensic Medicine, Southern Medical University, Guangzhou, China
| | - Quyi Xu
- School of Forensic Medicine, Southern Medical University, Guangzhou, China
- Guangzhou Forensic Science Institute, Guangzhou, China
| | - Ling Chen
- School of Forensic Medicine, Southern Medical University, Guangzhou, China
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Forensic Applications of Markers Present on the X Chromosome. Genes (Basel) 2022; 13:genes13091597. [PMID: 36140765 PMCID: PMC9498577 DOI: 10.3390/genes13091597] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2022] [Revised: 08/23/2022] [Accepted: 09/02/2022] [Indexed: 11/17/2022] Open
Abstract
Microsatellite genetic markers are the gold standard for human genetic identification. Forensic analyses around the world are carried out through protocols using the analysis of STR markers in autosomal chromosomes and in the Y chromosome to solve crimes. However, these analyses do not allow for the resolution of all cases, such as rape situations with suspicion of incest, paternity without a maternal sample for comparison, and biological traces with DNA mixture where the profile sought is female, among other situations. In these complex cases, the study of X-chromosome STR markers significantly increases the probability of identification by complementing the data obtained for autosomal and Y-chromosome markers, due to the unique structure of the X chromosome and its exclusive method of inheritance. However, there are currently no validated Brazilian protocols for this purpose, nor are there any population data necessary for statistical analyses that must be included in the issuance of expert reports. Thus, the aim of this article is to provide a literary review of the applications of X-chromosomal markers in population genetics.
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3
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Yang Q, Qian J, Shao C, Yao Y, Zhou Z, Xu H, Tang Q, Qian X, Xie J. Identification and Characterization of Nine Novel X-Chromosomal Short Tandem Repeats on Xp21.1, Xq21.31, and Xq23 Regions. Front Genet 2021; 12:784605. [PMID: 34868274 PMCID: PMC8635773 DOI: 10.3389/fgene.2021.784605] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2021] [Accepted: 10/20/2021] [Indexed: 11/13/2022] Open
Abstract
The application of X-chromosomal short tandem repeats (X-STRs) has been recognized as a powerful tool in complex kinship testing. To support further development of X-STR analysis in forensic use, we identified nine novel X-STRs, which could be clustered into three linkage groups on Xp21.1, Xq21.31, and Xq23. A multiplex PCR system was built based on the electrophoresis. A total of 198 unrelated Shanghai Han samples along with 168 samples from 43 families was collected to investigate the genetic polymorphism and forensic parameters of the nine loci. Allele numbers ranged from 5 to 12, and amplicon sizes ranged from 146 to 477 bp. The multiplex showed high values for the combined power of discrimination (0.99997977 in males and 0.99999999 in females) and combined mean exclusion chances (0.99997918 and 0.99997821 in trios, 0.99984939 in duos, and 0.99984200 in deficiency cases). The linkage between all pairs of loci was estimated via Kosambi mapping function and linkage disequilibrium test, and further investigated through the family study. The data from 43 families strongly demonstrated an independent transmission between LGs and a tight linkage among loci within the same LG. All these results support that the newly described X-STRs and the multiplex system are highly promising for further forensic use.
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Affiliation(s)
- Qinrui Yang
- Department of Forensic Medicine, School of Basic Medical Sciences, Fudan University, Shanghai, China
| | - Jinglei Qian
- Department of Forensic Medicine, School of Basic Medical Sciences, Fudan University, Shanghai, China
| | - Chengchen Shao
- Department of Forensic Medicine, School of Basic Medical Sciences, Fudan University, Shanghai, China
| | - Yining Yao
- Department of Forensic Medicine, School of Basic Medical Sciences, Fudan University, Shanghai, China
| | - Zhihan Zhou
- Department of Forensic Medicine, School of Basic Medical Sciences, Fudan University, Shanghai, China
| | - Hongmei Xu
- Department of Forensic Medicine, School of Basic Medical Sciences, Fudan University, Shanghai, China
| | - Qiqun Tang
- Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Fudan University, Shanghai, China
| | - Xiaoqin Qian
- Department of Forensic Medicine, School of Basic Medical Sciences, Fudan University, Shanghai, China
| | - Jianhui Xie
- Department of Forensic Medicine, School of Basic Medical Sciences, Fudan University, Shanghai, China
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4
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Liu L, Yao J, Huang Y, Gao L, Dai J, Yuan X, Zhang X, Nie S, Hu L. Genetic polymorphisms of 16 X-STR loci in the Hani population from Southwest China. Forensic Sci Res 2021; 7:196-201. [PMID: 35784423 PMCID: PMC9246014 DOI: 10.1080/20961790.2021.1877389] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023] Open
Affiliation(s)
- Linlin Liu
- School of Forensic Medicine, Kunming Medical University, Kunming, China
- Judicial Expertise Center, Kunming Medical University, Kunming, China
| | - Jinyong Yao
- Honghe Public Security Bureau, Honghe, China
| | | | - Lei Gao
- Honghe Public Security Bureau, Honghe, China
| | - Jiameng Dai
- School of Forensic Medicine, Kunming Medical University, Kunming, China
| | | | - Xiufeng Zhang
- School of Forensic Medicine, Kunming Medical University, Kunming, China
- Judicial Expertise Center, Kunming Medical University, Kunming, China
| | - Shengjie Nie
- School of Forensic Medicine, Kunming Medical University, Kunming, China
- Judicial Expertise Center, Kunming Medical University, Kunming, China
| | - Liping Hu
- School of Forensic Medicine, Kunming Medical University, Kunming, China
- Judicial Expertise Center, Kunming Medical University, Kunming, China
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Development and validation of a multiplex 19 X-chromosomal short tandem repeats typing system for forensic purposes. Sci Rep 2021; 11:609. [PMID: 33436869 PMCID: PMC7803774 DOI: 10.1038/s41598-020-80414-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2019] [Accepted: 12/15/2020] [Indexed: 11/20/2022] Open
Abstract
X-chromosome short tandem repeat (X-STR) markers are a powerful complementary system used for paternity and forensic casework. This study presents the development and validation of a new highly efficient multiplex-fluorescent-labeled 19 X-STR typing system, including DXS10079, DXS101, DXS10135, DXS10162, DXS6795, DXS6800, DXS6803, DXS6807, DXS6809, DXS6810, DXS7133, DXS7423, DXS981, DXS9902, DXS9907, GATA165B12, GATA172D05, GATA31E08 and HPRTB along with sex-typing locus, amelogenin. The system was validated according to guidelines issued by the Scientific Working Group on DNA Analysis Methods. Allele frequency and forensic parameters were investigated from 1085 (494 males and 591 females) unrelated Beijing Han individuals, the combined power of discrimination by the 19 X-STR loci in females and males, as well as the combined mean exclusion chance in trios and duos, were 0.999999999999999995, 0.99999999995, 0.9999999995, and 0.9999996, respectively. The results demonstrate that this multiplex system is robust and reliable, and considered to be a powerful tool for forensic application.
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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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Luo L, Gao H, Yao L, Long F, Zhang H, Zhang L, Liu Y, Yu J, Yu L, Chen P. Genetic diversity, forensic feature, and phylogenetic analysis of Guizhou Tujia population via 19 X-STRs. Mol Genet Genomic Med 2020; 8:e1473. [PMID: 32881358 PMCID: PMC7667307 DOI: 10.1002/mgg3.1473] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2020] [Revised: 07/21/2020] [Accepted: 08/04/2020] [Indexed: 12/29/2022] Open
Abstract
BACKGROUND X-chromosome short tandem repeats (X-STRs) with unique sex-linkage inheritance models play a complementary role in forensic science. Guizhou is a multiethnic province located in southwest China and some genetic evidence focusing on X-STRs for various minorities was reported. However, population data of Guizhou Tujia are scarce. METHODS A total of 507 Guizhou Tujia individuals were profiled using the AGCU X-19 STR kit. Allele frequencies and forensic parameters were calculated. Additionally, population genetic relationships between Guizhou Tujia and other 19 populations were explored. RESULTS A total of 257 alleles with the allele frequencies ranged from 0.0013 to 0.6098 were found. The combined power of discrimination in males and females and mean exclusion chances in all case scenarios were all greater than 0.99999. Population comparisons showed Guizhou Tujia had a homogeneity with all Han populations from different administrative regions, and other ethnic populations residing in Guizhou, while had obviously genetic heterogeneity with the Altaic family populations except Xibe. CONCLUSION Nineteen X-STRs can afford a reliable and informative database of Guizhou Tujia population for human identification and paternity testing, especially in complex biological relations. The genetic relationships of Chinese are significantly influenced by the geographic position and ethnolinguistic origin.
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Affiliation(s)
- Li Luo
- Key Laboratory of Cell Engineering in Guizhou ProvinceAffiliated Hospital of Zunyi Medical UniversityZunyiChina
- Center of Forensic ExpertiseAffiliated Hospital of Zunyi Medical UniversityZunyiGuizhouChina
- Shanghai Key Laboratory of Forensic MedicineShanghai Forensic Service PlatformAcademy of Forensic ScienceShanghaiChina
| | - Hongyan Gao
- Key Laboratory of Cell Engineering in Guizhou ProvinceAffiliated Hospital of Zunyi Medical UniversityZunyiChina
- Center of Forensic ExpertiseAffiliated Hospital of Zunyi Medical UniversityZunyiGuizhouChina
| | - Lilan Yao
- Key Laboratory of Cell Engineering in Guizhou ProvinceAffiliated Hospital of Zunyi Medical UniversityZunyiChina
- Center of Forensic ExpertiseAffiliated Hospital of Zunyi Medical UniversityZunyiGuizhouChina
| | - Fei Long
- Department of Forensic Biology EvidenceZunyi City Public Security BureauZunyiGuizhouChina
| | - Hao Zhang
- Key Laboratory of Cell Engineering in Guizhou ProvinceAffiliated Hospital of Zunyi Medical UniversityZunyiChina
- Center of Forensic ExpertiseAffiliated Hospital of Zunyi Medical UniversityZunyiGuizhouChina
| | - Lushun Zhang
- Department of Pathology and PathophysiologyChengdu Medical CollegeChengduChina
| | - Yong Liu
- Center of Forensic ExpertiseAffiliated Hospital of Zunyi Medical UniversityZunyiGuizhouChina
| | - Jian Yu
- Center of Forensic ExpertiseAffiliated Hospital of Zunyi Medical UniversityZunyiGuizhouChina
| | - Limei Yu
- Key Laboratory of Cell Engineering in Guizhou ProvinceAffiliated Hospital of Zunyi Medical UniversityZunyiChina
| | - Pengyu Chen
- Key Laboratory of Cell Engineering in Guizhou ProvinceAffiliated Hospital of Zunyi Medical UniversityZunyiChina
- Center of Forensic ExpertiseAffiliated Hospital of Zunyi Medical UniversityZunyiGuizhouChina
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8
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Population genetics, diversity, forensic characteristics of four Chinese populations inferred from X-chromosomal short tandem repeats. Leg Med (Tokyo) 2020; 43:101677. [PMID: 31982839 DOI: 10.1016/j.legalmed.2020.101677] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2019] [Revised: 12/17/2019] [Accepted: 01/12/2020] [Indexed: 01/10/2023]
Abstract
We genotyped 19 X-STRs included in the AGCU X19 kit in 712 unrelated Chinese individuals from four populations (Li, Hui, Tibetan, and Han) and then merged with 4156 previously genotyped subjects from 19 populations to investigate genetic relationships and population structure, as well as the association between the genetic affinity and language classification. The combined mean paternity exclusion chances and the combined probabilities of discrimination based on single allele frequencies of 19-X-STRs and haplotype frequencies of seven linkage groups were high, indicating that this set of markers was very polymorphic in the four populations studied. Therefore, this panel can complement autosomal or uniparental markers in kinship analysis and complex deficient paternity testing. Subsequently, population differentiation analyses among 23 populations based on 19 STRs and 15 populations based on over 62 million single nucleotide polymorphisms consistently demonstrated that genetic stratifications exist between the different language-speaking populations, especially Tibeto-Burman-speaking, Tungusic and Turkic-speaking populations. Our newly studied populations are genetically close to ethnolinguistically adjacent populations. Our datasets can and should be used as an allele and haplotype frequencies reference database to facilitate the use of 19-X-STRs panel in routine forensic practice.
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9
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Ren Z, Guo J, He G, Zhang H, Zou X, Zhang H, Wang Q, Ji J, Yang M, Zhang J, Zhang Z, Nabijiang Y, Huang J, Wang CC. Forensic genetic polymorphisms and population structure of the Guizhou Bouyei people based on 19 X-STR loci. Ann Hum Biol 2019; 46:574-580. [PMID: 31795774 DOI: 10.1080/03014460.2019.1697362] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Abstract
Background: Guizhou province is located in southwest China with abundant genetic, linguistic and cultural diversity. The Bouyei is one of the 18 officially recognised minority groups in Guizhou, accounting for about 97% of the total Bouyei population in China. However, the genetic history and forensic characterisation of the Bouyei people is largely unknown due to a lack of genetic data.Aim: We aim to investigate genetic polymorphisms and forensic characterisation of the Guizhou Bouyei population, as well as the relationships between the Bouyei and other East Asian populations.Subjects and methods: We genotyped 19 X-STRs in 188 males and 165 females of Guizhou Bouyei using the AGCU X19 STR Kit. We estimated allele frequencies, forensic parameters and genetic distances between the Bouyei and other East Asian populations. We presented the genetic distances in a phylogenetic tree, an MDS plot and a PCA plot.Results: In Guizhou Bouyei individuals, we observed 216 alleles with corresponding frequencies ranging from 0.0019 to 0.6757. All of the six combined powers of PDm, PDf, MEC Krüger, MEC Kishida, MEC Desmarais and MEC Desmarais in allele diversity and haplotype diversity are larger than 0.99999995. We found genetic affinities among the Bouyei people and their geographical neighbouring populations in Guizhou, such as the Sui, Miao and Han.Conclusions: The highly polymorphic and informative forensic parameters of the 19 X-STRs in Bouyei people show the powerful potential of those markers in forensic identification and parentage tests. The genetic relationships of the Bouyei with other East Asian populations correspond well with geographic affiliations as well as linguistic classifications.
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Affiliation(s)
- Zheng Ren
- Department of Forensic Medicine, Guizhou Medical University, Guiyang, China
| | - Jianxin Guo
- Department of History, Department of Anthropology and Ethnology, Institute of Anthropology, National Institute for Data Science in Health and Medicine, Xiamen University, Xiamen, China
| | - Guanglin He
- Department of History, Department of Anthropology and Ethnology, Institute of Anthropology, National Institute for Data Science in Health and Medicine, Xiamen University, Xiamen, China.,Institute of Forensic Medicine, West China School of Basic Science and Forensic Medicine, Sichuan University, Chengdu, China
| | - Han Zhang
- Department of Forensic Medicine, Guizhou Medical University, Guiyang, China
| | - Xing Zou
- Institute of Forensic Medicine, West China School of Basic Science and Forensic Medicine, Sichuan University, Chengdu, China
| | - Hongling Zhang
- Department of Forensic Medicine, Guizhou Medical University, Guiyang, China
| | - Qiyan Wang
- Department of Forensic Medicine, Guizhou Medical University, Guiyang, China
| | - Jingyan Ji
- Department of Forensic Medicine, Guizhou Medical University, Guiyang, China
| | - Meiqing Yang
- Department of Forensic Medicine, Guizhou Medical University, Guiyang, China
| | - Jing Zhang
- Department of History, Department of Anthropology and Ethnology, Institute of Anthropology, National Institute for Data Science in Health and Medicine, Xiamen University, Xiamen, China
| | - Ziqian Zhang
- Department of History, Department of Anthropology and Ethnology, Institute of Anthropology, National Institute for Data Science in Health and Medicine, Xiamen University, Xiamen, China
| | - Yilizhati Nabijiang
- Department of History, Department of Anthropology and Ethnology, Institute of Anthropology, National Institute for Data Science in Health and Medicine, Xiamen University, Xiamen, China
| | - Jiang Huang
- Department of Forensic Medicine, Guizhou Medical University, Guiyang, China
| | - Chuan-Chao Wang
- Department of History, Department of Anthropology and Ethnology, Institute of Anthropology, National Institute for Data Science in Health and Medicine, Xiamen University, Xiamen, China
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10
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Guo J, Ji J, He G, Ren Z, Zhang H, Wang Q, Yang M, Nabijiang Y, Zhang Z, Zhang J, Huang J, Wang CC. Genetic structure and forensic characterisation of 19 X-chromosomal STR loci in Guizhou Sui population. Ann Hum Biol 2019; 46:246-253. [PMID: 31179782 DOI: 10.1080/03014460.2019.1623911] [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] [Indexed: 01/10/2023]
Abstract
Background: Guizhou Sui people are an officially recognised ethnic group living in southwest China, but have seldom been studied genetically.Aim: To investigate the polymorphisms of 19 X-chromosome STR loci in a typical Sui population and enrich the East Asian X-STR reference database for forensic DNA analysis.Subjects and methods: A total of 400 Sui individuals (195 males and 205 females) were genotyped at 19 X-STR loci using the AGCU X19 STR Kit. The allele frequencies and forensic parameters were calculated and illustrated and the data of Guizhou Sui were merged with 18 other nationwide populations to explore genetic polymorphisms and population relationships.Results: A total of 215 alleles were observed with corresponding frequencies ranging from 0.0017-0.6512 in Sui using male and female pooled allele frequencies. Large values were observed, at least 0.9999999933, in combined powers of discrimination of Sui males and females, as well as the four mean paternity exclusion chances (MECs). The phylogenetic analysis among 19 populations showed that Sui have close genetic affinities with other Tai-Kadai populations, as well as the Sinitic populations living in southern China.Conclusions: The AGCU X-19 STRs are highly polymorphic and informative in Guizhou Sui people. The genetic relationships between Sui and other populations in China are generally consistent with the language classification and geographical distance.
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Affiliation(s)
- Jianxin Guo
- Department of History, Department of Anthropology and Ethnology, Institute of Anthropology, Xiamen University, Xiamen, PR China
| | - Jingyan Ji
- Department of Forensic Medicine, Guizhou Medical University, Guiyang, Guizhou, PR China
| | - Guanglin He
- Department of History, Department of Anthropology and Ethnology, Institute of Anthropology, Xiamen University, Xiamen, PR China.,Institute of Forensic Medicine, West China School of Basic Science and Forensic Medicine, Sichuan University, Chengdu, PR China
| | - Zheng Ren
- Department of Forensic Medicine, Guizhou Medical University, Guiyang, Guizhou, PR China
| | - Hongling Zhang
- Department of Forensic Medicine, Guizhou Medical University, Guiyang, Guizhou, PR China
| | - Qiyan Wang
- Department of Forensic Medicine, Guizhou Medical University, Guiyang, Guizhou, PR China
| | - Meiqing Yang
- Department of Forensic Medicine, Guizhou Medical University, Guiyang, Guizhou, PR China
| | - Yilizhati Nabijiang
- Department of History, Department of Anthropology and Ethnology, Institute of Anthropology, Xiamen University, Xiamen, PR China
| | - Ziqian Zhang
- Department of History, Department of Anthropology and Ethnology, Institute of Anthropology, Xiamen University, Xiamen, PR China
| | - Jing Zhang
- Department of History, Department of Anthropology and Ethnology, Institute of Anthropology, Xiamen University, Xiamen, PR China
| | - Jiang Huang
- Department of Forensic Medicine, Guizhou Medical University, Guiyang, Guizhou, PR China
| | - Chuan-Chao Wang
- Department of History, Department of Anthropology and Ethnology, Institute of Anthropology, Xiamen University, Xiamen, PR China
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Li Y, Li X, Chen W, Fan Y, Xie M, Wu J. Allele and haplotype frequencies of 19 X-STRs in the Kyrgyz and Han populations from Kizilsu Prefecture. Forensic Sci Int Genet 2019; 40:e259-e261. [DOI: 10.1016/j.fsigen.2019.02.007] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2018] [Revised: 02/06/2019] [Accepted: 02/06/2019] [Indexed: 01/22/2023]
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12
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Ferragut JF, Pinto N, Amorim A, Picornell A. Improving publication quality and the importance of Post Publication Peer Review: The illustrating example of X chromosome analysis and calculation of forensic parameters. Forensic Sci Int Genet 2018; 38:e5-e7. [PMID: 30455113 DOI: 10.1016/j.fsigen.2018.11.006] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2018] [Revised: 10/22/2018] [Accepted: 11/06/2018] [Indexed: 01/17/2023]
Affiliation(s)
- J F Ferragut
- Institut Universitari d'Investigació en Ciències de la Salut (IUNICS) i Laboratori de Genètica, Departament de Biologia, Universitat de les Illes Balears, Spain.
| | - N Pinto
- IPATIMUP, Institute of Molecular Pathology and Immunology of the University of Porto, Porto, Portugal; I3s, Instituto de Investigação e Inovação em Saúde, Universidade do Porto, Porto, Portugal; CMUP, Center of Mathematics of the University of Porto, Porto, Portugal
| | - A Amorim
- IPATIMUP, Institute of Molecular Pathology and Immunology of the University of Porto, Porto, Portugal; I3s, Instituto de Investigação e Inovação em Saúde, Universidade do Porto, Porto, Portugal; FCUP - Faculty of Sciences of the University of Porto, Portugal
| | - A Picornell
- Institut Universitari d'Investigació en Ciències de la Salut (IUNICS) i Laboratori de Genètica, Departament de Biologia, Universitat de les Illes Balears, Spain
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13
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Genetic structure and polymorphisms of Gelao ethnicity residing in southwest china revealed by X-chromosomal genetic markers. Sci Rep 2018; 8:14585. [PMID: 30275508 PMCID: PMC6167355 DOI: 10.1038/s41598-018-32945-7] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2018] [Accepted: 09/19/2018] [Indexed: 01/10/2023] Open
Abstract
X-chromosome short tandem repeat markers (X-STRs), due to their special inheritance models, physical location on a single chromosome and the absence of recombination in male meiosis, play an important role in forensic and population genetics. While a series of genetic analyses focusing on the genetic diversity and forensic characteristics of X-STRs are well studied for ethnically/linguistically diverse and demographically large Chinese populations, genetic evidence from Gelao ethnicity is still sparse. Here, we genotyped the first batch of 19 X-STRs in 513 Chinese Gelao individuals (265 females and 248 males), and reported genetic polymorphisms, forensic characteristics based on the single locus and seven linkage groups. DXS10135 with the highest PIC (0.9106) and LG1 (DXS10148-DXS10135-DXS8378) with the largest HD (0.9970) are polymorphic and informative. The CPDs in Gelao males and females are respectively larger than 0.999999999997095 and 0.99999999999999999999918, and the combined MECs are larger than 0.999999975715109. Subsequently, we investigated the population relationships among 14 Chinese populations based on 19 X-STRs and among 23 populations based on 11 overlapped X-STRs. Our results revealed genetic differentiations among Tibeto-Burman, Altaic and other Chinese homogenous populations, and demonstrated that Guizhou Gelao has the genetically closer relationships with Han Chinese and geographically close Guizhou Miao.
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Forensic characterization and genetic polymorphisms of 19 X-chromosomal STRs in 1344 Han Chinese individuals and comprehensive population relationship analyses among 20 Chinese groups. PLoS One 2018; 13:e0204286. [PMID: 30235314 PMCID: PMC6147642 DOI: 10.1371/journal.pone.0204286] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2018] [Accepted: 09/04/2018] [Indexed: 01/10/2023] Open
Abstract
X-chromosomal short tandem repeats (X-STRs) may assist resolution of complex forensic kinship cases and complement autosomal and Y-chromosomal STRs in routine forensic practice and population genetics. In the present study, we investigated the allele/haplotype diversity and forensic genetic characteristics of 19 X- STRs in 206 Guizhou Han and 1344 Meta-Han Chinese individuals using AGCU X19 PCR amplification system. Population relationships within five Han Chinese population groups (1344 individuals), between Guizhou Han and other 19 Chinese reference populations belonging to four language families (5074 individuals), as well as between Meta-Han Chinese and other 15 minorities (3730 individuals) were performed using Reynolds’s, Nei’s and Fst genetic distances, principal component analysis (PCA), multidimensional scaling (MDS), Structure and Neighbor-Joining tree. Mean paternity exclusion chance (MEC) in Duos > 0.99999999453588 and in trios > 0.99999999999781, as well as power of discrimination (PD) > 0.99999999999980 in Guizhou Han on the basis of allele frequencies. Consistent high MECs and PDs can be observed in Meta-Han Chinese population based on both allele diversities of 19 markers and haplotype diversities of seven linkage groups (LG). DXS10135 and LG1 are the most informative and polymorphic in Han Chinese group. The comprehensive population comparisons reveal that Han Chinese is a homogenous population and has the genetically closer relationship with Hmong-Mien-speaking groups than Tibetan-Burman-speaking and Turkic-speaking populations. In summary, AGCU X19 PCR amplification system is highly polymorphic and informative in Guizhou Han and Han Chinese populations. The comprehensive population data from 20 Chinese populations analyzed in this study may be used as a reference Chinese frequency database of X-STRs for forensic casework applications.
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15
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Chen L, Guo Y, Xiao C, Wu W, Lan Q, Fang Y, Chen J, Zhu B. Genetic polymorphisms and forensic efficiency of 19 X-chromosomal STR loci for Xinjiang Mongolian population. PeerJ 2018; 6:e5117. [PMID: 30002965 PMCID: PMC6034600 DOI: 10.7717/peerj.5117] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2017] [Accepted: 06/05/2018] [Indexed: 01/10/2023] Open
Abstract
Aim X-chromosomal short tandem repeat (X-STR) loci are playing an increasingly important role in some complex kinship cases in recent years. To investigate the forensic efficiency of X-STRs of Mongolian minority group from Xinjiang Uygur Autonomous Region, China, and further depict the genetic relationship among Xinjiang Mongolians and other populations, 267 blood samples from unrelated healthy Xinjiang Mongolians were amplified by an AGCU X-19 STR kit. Results No deviations for all 19 X-STR loci were observed from the Hardy-Weinberg equilibrium after Bonferroni correction (p > 0.0026) in female samples. The most frequent allele was allele 10 at locus DXS10164 with the frequency 0.5663. The polymorphism information content values of the 19 X-STR loci were more than 0.5 with the highest polymorphism at the locus DXS10135. The cumulative power of discrimination were 0.99999999999999999999988761005481 in females and 0.999999999999903 in males, respectively; and the cumulative mean exclusion chances were 0.9999999969738068321121 in duos and 0.999999999998952 in trios, respectively. The seven linkage groups were extremely informative, with all the haplotype diversities greater than 0.9487. No linkage disequilibrium was observed for a significance level of 0.00029 (p = 0.05/171) after Bonferroni correction. The DA distances, multidimensional scaling plot and phylogenetic tree based on the 11 overlapping X-STR loci all presented that the Xinjiang Mongolian population was genetically different from other Asian populations, including the Mongolian population from Inner Mongolia Autonomous Region, China. Conclusion This study indicated that the 19 X-STR multiplex PCR system was of high utility value for both forensic practices and population genetic research in Xinjiang Mongolian group.
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Affiliation(s)
- Ling Chen
- Department of Forensic Biology, School of Forensic Medicine, Southern Medical University, Guangzhou, Guangdong, China
| | - Yuxin Guo
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi, China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi, China
| | - Cheng Xiao
- Department of Forensic Biology, School of Forensic Medicine, Southern Medical University, Guangzhou, Guangdong, China
| | - Weibin Wu
- Department of Forensic Biology, School of Forensic Medicine, Southern Medical University, Guangzhou, Guangdong, China
| | - Qiong Lan
- Department of Forensic Biology, School of Forensic Medicine, Southern Medical University, Guangzhou, Guangdong, China
| | - Yating Fang
- Department of Forensic Biology, School of Forensic Medicine, Southern Medical University, Guangzhou, Guangdong, China
| | - Jiangang Chen
- Institute of Forensic Science, Ministry of Public Security, Beijing, China
| | - Bofeng Zhu
- Department of Forensic Biology, School of Forensic Medicine, Southern Medical University, Guangzhou, Guangdong, China.,Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi, China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi, China
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16
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He G, Li Y, Zou X, Wang M, Chen P, Liao M, Wu J. Genetic polymorphisms for 19 X-STR loci of Sichuan Han ethnicity and its comparison with Chinese populations. Leg Med (Tokyo) 2017; 29:6-12. [PMID: 28938133 DOI: 10.1016/j.legalmed.2017.09.001] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2017] [Revised: 08/22/2017] [Accepted: 09/14/2017] [Indexed: 01/18/2023]
Abstract
X-chromosomal short tandem repeats (X-STRs) can be serviced as a complementary tool in forensic deficiency cases and other complicated kinship identification. To investigate the genetic variation of the western Chinese Han population, genetic polymorphisms of 19 X-STR loci (DXS8378, DXS7423, DXS10148, DXS10159, DXS10134, DXS7424, DXS10164, DXS10162, DXS7132, DXS10079, DXS6789, DXS101, DXS10103, DXS10101, HPRTB, DXS6809, DXS10075, DXS10074 and DXS10135) included in the AGCU X19 PCR amplification kit were obtained from 201 Chinese Han individuals (108 females and 93 males) residing in Sichuan province, western China. A total of 211 alleles were found from the 19 X-STR loci, and 4-22 alleles were found for each locus with the corresponding allele frequencies spanned from 0.0034 to 0.6395. The combined PDF and PDM were 0.9999999999999999999992 and 0.9999999999997, respectively. The combined MECKrüger, MECKishida, MECDesmarais as well as MECDesmarais Duo were 0.999999958110254, 0.999999999996533, 0.999999999996695 and 0.999999992428394, respectively. The number of haplotypes observed in the seven linkage groups varied from 27 to 97 for 108 male individuals with the corresponding haplotype diversities spanned from 0.9424 (DXS7424-DXS101) to 0.9979 (DXS7132-DXS10079-DXS10075-DXS10074). The above-mentioned results indicated that the 19 X-STR loci and the seven linkage groups are highly polymorphic and informative in the Sichuan Han population. Results from population comparisons and phylogenetic analyses demonstrated that genetic heterogeneity widely existed between the Sichuan Han population and Xinjiang minority ethnic groups (Uyghur and Kazakh) and genetic affinity was identified in populations which possessed the same ethno-origin or close geographic origin.
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Affiliation(s)
- Guanglin He
- Department of Forensic Genetics, West China School of Basic Sciences and Forensic Medicine, Sichuan University (West China University of Medical Sciences), Chengdu, 610041 Sichuan, China
| | - Ye Li
- Department of Forensic Genetics, West China School of Basic Sciences and Forensic Medicine, Sichuan University (West China University of Medical Sciences), Chengdu, 610041 Sichuan, China
| | - Xing Zou
- Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University, Chongqing 400016, China
| | - Mengge Wang
- Department of Forensic Genetics, West China School of Basic Sciences and Forensic Medicine, Sichuan University (West China University of Medical Sciences), Chengdu, 610041 Sichuan, China
| | - Pengyu Chen
- Center of Forensic Expertise, Affiliated Hospital of Zunyi Medical University, Zunyi, 563099 Guizhou, China; Department of Forensic Medicine, Zunyi Medical University, Zunyi, 563099 Guizhou, China
| | - Miao Liao
- Department of Forensic Genetics, West China School of Basic Sciences and Forensic Medicine, Sichuan University (West China University of Medical Sciences), Chengdu, 610041 Sichuan, China
| | - Jin Wu
- Department of Forensic Genetics, West China School of Basic Sciences and Forensic Medicine, Sichuan University (West China University of Medical Sciences), Chengdu, 610041 Sichuan, China.
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17
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Wang J, Wu CJ, Bao ML, Zhang J, Wang XN, Zhang YD. Machine learning-based analysis of MR radiomics can help to improve the diagnostic performance of PI-RADS v2 in clinically relevant prostate cancer. Eur Radiol 2017; 27:4082-4090. [PMID: 28374077 DOI: 10.1007/s00330-017-4800-5] [Citation(s) in RCA: 156] [Impact Index Per Article: 22.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2017] [Accepted: 03/13/2017] [Indexed: 12/22/2022]
Abstract
OBJECTIVE To investigate whether machine learning-based analysis of MR radiomics can help improve the performance PI-RADS v2 in clinically relevant prostate cancer (PCa). METHODS This IRB-approved study included 54 patients with PCa undergoing multi-parametric (mp) MRI before prostatectomy. Imaging analysis was performed on 54 tumours, 47 normal peripheral (PZ) and 48 normal transitional (TZ) zone based on histological-radiological correlation. Mp-MRI was scored via PI-RADS, and quantified by measuring radiomic features. Predictive model was developed using a novel support vector machine trained with: (i) radiomics, (ii) PI-RADS scores, (iii) radiomics and PI-RADS scores. Paired comparison was made via ROC analysis. RESULTS For PCa versus normal TZ, the model trained with radiomics had a significantly higher area under the ROC curve (Az) (0.955 [95% CI 0.923-0.976]) than PI-RADS (Az: 0.878 [0.834-0.914], p < 0.001). The Az between them was insignificant for PCa versus PZ (0.972 [0.945-0.988] vs. 0.940 [0.905-0.965], p = 0.097). When radiomics was added, performance of PI-RADS was significantly improved for PCa versus PZ (Az: 0.983 [0.960-0.995]) and PCa versus TZ (Az: 0.968 [0.940-0.985]). CONCLUSION Machine learning analysis of MR radiomics can help improve the performance of PI-RADS in clinically relevant PCa. KEY POINTS • Machine-based analysis of MR radiomics outperformed in TZ cancer against PI-RADS. • Adding MR radiomics significantly improved the performance of PI-RADS. • DKI-derived Dapp and Kapp were two strong markers for the diagnosis of PCa.
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Affiliation(s)
- Jing Wang
- Center for Medical Device Evaluation, CFDA, Beijing, China, 100044
| | - Chen-Jiang Wu
- Department of Radiology, the First Affiliated Hospital with Nanjing Medical University, 300, Guangzhou Road, Nanjing, Jiangsu Province, China, 210009
| | - Mei-Ling Bao
- Department of Pathology, the First Affiliated Hospital with Nanjing Medical University, Nanjing, China, 210009
| | - Jing Zhang
- Department of Radiology, the First Affiliated Hospital with Nanjing Medical University, 300, Guangzhou Road, Nanjing, Jiangsu Province, China, 210009
| | - Xiao-Ning Wang
- Department of Radiology, the First Affiliated Hospital with Nanjing Medical University, 300, Guangzhou Road, Nanjing, Jiangsu Province, China, 210009
| | - Yu-Dong Zhang
- Department of Radiology, the First Affiliated Hospital with Nanjing Medical University, 300, Guangzhou Road, Nanjing, Jiangsu Province, China, 210009.
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18
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He G, Li Y, Zou X, Li P, Chen P, Song F, Gao T, Liao M, Yan J, Wu J. Forensic characteristics and phylogenetic analyses of the Chinese Yi population via 19 X-chromosomal STR loci. Int J Legal Med 2017; 131:1243-1246. [PMID: 28246934 DOI: 10.1007/s00414-017-1563-0] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2017] [Accepted: 02/14/2017] [Indexed: 01/19/2023]
Abstract
The demographic characteristics and genetic polymorphism data of 56 Chinese nationalities or 31 administrative divisions in Chinese mainland have repeatedly been the genetic research hotspots. While most genetic studies focused on some particular Chinese populations based on autosomal or Y-chromosomal genetic markers, the forensic characteristics and phylogenetic analyses of the seventh largest Chinese population (Yi ethnicity) on the X-chromosomal genetic markers are scarce. Here, allele frequencies and forensic statistical parameters for 19 X-chromosomal short tandem repeat loci (DXS7424-DXS101, DXS6789-DXS6809, DXS7423-DXS10134, DXS10103-HPRTB-DXS10101, DXS10159-DXS10162-DXS10164, DXS10148-DXS10135-DXS8378, and DXS7132-DXS10079-DXS10074-DXS10075) of 331 Chinese Yi individuals were obtained. All 19 X-chromosomal short tandem repeat (STR) loci in females were consistent with the Hardy-Weinberg equilibrium test. A total of 214 alleles were identified with the corresponding allele frequencies spanned from 0.0019 to 0.6106. The combined PE, PDF, and PDM were 0.9999999214, 0.9999999999999999999993, and 0.9999999999998, respectively. The high combined MECKrüger, MECKishida, MECDesmarais, and MECDesmarais Duo were achieved as 0.9999999617638, 0.9999999999971, 0.9999999999971, and 0.9999999931538, respectively. The findings suggested that the panel of 19 X-STR loci is highly polymorphic and informative in the Yi ethnic population and can be considered to be a powerful tool in forensic complex kinship identification. Population differentiation analyses among 12 populations indicated that significant differences in genetic structure were observed in between the Yi ethnicity and the Chinese Uyghur as well as Kazakh, and genetic homogeneity existed in similar ethno-origin or geographic origin populations.
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Affiliation(s)
- GuangLin He
- Department of Forensic Genetics, West China School of Preclinical and Forensic Medicine, Sichuan University (West China University of Medical Sciences), Chengdu, Sichuan, 610041, China
| | - Ye Li
- Department of Forensic Genetics, West China School of Preclinical and Forensic Medicine, Sichuan University (West China University of Medical Sciences), Chengdu, Sichuan, 610041, China
| | - Xing Zou
- Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University, Chongqing, 400016, China
| | - Ping Li
- Department of Forensic Genetics, Institute of Forensic Science, Guangzhou Public Security Bureau, Guangzhou, Guangdong, 510000, China
| | - PengYu Chen
- Center of Forensic Expertise, Affiliated Hospital of Zunyi Medical University, Zunyi, Guizhou, 563099, China.,Department of Forensic Medicine, Zunyi Medical University, Zunyi, Guizhou, 563099, China
| | - Feng Song
- Department of Forensic Genetics, West China School of Preclinical and Forensic Medicine, Sichuan University (West China University of Medical Sciences), Chengdu, Sichuan, 610041, China
| | - Tianzhen Gao
- Department of Forensic Genetics, West China School of Preclinical and Forensic Medicine, Sichuan University (West China University of Medical Sciences), Chengdu, Sichuan, 610041, China
| | - Miao Liao
- Department of Forensic Genetics, West China School of Preclinical and Forensic Medicine, Sichuan University (West China University of Medical Sciences), Chengdu, Sichuan, 610041, China
| | - Jing Yan
- Department of Forensic Genetics, West China School of Preclinical and Forensic Medicine, Sichuan University (West China University of Medical Sciences), Chengdu, Sichuan, 610041, China
| | - Jin Wu
- Department of Forensic Genetics, West China School of Preclinical and Forensic Medicine, Sichuan University (West China University of Medical Sciences), Chengdu, Sichuan, 610041, China.
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19
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Yang X, Zhang X, Zhu J, Chen L, Liu C, Feng X, Chen L, Wang H, Liu C. Genetic analysis of 19 X chromosome STR loci for forensic purposes in four Chinese ethnic groups. Sci Rep 2017; 7:42782. [PMID: 28211539 PMCID: PMC5314363 DOI: 10.1038/srep42782] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2016] [Accepted: 01/16/2017] [Indexed: 12/13/2022] Open
Abstract
A new 19 X- short tandem repeat (STR) multiplex PCR system has recently been developed, though its applicability in forensic studies has not been thoroughly assessed. In this study, 932 unrelated individuals from four Chinese ethnic groups (Han, Tibet, Uighur and Hui) were successfully genotyped using this new multiplex PCR system. Our results showed significant linkage disequilibrium between markers DXS10103 and DXS10101 in all four ethnic groups; markers DXS10159 and DXS10162, DXS6809 and DXS6789, and HPRTB and DXS10101 in Tibetan populations; and markers DXS10074 and DXS10075 in Uighur populations. The combined powers of discrimination in males and females were calculated according to haplotype frequencies from allele distributions rather than haplotype counts in the relevant population and were high in four ethnic groups. The cumulative powers of discrimination of the tested X-STR loci were 1.000000000000000 and 0.999999999997940 in females and males, respectively. All 19 X-STR loci are highly polymorphic. The highest Reynolds genetic distances were observed for the Tibet-Uighur pairwise comparisons. This study represents an extensive report on X-STR marker variation in minor Chinese populations and a comprehensive analysis of the diversity of these 19 X STR markers in four Chinese ethnic groups.
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Affiliation(s)
- Xingyi Yang
- Department of Forensic Medicine, School of Basic Medical Sciences, Southern Medical University, Guangzhou, Guangdong Province 510515, P.R. China.,Guangzhou Forensic Science Institute, Guangdong Province Key Laboratory of Forensic Genetics, Guangzhou 510030, P.R. China
| | - Xiaofang Zhang
- Department of Forensic Medicine, School of Basic Medical Sciences, Southern Medical University, Guangzhou, Guangdong Province 510515, P.R. China.,Guangzhou Forensic Science Institute, Guangdong Province Key Laboratory of Forensic Genetics, Guangzhou 510030, P.R. China
| | - Junyong Zhu
- Guangzhou Forensic Science Institute, Guangdong Province Key Laboratory of Forensic Genetics, Guangzhou 510030, P.R. China
| | - Linli Chen
- AGCU ScienTech Incorporation, Wuxi 214174, P.R. China
| | - Changhui Liu
- Guangzhou Forensic Science Institute, Guangdong Province Key Laboratory of Forensic Genetics, Guangzhou 510030, P.R. China
| | - Xingling Feng
- Department of Forensic Medicine, School of Basic Medical Sciences, Southern Medical University, Guangzhou, Guangdong Province 510515, P.R. China.,Guangzhou Forensic Science Institute, Guangdong Province Key Laboratory of Forensic Genetics, Guangzhou 510030, P.R. China
| | - Ling Chen
- Department of Forensic Medicine, School of Basic Medical Sciences, Southern Medical University, Guangzhou, Guangdong Province 510515, P.R. China
| | - Huijun Wang
- Department of Forensic Medicine, School of Basic Medical Sciences, Southern Medical University, Guangzhou, Guangdong Province 510515, P.R. China
| | - Chao Liu
- Department of Forensic Medicine, School of Basic Medical Sciences, Southern Medical University, Guangzhou, Guangdong Province 510515, P.R. China.,Guangzhou Forensic Science Institute, Guangdong Province Key Laboratory of Forensic Genetics, Guangzhou 510030, P.R. China
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20
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Deng C, Song F, Li J, Ye Y, Zhang L, Liang W, Luo H, Li Y. Forensic parameters of 19 X-STR polymorphisms in two Chinese populations. Int J Legal Med 2017; 131:975-977. [DOI: 10.1007/s00414-017-1538-1] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2016] [Accepted: 01/10/2017] [Indexed: 02/02/2023]
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21
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Liu YS, Meng HT, Mei T, Zhang LP, Chen JG, Zhang YD, Chen J, Guo YX, Dong Q, Yan JW, Zhu BF. Genetic diversity and haplotypic structure of Chinese Kazak ethnic group revealed by 19 STRs on the X chromosome. Gene 2016; 600:64-69. [PMID: 27840163 DOI: 10.1016/j.gene.2016.11.018] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2016] [Revised: 10/31/2016] [Accepted: 11/08/2016] [Indexed: 01/10/2023]
Abstract
X-chromosomal short tandem repeats (X-STRs) have been widely used in forensic practices involving complicated ties of kinship over the past years, and also play an increasingly important role in population genetics. To study the genetic polymorphisms of 19 STR loci on X chromosome in Chinese Kazak ethnic group, we investigated the allelic and haplotypic frequencies of the 19 loci in 300 (149 males and 151 females) unrelated healthy individuals from Ili Kazak Autonomous Prefecture, Xinjiang Uigur Autonomous Region of China after having evaluated the forensic application value of these loci in forensic sciences, and then compared the population distinctions between the Kazak group and other reference groups. We observed a total of 240 alleles at these X-STR loci with the corresponding allelic frequencies ranging from 0.0017 to 0.5917. In the study, the highest polymorphism was found at DXS10135 locus. The combined power of discrimination in females was 0.999999999999999999999985 and in males 0.999999999999968. The present study indicates that the 19 X-STR loci are very useful for both forensic identification cases and kinship analyses involving a female offspring.
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Affiliation(s)
- Yao-Shun Liu
- Department of Forensic Genetics, School of Forensic Medicine, Southern Medical University, Guangzhou, Guangdong 510515, PR China; Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, PR China; Department of Biochemistry, Preclinical Medicine College, Xinjiang Medical University, Urumqi 830011, PR China
| | - Hao-Tian Meng
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, PR China
| | - Ting Mei
- Department of Biochemistry, Preclinical Medicine College, Xinjiang Medical University, Urumqi 830011, PR China
| | - Li-Ping Zhang
- Department of Biochemistry, Preclinical Medicine College, Xinjiang Medical University, Urumqi 830011, PR China
| | - Jian-Gang Chen
- Department of Biochemistry, Preclinical Medicine College, Xinjiang Medical University, Urumqi 830011, PR China
| | - Yu-Dang Zhang
- Anhui Public Security Bureau Evidence Identification Center, Anhui 518054, PR China
| | - Jing Chen
- Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Yu-Xin Guo
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, PR China
| | - Qian Dong
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, PR China
| | - Jiang-Wei Yan
- Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, PR China
| | - Bo-Feng Zhu
- Department of Forensic Genetics, School of Forensic Medicine, Southern Medical University, Guangzhou, Guangdong 510515, PR China.
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