1
|
Cho S, Shin E, Park Y, You H, Lee EY, Lee JE, Lee SD. Validation of the Utility of the Genetically Shared Regions of Chromosomes (GD-ICS) Measuring Method in Identifying Complicated Genetic Relatedness. J Korean Med Sci 2024; 39:e198. [PMID: 39015000 PMCID: PMC11249576 DOI: 10.3346/jkms.2024.39.e198] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/19/2024] [Accepted: 05/29/2024] [Indexed: 07/18/2024] Open
Abstract
BACKGROUND Relatives share more genomic regions than unrelated individuals, with closer relatives sharing more regions. This concept, paired with the increased availability of high-throughput single nucleotide polymorphism (SNP) genotyping technologies, has made it feasible to measure the shared chromosomal regions between individuals to assess their level of relation to each other. However, such techniques have remained in the conceptual rather than practical stages in terms of applying measures or indices. Recently, we developed an index called "genetic distance-based index of chromosomal sharing (GD-ICS)" utilizing large-scale SNP data from Korean family samples and demonstrated its potential for practical applications in kinship determination. In the current study, we present validation results from various real cases demonstrating the utility of this method in resolving complex familial relationships where information obtained from traditional short tandem repeats (STRs) or lineage markers is inconclusive. METHODS We obtained large-scale SNP data through microarray analysis from Korean individuals involving 13 kinship cases and calculated GD-ICS values using the method described in our previous study. Based on the GD-ICS reference constructed for Korean families, each disputed kinship was evaluated and validated using a combination of traditional STRs and lineage markers. RESULTS The cases comprised those A) that were found to be inconclusive using the traditional approach, B) for which it was difficult to apply traditional testing methods, and C) that were more conclusively resolved using the GD-ICS method. This method has overcome the limitations faced by traditional STRs in kinship testing, particularly in a paternity case with STR mutational events and in confirming distant kinship where the individual of interest is unavailable for testing. It has also been demonstrated to be effective in identifying various relationships without specific presumptions and in confirming a lack of genetic relatedness between individuals. CONCLUSION This method has been proven effective in identifying familial relationships across diverse complex and practical scenarios. It is not only useful when traditional testing methods fail to provide conclusive results, but it also enhances the resolution of challenging kinship cases, which suggests its applicability in various types of practical casework.
Collapse
Affiliation(s)
- Sohee Cho
- Institute of Forensic and Anthropological Science, Seoul National University Medical Research Center, Seoul, Korea
| | | | | | - Haeun You
- Department of Forensic Medicine, Seoul National University College of Medicine, Seoul, Korea
| | - Eun Young Lee
- Institute of Forensic and Anthropological Science, Seoul National University Medical Research Center, Seoul, Korea
| | | | - Soong Deok Lee
- Institute of Forensic and Anthropological Science, Seoul National University Medical Research Center, Seoul, Korea
- Department of Forensic Medicine, Seoul National University College of Medicine, Seoul, Korea.
| |
Collapse
|
2
|
Than KZ, Muisuk K, Woravatin W, Suwannapoom C, Srikummool M, Srithawong S, Lorphengsy S, Kutanan W. Genetic Structure and Forensic Utility of 23 Autosomal STRs of the Ethnic Lao Groups From Laos and Thailand. Front Genet 2022; 13:954586. [PMID: 35873476 PMCID: PMC9300924 DOI: 10.3389/fgene.2022.954586] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2022] [Accepted: 06/20/2022] [Indexed: 11/30/2022] Open
Abstract
The Lao Isan and Laotian are the major groups in the area of present-day northeastern Thailand and Laos, respectively. Several previous genetic and forensic studies indicated an admixed genetic structure of Lao Isan with the local Austroasiatic speaking groups, e.g. Khmer, whereas there is a paucity of reporting Laotian’s forensic short tandem repeats (STRs). Here, we newly generated 451 genotypes of seven Lao Isan and three Laotian populations (two Lao Lum and one Lao Thoeng) using 23 autosomal STRs embedded in VerifilerTM plus PCR Amplification kit. We reported allelic frequency and forensic parameters in different dataset: combined ethnic Lao groups, combined Lao Isan populations and combined Laotians. Overall, the forensic parameter results indicate that this set of STRs is suitable for forensic investigation. The anthropological results revealed the genetic homogeneity of Tai-Kadai speaking Lao groups from Thailand and Laos, consistent with previous studies, while the Austroasiatic speaking groups from southern Laos showed genetic relatedness to both Lao Isan and Khmer. In sum, STRs allelic frequency results can provide the genetic backgrounds of populations which is useful for anthropological research and also strengthens the regional forensic database in both countries.
Collapse
Affiliation(s)
- Khaing Zin Than
- Biological Science Program, Faculty of Science, Khon Kaen University, Khon Kaen, Thailand
| | - Kanha Muisuk
- Department of Forensic Medicine, Faculty of Medicine, Khon Kaen University, Khon Kaen, Thailand
| | - Wipada Woravatin
- Department of Biology, Faculty of Science, Khon Kaen University, Khon Kaen, Thailand
| | | | - Metawee Srikummool
- Department of Biochemistry, Faculty of Medical Science, Naresuan University, Phitsanulok, Thailand
| | - Suparat Srithawong
- Department of Biology, Faculty of Science, Khon Kaen University, Khon Kaen, Thailand
| | - Sengvilay Lorphengsy
- The Biotechnology and Ecology Institute Ministry of Science and Technology, Vientiane, Laos
| | - Wibhu Kutanan
- Department of Biology, Faculty of Science, Khon Kaen University, Khon Kaen, Thailand
- *Correspondence: Wibhu Kutanan,
| |
Collapse
|
3
|
Population data for 15 autosomal STR loci in Orang Asli subgroups of Peninsular Malaysia. Int J Legal Med 2021; 136:547-549. [PMID: 34608538 DOI: 10.1007/s00414-021-02718-5] [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: 07/24/2021] [Accepted: 09/27/2021] [Indexed: 10/20/2022]
Abstract
Short tandem repeats (STRs) data for the Orang Asli population in Peninsular Malaysia is still scanty, especially for specific Orang Asli subgroups. The Orang Asli is believed as the earliest population arrived in Peninsular Malaysia about 50,000 years ago and currently makes up only 0.6% of the total population of Malaysia. This study reports the allele frequencies and several forensic statistical parameters for 15 autosomal STR loci for six Orang Asli subgroups. A total of 164 Orang Asli individuals representing the Semai, Che Wong, Orang Kanaq, Lanoh, Bateq, and Kensui subgroups were recruited for this study. This STR data will enrich the existing Malaysian autosomal STR database and will be useful for kinship testing and forensic applications.
Collapse
|
4
|
Mawan A, Prakhun N, Muisuk K, Srithawong S, Srikummool M, Kampuansai J, Shoocongdej R, Inta A, Ruangchai S, Kutanan W. Autosomal Microsatellite Investigation Reveals Multiple Genetic Components of the Highlanders from Thailand. Genes (Basel) 2021; 12:383. [PMID: 33800398 PMCID: PMC8000784 DOI: 10.3390/genes12030383] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2021] [Revised: 03/02/2021] [Accepted: 03/03/2021] [Indexed: 11/18/2022] Open
Abstract
The hill tribes of northern Thailand comprise nine officially recognized groups: the Austroasiatic-speaking (AA) Khmu, Htin and Lawa; the Hmong-Mien-speaking (HM) IuMien and Hmong; and the Sino-Tibetan-speaking (ST) Akha, Karen, Lahu and Lisu. Except the Lawa, the rest of the hill tribes migrated into their present habitats only very recently. The Thai hill tribes were of much interest to research groups focusing on study of cultural and genetic variation because of their unique languages and cultures. So far, there have been several genetic studies of the Thai hill tribes. However, complete forensic microsatellite database of the Thai hill tribes is still lacking. To construct such database, we newly generated 654 genotypes of 15 microsatellites commonly used in forensic investigation that belong to all the nine hill tribes and also non-hill tribe highlanders from northern Thailand. We also combined 329 genotypes from previous studies of northern Thai populations bringing to a total of 983 genotypes, which were then subjected to genetic structure and population relationships analyses. Our overall results indicated homogenous genetic structure within the HM- and Tai-Kadai (TK)-speaking groups, large genetic divergence of the HM-speaking Hmong but not IuMien from the other Thai groups, and genetic heterogeneity within the ST- and AA-speaking groups, reflecting different population interactions and admixtures. In addition to establishing genetic relationships within and among these populations, our finding, which provides a more complete picture of the forensic microsatellite database of the multiple Thai highland dwellers, would not only serve to expand and strengthen forensic investigation in Thailand, but would also benefit its neighboring countries of Laos and Myanmar, from which many of the Thai hill tribes originated and where large populations of these ethnic groups still reside.
Collapse
Affiliation(s)
- Aornpriya Mawan
- Department of Biology, Faculty of Science, Khon Kaen University, Khon Kaen 40002, Thailand; (A.M.); (N.P.); (S.S.)
| | - Nonglak Prakhun
- Department of Biology, Faculty of Science, Khon Kaen University, Khon Kaen 40002, Thailand; (A.M.); (N.P.); (S.S.)
| | - Kanha Muisuk
- Department of Forensic Medicine, Faculty of Medicine, Khon Kaen University, Khon Kaen 40002, Thailand;
| | - Suparat Srithawong
- Department of Biology, Faculty of Science, Khon Kaen University, Khon Kaen 40002, Thailand; (A.M.); (N.P.); (S.S.)
| | - Metawee Srikummool
- Department of Biochemistry, Faculty of Medical Science, Naresuan University, Phitsanulok 65000, Thailand;
| | - Jatupol Kampuansai
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50202, Thailand; (J.K.); (A.I.)
- Research Center in Bioresources for Agriculture, Industry and Medicine, Chiang Mai University, Chiang Mai 50202, Thailand
| | - Rasmi Shoocongdej
- Department of Archaeology, Faculty of Archaeology, Silpakorn University, Bangkok 10200, Thailand;
| | - Angkhana Inta
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50202, Thailand; (J.K.); (A.I.)
- Research Center in Bioresources for Agriculture, Industry and Medicine, Chiang Mai University, Chiang Mai 50202, Thailand
| | - Sukhum Ruangchai
- Department of Physics, Faculty of Science, Khon Kaen University, Khon Kaen 40002, Thailand;
| | - Wibhu Kutanan
- Department of Biology, Faculty of Science, Khon Kaen University, Khon Kaen 40002, Thailand; (A.M.); (N.P.); (S.S.)
| |
Collapse
|
5
|
Valle-Silva GD, Souza FDND, Marcorin L, Pereira ALE, Carratto TMT, Debortoli G, Oliveira MLGD, Fracasso NCDA, Andrade ESD, Donadi EA, Norton HL, Parra EJ, Simões AL, Castelli EC, Mendes-Junior CT. Applicability of the SNPforID 52-plex panel for human identification and ancestry evaluation in a Brazilian population sample by next-generation sequencing. Forensic Sci Int Genet 2019; 40:201-209. [DOI: 10.1016/j.fsigen.2019.03.003] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2018] [Revised: 02/19/2019] [Accepted: 03/02/2019] [Indexed: 12/14/2022]
|
6
|
Tang X, Fang J, Yu J, Li Z, Chen J, Sun X, Zhu Y, Hu S, Qin M, Tang Y, Luan Z. Clinical outcomes of unrelated cord blood transplantation in children with malignant and non-malignant diseases: Multicenter experience in China. Pediatr Transplant 2018; 22. [PMID: 29239497 DOI: 10.1111/petr.13090] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Accepted: 11/01/2017] [Indexed: 01/12/2023]
Abstract
This multicenter retrospective study included 184 children with malignant and non-malignant diseases who underwent UCBT between January 1998 and August 2012. The malignant disease group included 101 children with ALL, AML, CML, JMML, and MDS, and the non-malignant disease group included 83 children with PID, β-thalassemia, IMD BMF, and HLH. The median duration to neutrophil and platelet engraftment was 16 and 35 days in the malignant disease group vs 15 and 38 days in the non-malignant disease group. The cumulative incidence of grade II-IV aGVHD and cGVHD was 25.6% and 13.5% in the malignant disease group vs 19.7% and 11.1% in the non-malignant disease group, respectively. The median duration and cumulative incidence of neutrophil and platelet engraftment, and the cumulative incidence of grade II-IV aGVHD and cGVHD were similar between the two groups. Of the 184 pediatric patients, 114 patients survived during a median follow-up period of 14 months (range 4-138). The 5-year OS and DFS were not statistically different between the two groups (56.3% and 46.1% in malignant disease group vs 68.5% and 52.8% in non-malignant disease group). The above results indicate that UCB is a viable source for HSCT for children with malignant or non-malignant diseases, especially in urgent cases.
Collapse
Affiliation(s)
| | - Jianpei Fang
- Sun Yat-sen Memorial Hospital, Sun Yat-sen University, Guangzhou, China
| | - Jie Yu
- Children's Hospital of Chongqing Medical University, Chongqing, China
| | | | - Jing Chen
- Shanghai Children's Medical Center, Shanghai, China
| | - Xin Sun
- Guangzhou Women and Children Medical Center, Guangzhou, China
| | - Yiping Zhu
- West China Second University Hospital/West China Women's and Children's Hospital, Chengdu, China
| | - Shaoyan Hu
- Soochow University Affiliated Children's Hospital, Suzhou, China
| | | | - Yongmin Tang
- Zhe Jiang University School of Medicine Children Hospital, Hangzhou, China
| | - Zuo Luan
- Navy General Hospital, Beijing, China
| |
Collapse
|
7
|
Liu YS, Chen JG, Mei T, Guo YX, Meng HT, Li JF, Wei YY, Jin XY, Zhu BF, Zhang LP. Genetic variation and forensic characteristic analysis of 25 STRs of a novel fluorescence co-amplification system in Chinese Southern Shaanxi Han population. Oncotarget 2017; 8:55443-55452. [PMID: 28903432 PMCID: PMC5589671 DOI: 10.18632/oncotarget.19317] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2017] [Accepted: 06/05/2017] [Indexed: 11/25/2022] Open
Abstract
We analyzed the genetic polymorphisms of 15 autosomal and 10 Y-chromosomal STR loci in 214 individuals of Han population from Southern Shaanxi of China and studied the genetic relationships between Southern Shaanxi Han and other populations. We observed a total of 150 alleles at 15 autosomal STR loci with the corresponding allelic frequencies ranging from 0.0023 to 0.5210, and the combined power of discrimination and exclusion for the 15 autosomal STR loci were 0.99999999999999998866 and 0.999998491, respectively. For the 10 Y-STR loci, totally 100 different haplotypes were obtained, of which 94 were unique. The discriminatory capacity and haplotype diversity values of the 10 Y-STR loci were 0.9259 and 0.998269, respectively. The results demonstrated high genetic diversities of the 25 STR loci in the population for forensic applications. We constructed neighbor-joining tree and conducted principal component analysis based on 15 autosomal STR loci and conducted multidimensional scaling analysis and constructed neighbor-joining tree based on 10 Y-STR loci. The results of population genetic analyses based on both autosomal and Y-chromosome STRs indicated that the studied Southern Shaanxi Han population had relatively closer genetic relationship with Eastern Han population, and distant relationships with Croatian, Serbian and Moroccan populations.
Collapse
Affiliation(s)
- Yao-Shun Liu
- Department of Biochemistry and Molecular Biology, Basic Medicine College of Xinjiang Medical University, Urumqi, Xinjiang 830011, P. R. China.,Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Department of Forensic Genetics, School of Forensic Medicine, Southern Medical University, Guangzhou, Guangdong 510515, P. R. China
| | - Jian-Gang Chen
- Department of Biochemistry and Molecular Biology, Basic Medicine College of Xinjiang Medical University, Urumqi, Xinjiang 830011, P. R. China.,Science and Technology Institute, Xinjiang Public Security Department, Urumqi, Xinjiang 830006, P.R. China
| | - Ting Mei
- Department of Biochemistry and Molecular Biology, Basic Medicine College of Xinjiang Medical University, Urumqi, Xinjiang 830011, P. R. China.,Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. 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, P. R. China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. 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, P. R. China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China
| | - Jian-Fei Li
- School of Marxism, Xi'an Jiaotong University, Xi'an, Shaanxi 710049, P.R. China
| | - Yuan-Yuan Wei
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China
| | - Xiao-Ye Jin
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China
| | - Bo-Feng Zhu
- Key Laboratory of Shaanxi Province for Craniofacial Precision Medicine Research, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Clinical Research Center of Shaanxi Province for Dental and Maxillofacial Diseases, College of Stomatology, Xi'an Jiaotong University, Xi'an, Shaanxi 710004, P. R. China.,Department of Forensic Genetics, School of Forensic Medicine, Southern Medical University, Guangzhou, Guangdong 510515, P. R. China
| | - Li-Ping Zhang
- Department of Biochemistry and Molecular Biology, Basic Medicine College of Xinjiang Medical University, Urumqi, Xinjiang 830011, P. R. China
| |
Collapse
|
8
|
Han E, Kim M, Kim Y, Han K, Lim J, Kang D, Lee GD, Kim JR, Lee JW, Chung NG, Cho B, Eom KS, Kim YJ, Kim HJ, Lee S, Cho SG, Min CK, Kim DW, Lee J, Min WS. Practical informativeness of short tandem repeat loci for chimerism analysis in hematopoietic stem cell transplantation. Clin Chim Acta 2017; 468:51-59. [PMID: 28192074 DOI: 10.1016/j.cca.2017.02.004] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2016] [Revised: 01/31/2017] [Accepted: 02/03/2017] [Indexed: 11/19/2022]
Abstract
OBJECTIVE Short tandem repeat (STR) loci are most frequently used for chimerism analysis after hematopoietic stem cell transplantation (HSCT). The aim of this study was to evaluate the practical informativeness of STR chimerism by integrating theoretical and analytical points. METHODS Theoretical and practical informativess of 16 STR loci were evaluated from 1249 pairs of recipients and donors who were prepared for HSCT. RESULTS Theoretical informativeness was influenced by genetic diversity including allele frequency and heterozygosity, and was higher in the unrelated HSCT group (90.5±5.3%) compared to the related HSCT group (66.2±4.4%). Practical informativeness was lower than theoretical (6.1±1.7%) because several STR loci were excluded due to stutter peaks and less reliable results, especially in type II-2 donor-recipient match pattern with no recipient-specific allele. We simulated an efficient STR combination for reliable chimerism analysis. Eight informative STR loci were required to analyze chimerism with at least one practically informative locus in the related HSCT group (D18S51, FGA, D2S1338, D13S317, D8S1179, D21S11, D16S539 and D7S820) while only three loci were needed in the unrelated group (D2S1338, FGA and D18S51). A minimum set of 2, 4 or 7 STR loci were required to provide at least 1, 3 or 5 practically informative loci in 95% of the unrelated HSCT group while 3, 8 or 12 loci were required in the related HSCT group. CONCLUSION We deducted the practical informativeness of STR chimerism, identified the major influencing factors on the practical informativeness of each STR locus, and successfully simulated the efficient STR combination for reliable chimerism analysis.
Collapse
Affiliation(s)
- Eunhee Han
- Department of Laboratory Medicine, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea; Catholic Genetic Laboratory Center, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Myungshin Kim
- Department of Laboratory Medicine, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea; Catholic Genetic Laboratory Center, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea.
| | - Yonggoo Kim
- Department of Laboratory Medicine, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea; Catholic Genetic Laboratory Center, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea.
| | - Kyungja Han
- Department of Laboratory Medicine, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Jihyang Lim
- Department of Laboratory Medicine, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Dain Kang
- Catholic Genetic Laboratory Center, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Gun Dong Lee
- Catholic Genetic Laboratory Center, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Jung Rok Kim
- Catholic Genetic Laboratory Center, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Jae-Wook Lee
- Department of Pediatrics, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Nack-Gyun Chung
- Department of Pediatrics, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Bin Cho
- Department of Pediatrics, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Ki-Seong Eom
- Division of Hematology, Department of Internal Medicine, Catholic Blood and Marrow Transplantation Center, Leukemia Research Institute, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Yoo-Jin Kim
- Division of Hematology, Department of Internal Medicine, Catholic Blood and Marrow Transplantation Center, Leukemia Research Institute, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Hee-Je Kim
- Division of Hematology, Department of Internal Medicine, Catholic Blood and Marrow Transplantation Center, Leukemia Research Institute, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Seok Lee
- Division of Hematology, Department of Internal Medicine, Catholic Blood and Marrow Transplantation Center, Leukemia Research Institute, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Seok-Goo Cho
- Division of Hematology, Department of Internal Medicine, Catholic Blood and Marrow Transplantation Center, Leukemia Research Institute, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Chang-Ki Min
- Division of Hematology, Department of Internal Medicine, Catholic Blood and Marrow Transplantation Center, Leukemia Research Institute, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Dong-Wook Kim
- Division of Hematology, Department of Internal Medicine, Catholic Blood and Marrow Transplantation Center, Leukemia Research Institute, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - JongWook Lee
- Division of Hematology, Department of Internal Medicine, Catholic Blood and Marrow Transplantation Center, Leukemia Research Institute, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Woo-Sung Min
- Division of Hematology, Department of Internal Medicine, Catholic Blood and Marrow Transplantation Center, Leukemia Research Institute, Seoul St. Mary's Hospital, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| |
Collapse
|
9
|
Kruijver M. Characterizing the genetic structure of a forensic DNA database using a latent variable approach. Forensic Sci Int Genet 2016; 23:130-149. [DOI: 10.1016/j.fsigen.2016.03.007] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2015] [Revised: 02/24/2016] [Accepted: 03/21/2016] [Indexed: 12/11/2022]
|
10
|
Ethnically distinct populations of historical Tibet exhibit distinct autosomal STR compositions. Gene 2016; 578:74-84. [DOI: 10.1016/j.gene.2015.12.009] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2015] [Accepted: 12/07/2015] [Indexed: 11/18/2022]
|
11
|
Amir N, Sahnoune M, Chikhi L, Atmani D. STR-based genetic structure of the Berber population of Bejaia (Northern Algeria) and its relationships to various ethnic groups. Gene 2015; 574:140-8. [PMID: 26253162 DOI: 10.1016/j.gene.2015.08.002] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2014] [Revised: 07/29/2015] [Accepted: 08/02/2015] [Indexed: 10/23/2022]
Abstract
Patterns of genetic variation in human populations have been described for decades. However, North Africa has received little attention and Algeria, in particular, is poorly studied, Here we genotyped a Berber-speaking population from Algeria using 15 short tandem repeat (STR) loci D8S1179, D21S11, D7S820, CSF1PO, D3S1358, TH01, D13S317, D16S539, D2S1338, D19S433, vWA, TPOX, D18S51, D5S818 and FGA from the commercially available AmpF/STR Identifiler kit. Altogether 150 unrelated North Algerian individuals were sampled across 10 administrative regions or towns from the Bejaia Wilaya (administrative district). We found that all of the STR loci met Hardy-Weinberg equilibrium expectations, after Bonferroni correction and that the Berber-speaking population of Bejaia presented a high level of observed heterozygosity for the 15 STR system (>0.7). Genetic parameters of forensic interest such as combined power of discrimination (PD) and combined probability of exclusion (PE) showed values higher than 0.999, suggesting that this set of STRs can be used for forensic studies. Our results were also compared to those published for 42 other human populations analyzed with the same set. We found that the Bejaia sample clustered with several North African populations but that some geographically close populations, including the Berber-speaking Mozabite from Algeria were closer to Near-Eastern populations. While we were able to detect some genetic structure among samples, we found that it was not correlated to language (Berber-speaking versus Arab-speaking) or to geography (east versus west). In other words, no significant genetic differences were found between the Berber-speaking and the Arab-speaking populations of North Africa. The genetic closeness of European, North African and Near-Eastern populations suggest that North Africa should be integrated in models aiming at reconstructing the demographic history of Europe. Similarly, the genetic proximity with sub-Saharan Africa is a reminder of the links that connect all African regions.
Collapse
Affiliation(s)
- Nadir Amir
- Laboratoire de Biochimie Appliquée, Faculté des Sciences de la Nature et de la Vie, Université de Bejaia, 06000 Algeria
| | - Mohamed Sahnoune
- Laboratoire d'Ecologie et Environnement, Faculté des Sciences de la Nature et de la Vie, Université de Bejaia, 06000 Algeria
| | - Lounes Chikhi
- CNRS, Université Paul Sabatier, ENFA; UMR5174 EDB (Laboratoire Évolution & Diversité Biologique); 118, Route de Narbonne, F-31062 Toulouse, France; Université Toulouse 3 Paul Sabatier, CNRS; UMR5174 EDB, F-31062 Toulouse, France; Instituto Gulbenkian de Ciência, Rua da Quinta Grande, n°6, 2780-56 Oeiras, Portugal
| | - Djebbar Atmani
- Laboratoire de Biochimie Appliquée, Faculté des Sciences de la Nature et de la Vie, Université de Bejaia, 06000 Algeria.
| |
Collapse
|
12
|
Tang X, Chen J, Fang J, Sun X, Qin MQ, Li J, Zhu Y, Luan Z. Similar outcomes of allogeneic hematopoietic cell transplantation from unrelated donor and umbilical cord blood vs. sibling donor for pediatric acute myeloid leukemia: Multicenter experience in China. Pediatr Transplant 2015; 19:413-21. [PMID: 25903451 DOI: 10.1111/petr.12475] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Accepted: 03/17/2015] [Indexed: 11/27/2022]
Abstract
In a multicenter study, we have conducted a retrospective study on 73 pediatric AML patients who were primary refractory or in greater than CR1 and investigated MSD (or MMSD) (n = 20), URD (n = 23), and UCB (n = 30) HCT between January 1998 and October 2009. The median day to neutrophil engraftment was similar in all groups. The median day to platelet engraftment was longer in the UCB group. The number of HLA mismatch was higher in the UCB group (p = 0.034); however, the cumulative incidence of grade III-IV aGVHD was not different among all groups (p = 0.125); furthermore, cGVHD was lower in the UCB group (p = 0.078). The risk of relapse did not differ among all groups (RR = 1.28, p = 0.125), but the patients of MSD (or MMSD) grafts had a trend of higher risk recurrence. Sixty-two patients survived with a median follow-up of 58.2 months. Five-yr LFS was 73.1%, 59.8%, and 59.6% for URD, UCB, and MSD (or MMDS), respectively (p = 0.426). Five-yr LFS in CR1 was 68.9%, with a significantly better result compared to 41.7% in CR2 (p = 0.025). Our comparisons suggest that pediatric AML patients receiving UCB had a higher early TRM, a lower cGVHD rate, and a similar long-term survival. The outcome of URD and UCB is comparable to that of a suitable sibling for pediatric AML.
Collapse
Affiliation(s)
- Xiangfeng Tang
- Department of Pediatrics, Navy General Hospital, Beijing, China
| | | | | | | | | | | | | | | |
Collapse
|
13
|
Yoo SY, An SH, Park JH, Kim NY, Lee YA, Kim JJ, Park KW, Chung KW. Autosomal STR loci for improving the kinship discrimination power for missing children and forensic application. Genes Genomics 2014. [DOI: 10.1007/s13258-014-0173-1] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
|
14
|
Liu J, Li SY, Yin JY, Zhang W, Gao B, Guo L, Qi R. Genetic analysis of 15 STR loci from a Xibe population in Liaoning, Northeast of China. Ann Hum Biol 2013; 41:244-8. [PMID: 24215563 DOI: 10.3109/03014460.2013.852245] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
BACKGROUND In view of their high level of variability, autosomal short tandem repeats (STRs) are very useful as markers in the disciplines of forensic and population genetics studies. AIM To investigate the diversity distributions of allelic frequencies of 15 loci from a sample from the Chinese Xibe ethnic group in Liaoning. SUBJECTS AND METHODS Fifteen STR loci for 150 unrelated Xibe individuals from Liaoning, China were amplified simultaneously in a fluorescence-based reaction using a 2720 Thermal cycler (ABI). Separation and detection of the amplified product were conducted with the Li-COR 4300 DNA Analyzer. RESULTS In total, 117 alleles were observed, with the corresponding allele frequencies ranging from 0.001 to 0.507. D18S51 had the highest polymorphism (PIC = 0.840) among all 15 STR loci, whereas TPOX had the lowest (PIC = 0.590). The power of discrimination ranged from 0.801 for TH01 locus to 0.957 for D18S51 locus, whereas the power of exclusion ranged from a minimum 0.316 for TPOX locus to a maximum 0.720 for D21S11 locus. The phylogenetic tree established among worldwide populations showed that the Xibe population is far from other populations. CONCLUSION Databases for the 15 STR loci will be useful for personal identification and paternity tests in the Xibe population and for the establishment of phylogenetic relationships between populations.
Collapse
Affiliation(s)
- Jian Liu
- Department of Cell Biology and Genetics, Shenyang Medical College , Shenyang, Liaoning , PR China
| | | | | | | | | | | | | |
Collapse
|
15
|
Allele frequencies of 19 autosomal STR loci in Manchu population of China with phylogenetic structure among worldwide populations. Gene 2013; 529:282-7. [DOI: 10.1016/j.gene.2013.07.033] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2013] [Revised: 06/26/2013] [Accepted: 07/06/2013] [Indexed: 11/18/2022]
|
16
|
Kim EH, Lee HY, Yang IS, Yang WI, Shin KJ. Population data for 30 insertion–deletion markers in a Korean population. Int J Legal Med 2013; 128:51-2. [DOI: 10.1007/s00414-013-0851-6] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2013] [Accepted: 03/15/2013] [Indexed: 10/27/2022]
|
17
|
Tamura T, Osawa M, Kimura R, Inaoka Y, Tanaka S, Satoh F, Sato I. Evaluation of the allele-sharing approach, known as the IBS method, in kinship analysis. J Forensic Leg Med 2012; 20:112-6. [PMID: 23357397 DOI: 10.1016/j.jflm.2012.05.005] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2010] [Revised: 02/10/2011] [Accepted: 05/30/2012] [Indexed: 11/25/2022]
Abstract
To infer relatedness from genetic data based on short tandem repeats, the exact method, in which shared allele frequencies are applied to relevant equations, has been conventionally used. An alternative approach is the IBS method that is based on the number of shared alleles between individuals. In the present study, the performance of the IBS method in pairwise kinship analysis was compared with the exact method using simulated data of 10,000 genotype pairs for 15 loci in the ABI Identifiler system. The likelihood ratio in allele-sharing of zero, one and two was calculated from joint probabilities based on allele frequencies of the Japanese population. Whereas the IBS method generally produced lower values of combined indices, smaller deviations of the distributions were evident. The threshold for identification of full siblings relative to non-relatives was comparable with that of the exact method, indicating that both inference powers were almost identical. The likelihood ratio in the IBS method depends on the heterozygosity at a locus, and heterozygosities of the 15 loci were consistent across various population groups, particularly in East Asians. The convenience of fixed LR values in the IBS method is beneficial for cases with uncertain allele frequencies and rare alleles.
Collapse
Affiliation(s)
- Tomonori Tamura
- Scientific Crime Laboratory, Kanagawa Prefectural Police, Yamashitacho 155, Naka-ku, Yokohama 231-0023, Japan
| | | | | | | | | | | | | |
Collapse
|
18
|
Byeon SJ, Choi J, Nam KH, Jang BG, Lee HE, Kim MA, Kim WH. Markers for screening lynch syndrome are reliable and useful for identifying the specimen mislabeling. KOREAN JOURNAL OF PATHOLOGY 2012; 46:131-6. [PMID: 23109992 PMCID: PMC3479783 DOI: 10.4132/koreanjpathol.2012.46.2.131] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/22/2011] [Revised: 01/30/2012] [Accepted: 03/02/2012] [Indexed: 11/29/2022]
Abstract
Background During specimen processing in surgical pathology laboratories, specimen-related adverse events (SRAEs), such as mislabeling and specimen mixed-up might occur. In these situations, molecular techniques using short tandem repeat (STR) loci are required to identify the personal identity. Microsatellite instability (MSI) test is widely used for screening the hereditary non-polyposis colon cancer (Lynch syndrome) in surgical pathologies using polymorphic STR markers. We tried to evaluate the applicability of the MSI test for SRAEs. Methods We obtained 253 MSI test results to analyze the allele frequencies. After calibrating the estimated nucleotide lengths, we calculated the allele frequencies, a random match probability, and a likelihood ratio (LR) of three dinucleotide STR markers (D5S349, D17S250, and D2S123). Results The distribution of LR was 136.38 to 5,606,213.10. There was no case of LR<100. In addition, there were 153 cases (60.5%) of LR ranging from 100 to 10,000 and 100 cases (39.5%) of LR>10,000. Furthermore, the combined probability of identity was 9.23×10-4 and the combined power of exclusion was 0.99908. Conclusions Using the three STR markers that are recommended for MSI test, all the cases were positively identified in 1% range and about one-third cases showed high LR (>10,000). These results showed that MSI tests are useful to screen the personal identity in case of SRAE in pathology laboratories.
Collapse
Affiliation(s)
- Sun-Ju Byeon
- Department of Pathology, Seoul National University College of Medicine, Seoul, Korea
| | | | | | | | | | | | | |
Collapse
|
19
|
Simms TM, Barrett DA, McCartney Q, Herrera RJ. Divergent genetic strata in five Bahamian islands. Forensic Sci Int Genet 2012; 6:81-90. [DOI: 10.1016/j.fsigen.2011.02.005] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2010] [Revised: 01/13/2011] [Accepted: 02/24/2011] [Indexed: 10/18/2022]
|
20
|
Variant alleles detected in a large Korean population using AmpFlSTR Profiler Plus. Forensic Sci Int Genet 2011; 5:552-4. [DOI: 10.1016/j.fsigen.2010.06.001] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2009] [Revised: 05/12/2010] [Accepted: 06/01/2010] [Indexed: 11/22/2022]
|
21
|
Yoo SY, Cho NS, Park MJ, Seong KM, Hwang JH, Song SB, Han MS, Lee WT, Chung KW. A large population genetic study of 15 autosomal short tandem repeat loci for establishment of Korean DNA profile database. Mol Cells 2011; 32:15-9. [PMID: 21597912 PMCID: PMC3887661 DOI: 10.1007/s10059-011-2288-4] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2010] [Revised: 03/31/2011] [Accepted: 04/26/2011] [Indexed: 10/18/2022] Open
Abstract
Genotyping of highly polymorphic short tandem repeat (STR) markers is widely used for the genetic identification of individuals in forensic DNA analyses and in paternity disputes. The National DNA Profile Databank recently established by the DNA Identification Act in Korea contains the computerized STR DNA profiles of individuals convicted of crimes. For the establishment of a large autosomal STR loci population database, 1805 samples were obtained at random from Korean individuals and 15 autosomal STR markers were analyzed using the AmpFlSTR Identifiler PCR Amplification kit. For the 15 autosomal STR markers, no deviations from the Hardy-Weinberg equilibrium were observed. The most informative locus in our data set was the D2S1338 with a discrimination power of 0.9699. The combined matching probability was 1.521 × 10(-17). This large STR profile dataset including atypical alleles will be important for the establishment of the Korean DNA database and for forensic applications.
Collapse
Affiliation(s)
- Seong Yeon Yoo
- Department of Forensic Medicine, Central District Office, National Forensic Service, Daejeon 305-348, Korea
- Department of Biological Science and Department of Bioinformatics, Kongju National University, Gongju 314-701, Korea
- These authors contributed equally to this work
| | - Nam Soo Cho
- Department of Forensic Medicine, Central District Office, National Forensic Service, Daejeon 305-348, Korea
- These authors contributed equally to this work
| | - Myung Jin Park
- Department of Forensic Medicine and Brain Korea 21 Project for Medical Science, Yonsei University College of Medicine, Seoul 120-752, Korea
| | - Ki Min Seong
- Department of Forensic Medicine, Central District Office, National Forensic Service, Daejeon 305-348, Korea
- Department of Biological Science and Department of Bioinformatics, Kongju National University, Gongju 314-701, Korea
| | - Jung Ho Hwang
- Department of Forensic Medicine, Central District Office, National Forensic Service, Daejeon 305-348, Korea
| | - Seok Bean Song
- Institute of Drug Research and Development, College of Pharmacy, Chungnam National University, Daejeon 305-764, Korea
| | - Myun Soo Han
- DNA Analysis Center, National Forensic Service, Seoul 158-707, Korea
| | - Won Tae Lee
- Department of Forensic Medicine, Eulji University, Daejeon 301-746, Korea
| | - Ki Wha Chung
- Department of Biological Science and Department of Bioinformatics, Kongju National University, Gongju 314-701, Korea
| |
Collapse
|
22
|
Xing J, Xuan J, Wang B, Pang H, Li C, Ding M. Genetic polymorphism of 15 STR loci in a Manchu population in Northeast China. Forensic Sci Int Genet 2011; 5:e93-5. [DOI: 10.1016/j.fsigen.2010.12.006] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2010] [Revised: 11/07/2010] [Accepted: 12/24/2010] [Indexed: 11/30/2022]
|
23
|
The Soliga, an isolated tribe from Southern India: genetic diversity and phylogenetic affinities. J Hum Genet 2011; 56:258-69. [PMID: 21307856 DOI: 10.1038/jhg.2010.173] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
India's role in the dispersal of modern humans can be explored by investigating its oldest inhabitants: the tribal people. The Soliga people of the Biligiri Rangana Hills, a tribal community in Southern India, could be among the country's first settlers. This forest-bound, Dravidian speaking group, lives isolated, practicing subsistence-level agriculture under primitive conditions. The aim of this study is to examine the phylogenetic relationships of the Soligas in relation to 29 worldwide, geographically targeted, reference populations. For this purpose, we employed a battery of 15 hypervariable autosomal short tandem repeat loci as markers. The Soliga tribe was found to be remarkably different from other Indian populations including other southern Dravidian-speaking tribes. In contrast, the Soliga people exhibited genetic affinity to two Australian aboriginal populations. This genetic similarity could be attributed to the 'Out of Africa' migratory wave(s) along the southern coast of India that eventually reached Australia. Alternatively, the observed genetic affinity may be explained by more recent migrations from the Indian subcontinent into Australia.
Collapse
|
24
|
Simms TM, Rodriguez CE, Rodriguez R, Herrera RJ. The genetic structure of populations from Haiti and Jamaica reflect divergent demographic histories. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2010; 142:49-66. [PMID: 19918989 DOI: 10.1002/ajpa.21194] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
The West Indies represent an amalgamation of African, European and in some cases, East Asian sources, but the contributions from each ethnic group remain relatively unexplored from a genetic perspective. In the present study, we report, for the first time, allelic frequency data across the complete set of 15 autosomal STR loci for general collections from Haiti and Jamaica, which were subsequently used to examine the genetic diversity present in each island population. Our results indicate that although both Haiti and Jamaica display genetic affinities with the continental African collections, a stronger African signal is detected in Haiti than in Jamaica. Although only minimal contributions from non-African sources were observed in Haiti, Jamaica displays genetic input from both European and East Asian sources, an admixture profile similar to other New World collections of African descent analyzed in this report. The divergent genetic signatures present in these populations allude to the different migratory events of Africans, Europeans, and East Asians into the New World.
Collapse
Affiliation(s)
- Tanya M Simms
- Department of Molecular and Human Genetics, College of Medicine, Florida International University, Miami, FL 33199, USA
| | | | | | | |
Collapse
|
25
|
Kang L, Li S, Gupta S, Zhang Y, Liu K, Zhao J, Jin L, Li H. Genetic structures of the Tibetans and the Deng people in the Himalayas viewed from autosomal STRs. J Hum Genet 2010; 55:270-7. [DOI: 10.1038/jhg.2010.21] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
|
26
|
Graydon M, Cholette F, Ng LK. Inferring ethnicity using 15 autosomal STR loci—Comparisons among populations of similar and distinctly different physical traits. Forensic Sci Int Genet 2009; 3:251-4. [DOI: 10.1016/j.fsigen.2009.03.002] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2008] [Revised: 01/07/2009] [Accepted: 03/27/2009] [Indexed: 11/16/2022]
|
27
|
Abstract
The origin and relationships of Indian Muslims is still dubious and are not yet genetically well studied. In the light of historically attested movements into Indian subcontinent during the demic expansion of Islam, the present study aims to substantiate whether it had been accompanied by any gene flow or only a cultural transformation phenomenon. An array of 13 autosomal STR markers that are common in the worldwide data sets was used to explore the genetic diversity of Indian Muslims. The austere endogamy being practiced for several generations was confirmed by the genetic demarcation of each of the six Indian Muslim communities in the phylogenetic assessments for the markers examined. The analyses were further refined by comparison with geographically closest neighboring Hindu religious groups (including several caste and tribal populations) and the populations from Middle East, East Asia and Europe. We found that some of the Muslim populations displayed high level of regional genetic affinity rather than religious affinity. Interestingly, in Dawoodi Bohras (TN and GUJ) and Iranian Shia significant genetic contribution from West Asia, especially Iran (49, 47 and 46%, respectively) was observed. This divulges the existence of Middle Eastern genetic signatures in some of the contemporary Indian Muslim populations. Our study reveals that the spread of Islamic faith in the Indian subcontinent was predominantly cultural transformation associated with minor gene flow from West Asia.
Collapse
|
28
|
Chung TH, Lee HJ, Lee MH, Jeon JP, Kim KS, Han BG. Choosing Optimal STR Markers for Quality Assurance of Distributed Biomaterials in Biobanking. Genomics Inform 2009. [DOI: 10.5808/gi.2009.7.1.032] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
|
29
|
Lee DH, Kwon YJ, Lim J, Kim Y, Han K, Chung NG, Jeong DC, Cho B, Kim HK. Comparable outcomes of HLA-matched unrelated and HLA-identical sibling donor bone marrow transplantation for childhood acute myeloid leukemia in first remission. Pediatr Transplant 2009; 13:210-6. [PMID: 18627512 DOI: 10.1111/j.1399-3046.2008.00997.x] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We retrospectively investigated the outcomes of HLA-matched unrelated BMT (MU-BMT, n = 13) and HLA-identical sibling donor BMT (MS-BMT, n = 17) for childhood AML in CR1 between June 2002 and August 2005. Engraftment of neutrophil and platelet did not differ between the two transplant groups. The cumulative incidence of grade II-IV acute GVHD and any chronic GVHD at three yr was not different between MS-BMT and MU-BMT. Of the 30 patients, four patients experienced relapses (three with MS-BMT, one with MU-BMT) and four patients died of transplant-related complications (two with MS-BMT, two with MU-BMT). A total of 23 patients survived with a median follow-up of 43.2 months. The Kaplan-Meier estimates for EFS rates at three yr were 71% and 77% for MS-BMT and MU-BMT, respectively, and the OS rates were 76% and 77% for MS-BMT and MU-BMT, respectively. The outcome of HLA-matched unrelated BMT is comparable to that of HLA-identical sibling BMT for childhood AML in CR1. HLA-matched unrelated BMT may be recommended for patients who have AML in CR1 without an HLA-matched sibling donor.
Collapse
Affiliation(s)
- Dae-Hyoung Lee
- Department of Pediatrics, College of Medicine, Hallym University, Seoul, Korea
| | | | | | | | | | | | | | | | | |
Collapse
|
30
|
Gayden T, Mirabal S, Cadenas AM, Lacau H, Simms TM, Morlote D, Chennakrishnaiah S, Herrera RJ. Genetic insights into the origins of Tibeto-Burman populations in the Himalayas. J Hum Genet 2009; 54:216-23. [PMID: 19282873 DOI: 10.1038/jhg.2009.14] [Citation(s) in RCA: 44] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
The Himalayan mountain range has played a dual role in shaping the genetic landscape of the region by (1) delineating east-west migrations including the Silk Road and (2) restricting human dispersals, especially from the Indian subcontinent into the Tibetan plateau. In this study, 15 hypervariable autosomal STR loci were employed to evaluate the genetic relationships of three populations from Nepal (Kathmandu, Newar and Tamang) and a general collection from Tibet. These Himalayan groups were compared to geographically targeted worldwide populations as well as Tibeto-Burman (TB) speaking groups from Northeast India. Our results suggest a Northeast Asian origin for the Himalayan populations with subsequent gene flow from South Asia into the Kathmandu valley and the Newar population, corroborating a previous Y-chromosome study. In contrast, Tamang and Tibet exhibit limited genetic contributions from South Asia, possibly due to the orographic obstacle presented by the Himalayan massif. The TB groups from Northeast India are genetically distinct compared to their counterparts from the Himalayas probably resulting from prolonged isolation and/or founder effects.
Collapse
Affiliation(s)
- Tenzin Gayden
- Department of Biological Sciences, Florida International University, Miami, FL 33199, USA
| | | | | | | | | | | | | | | |
Collapse
|
31
|
Simms TM, Garcia C, Mirabal S, McCartney Q, Herrera RJ. The genetic legacy of the Transatlantic Slave Trade in the island of New Providence. Forensic Sci Int Genet 2008; 2:310-7. [PMID: 19083841 DOI: 10.1016/j.fsigen.2008.04.003] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2007] [Revised: 04/03/2008] [Accepted: 04/08/2008] [Indexed: 10/22/2022]
Abstract
The Bahamian archipelago has been influenced by a wide array of settlers (Lucayans, Eleutherian Adventurers, British Loyalists, Creoles from the United States and African slaves) throughout its short but dynamic history. Nevertheless, the Bahamas remains poorly characterized genetically and little is known about each group's contribution to the island chain. In the current study, the population of New Providence was analyzed based on 15 autosomal STR loci routinely employed in forensic DNA fingerprinting applications. A comparison of this collection with African groups reveals similar genetic profiles to West African populations from Equatorial Guinea and Angola, possibly resulting from the importation of slaves from West African ports during the Transatlantic Slave Trade. Although the New Providence collection exhibits strong genetic affinities to the two US African American reference populations, the detection of unique alleles among them may necessitate the utilization of population-specific databases in forensic cases especially when the STR profiles include these specific variants.
Collapse
Affiliation(s)
- T M Simms
- Department of Biological Sciences, Florida International University, Miami, FL 33199, USA
| | | | | | | | | |
Collapse
|
32
|
São-Bento M, Carvalho M, Andrade L, Lopes V, Serra A, Gamero J, Corte-Real F, Vide M, Anjos M. STR data for the 15 AmpFlSTR® Identifiler™ loci in the Brazilian population of São Paulo State. FORENSIC SCIENCE INTERNATIONAL GENETICS SUPPLEMENT SERIES 2008. [DOI: 10.1016/j.fsigss.2007.10.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
|
33
|
Krithika S, Maji S, Vasulu TS. A microsatellite guided insight into the genetic status of adi, an isolated hunting-gathering tribe of northeast India. PLoS One 2008; 3:e2549. [PMID: 18596928 PMCID: PMC2435608 DOI: 10.1371/journal.pone.0002549] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2007] [Accepted: 05/29/2008] [Indexed: 11/18/2022] Open
Abstract
Tibeto-Burman populations of India provide an insight into the peopling of India and aid in understanding their genetic relationship with populations of East, South and Southeast Asia. The study investigates the genetic status of one such Tibeto-Burman group, Adi of Arunachal Pradesh based on 15 autosomal microsatellite markers. Further the study examines, based on 9 common microsatellite loci, the genetic relationship of Adi with 16 other Tibeto-Burman speakers of India and 28 neighboring populations of East and Southeast Asia. Overall, the results support the recent formation of the Adi sub-tribes from a putative ancestral group and reveal that geographic contiguity is a major influencing factor of the genetic affinity among the Tibeto-Burman populations of India.
Collapse
Affiliation(s)
- S. Krithika
- Biological Anthropology Unit, Indian Statistical Institute, Kolkata, India
| | - Suvendu Maji
- Biological Anthropology Unit, Indian Statistical Institute, Kolkata, India
| | - T. S. Vasulu
- Biological Anthropology Unit, Indian Statistical Institute, Kolkata, India
- * E-mail:
| |
Collapse
|
34
|
Population data of 15 STR loci of Chinese Yi ethnic minority group. Leg Med (Tokyo) 2008; 10:220-4. [DOI: 10.1016/j.legalmed.2007.12.004] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2007] [Revised: 12/18/2007] [Accepted: 12/19/2007] [Indexed: 11/22/2022]
|
35
|
Maruyama S, Minaguchi K, Takezaki N, Nambiar P. Population data on 15 STR loci using AmpF/STR Identifiler kit in a Malay population living in and around Kuala Lumpur, Malaysia. Leg Med (Tokyo) 2008; 10:160-2. [DOI: 10.1016/j.legalmed.2007.11.002] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2007] [Revised: 10/26/2007] [Accepted: 11/05/2007] [Indexed: 10/22/2022]
|
36
|
Wu YM, Zhang XN, Zhou Y, Chen ZY, Wang XB. Genetic polymorphisms of 15 STR loci in Chinese Han population living in Xi’an city of Shaanxi Province. Forensic Sci Int Genet 2008; 2:e15-8. [DOI: 10.1016/j.fsigen.2007.11.003] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2007] [Revised: 10/24/2007] [Accepted: 11/03/2007] [Indexed: 11/15/2022]
|
37
|
Wang R, Liu L, Zhao J, Peng C. Genetic distribution on 15 STR loci from a population of Southern Liaoning in northeast of China. Forensic Sci Int Genet 2008; 2:e25-6. [DOI: 10.1016/j.fsigen.2007.11.005] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2007] [Revised: 10/19/2007] [Accepted: 11/03/2007] [Indexed: 11/27/2022]
|
38
|
Ibarra-Rivera L, Mirabal S, Regueiro MM, Herrera RJ. Delineating genetic relationships among the Maya. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2008; 135:329-47. [DOI: 10.1002/ajpa.20746] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
|
39
|
Austronesian genetic signature in East African Madagascar and Polynesia. J Hum Genet 2007; 53:106-120. [DOI: 10.1007/s10038-007-0224-4] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2007] [Accepted: 11/06/2007] [Indexed: 11/24/2022]
|
40
|
Zhu J, Shen C, Ma Y, He Y, Zhao J, Li X, Liu Y. Genetic polymorphisms of 15 STR in chinese salar ethnic minority group. Forensic Sci Int 2007; 173:210-3. [PMID: 17320329 DOI: 10.1016/j.forsciint.2007.01.013] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2006] [Revised: 01/05/2007] [Accepted: 01/05/2007] [Indexed: 10/23/2022]
Abstract
Allele frequency data for 15 STR loci, namely D8S1179, D21S11, D7S820, CSF1PO, D3S1358, TH01, D13S317, D16S539, D2S1338, D19S433, vWA, TPOX, D18S51, D5S818 and FGA, were obtained from a sample of 258 healthy unrelated individuals of Salar population in China. All loci were in Hardy-Weinberg equilibrium. After comparing, significant differences were found between the Salar and Miao, Uigur, Han, Korean, Belgian, Byelorussian population at some loci. The results demonstrate that the loci are useful for forensic human identification and parentage testing.
Collapse
Affiliation(s)
- Jun Zhu
- Key Laboratory of Environment and Genes Related to Diseases, Ministry of Education, Xi'an Jiaotong University, Xi'an 710061, Shaanxi, PR China.
| | | | | | | | | | | | | |
Collapse
|
41
|
Alfonso-Sánchez MA, Pérez-Miranda AM, Herrera RJ. Autosomal microsatellite variability of the Arrernte people of Australia. Am J Hum Biol 2007; 20:91-9. [PMID: 17957762 DOI: 10.1002/ajhb.20685] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
Abstract
The genomic diversity of the Arrernte people of Australia or caterpillar people was investigated utilizing 13 autosomal short tandem repeat (STR) markers. Significant departures from Hardy-Weinberg equilibrium were detected at the D18S51, TPOX and CSF1PO loci, which persisted after applying the Bonferroni correction. Gene diversity values oscillate between 0.6302 (CSF1PO) and 0.8731 (D21S11). Observed heterozygosity (Ho) ranges from 0.2632 (D18S51) to 0.8333 (vWA) and is lower than the expected heterozygosity (He) for 12 of the 13 loci analyzed. The genetic relationships of the Arrernte with Middle Eastern, East Asian, South Asian and Indian populations were analyzed by distance-based methods, including Neighbor-Joining trees and nonmetric multidimensional scaling. In addition, the genetic contribution of the populations included in the analysis to the Arrernte gene pool was estimated utilizing weighted least square coefficients. Although the Arrernte population exhibits a remarkable level of genetic differentiation, results of the phylogeographic analyses based on autosomal microsatellite data suggest a certain degree of genetic relatedness between the Arrernte tribe of Australia and populations from the Indian subcontinent. In contrast, the STR diversity analyses failed to detect substantial East Asian contribution to the genetic background of the Arrernte group.
Collapse
Affiliation(s)
- M A Alfonso-Sánchez
- Molecular Biology and Human Diversity Laboratory, Department of Biological Sciences, Florida International University, Miami, Florida 33199, USA
| | | | | |
Collapse
|
42
|
Deng YJ, Yan JW, Yu XG, Li YZ, Mu HF, Huang YQ, Shi XT, Sun WM. Genetic analysis of 15 STR loci in Chinese Han population from West China. GENOMICS PROTEOMICS & BIOINFORMATICS 2007; 5:66-9. [PMID: 17572366 PMCID: PMC5054095 DOI: 10.1016/s1672-0229(07)60016-3] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 12/04/2022]
Abstract
Allele frequencies for 15 short tandem repeat (STR) loci (D8S1179, D21S11, D7S820, CSF1PO, D3S1358, TH01, D13S317, D16S539, D2S1338, D19S433, vWA, TPOX, D18S51, D5S818, and FGA) were obtained from 7,636 unrelated individuals of Chinese Han population living in Qinghai and Chongqing, China. Totally 206 alleles were observed, with the corresponding allele frequencies ranging from 0.0001–0.4982. Chi-square test showed that all of the STR loci agreed with the Hardy-Weinberg equilibrium. We also compared our data with previously published population data of other ethnics or areas. The results are valuable for human identification and paternity testing in Chinese Han population.
Collapse
Affiliation(s)
- Ya-Jun Deng
- Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 101300, China.
| | | | | | | | | | | | | | | |
Collapse
|
43
|
Zhang H, Li Y, Jiang J, Zhang J, Wu J, Du H, Yan J, Shen Y, Hou Y. Analysis of 15 STR loci in Chinese population from Sichuan in West China. Forensic Sci Int 2007; 171:222-5. [PMID: 16806770 DOI: 10.1016/j.forsciint.2006.05.039] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2006] [Revised: 05/17/2006] [Accepted: 05/21/2006] [Indexed: 11/20/2022]
Abstract
Allele frequencies for 15 STR loci found in PowerPlex 16 System kit were determined in a sample of 200 unrelated individuals living in Sichuan area in west China. The values of observed heterozygosity (Ho), power of discrimination (PD), probability of paternity exclusion (PE) and polymorphism information content (PIC) were calculated. All loci were in accordance with Hardy-Weinberg equilibrium (p<0.05). The obtained frequency distributions were compared with other previously reported population data.
Collapse
Affiliation(s)
- Haijun Zhang
- Institute of Forensic Medicine, Sichuan University (West China University of Medical Sciences), Chengdu 610041, Sichuan, PR China.
| | | | | | | | | | | | | | | | | |
Collapse
|
44
|
Zhu B, Yan J, Shen C, Li T, Li Y, Yu X, Xiong X, Mu H, Huang Y, Deng Y. Population genetic analysis of 15 STR loci of Chinese Tu ethnic minority group. Forensic Sci Int 2007; 174:255-8. [PMID: 17686595 DOI: 10.1016/j.forsciint.2007.06.013] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2006] [Revised: 04/19/2007] [Accepted: 06/09/2007] [Indexed: 11/29/2022]
Abstract
We studied and established a DNA database of 15 euchromosome STRs (D8S1179, D21S11, D7S820, CSF1PO, D3S1358, TH01, D13S317, D16S539, D2S1338, D19S433, vWA, TPOX, D18S51, D5S818 and FGA) in a population sample of 151 unrelated individuals of Tu ethnic minority group. Allelic frequencies and statistical parameters of Tu population were calculated. Totally 136 alleles were observed, with the corresponding allelic frequencies ranging from 0.0033 to 0.5359. Chi-square test showed that all STR loci agreed with Hardy-Weinberg equilibrium. Our study population data were compared with the previously publishing population data of other ethnic groups or areas. Our results of present study were valuable for human identification and paternity tests in Chinese Tu population.
Collapse
Affiliation(s)
- Bofeng Zhu
- Key Laboratory of Environment and Gene Related to Diseases (Xi'an Jiaotong University), Ministry of Education, Shaanxi 710061, PR China
| | | | | | | | | | | | | | | | | | | |
Collapse
|
45
|
Ota M, Droma Y, Basnyat B, Katsuyama Y, Asamura H, Sakai H, Fukuhsima H. Allele frequencies for 15 STR loci in Tibetan populations from Nepal. Forensic Sci Int 2007; 169:234-8. [PMID: 16621386 DOI: 10.1016/j.forsciint.2006.03.010] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2006] [Revised: 03/12/2006] [Accepted: 03/12/2006] [Indexed: 11/22/2022]
Abstract
Samples from 105 unrelated healthy Sherpa in Namche Bazaar and 111 unrelated non-Sherpa in Kathmandu valley from Nepal were used to obtain allele frequency data for 15 short tandem repeat (STR) loci (CSF1PO, D2S1338, D3S1358, D5S818, D7S820, D8S1179, D13S317, D16S539, D18S51, D19S433, D21S11, FGA, TH01, TPOX and vWA) included in the AmpFLSTR Identifiler kit. No deviations from Hardy-Weinberg equilibrium were observed, but only after applying a Bonferroni correction in the case of D5S818 in the Sherpa population and D7S820 in the Kathmandu population. Genetic parameters of forensic interest were calculated and genetic differentiation between the two populations tested.
Collapse
Affiliation(s)
- Masao Ota
- Department of Legal Medicine, Shinshu University School of Medicine, Asahi 3-1-1, 390-8621 Matsumoto, Japan.
| | | | | | | | | | | | | |
Collapse
|
46
|
Zheng X, Zeng Z, Meng X, Xiang Z, Zhu Y, Yan H. Genetic data of 9 STR loci from Henan Province (central China). Forensic Sci Int 2007; 169:244-6. [PMID: 16723202 DOI: 10.1016/j.forsciint.2006.03.013] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2005] [Revised: 03/21/2006] [Accepted: 03/21/2006] [Indexed: 11/15/2022]
Abstract
Allele frequencies of the nine short tandem repeats (STR) loci D8S1179, D21S11, D18S51, D5S818, D3S1358, D7S820, vWA, FGA (AmpFlSTR Profiler Plus) were determined in a population sample of unrelated individuals living in central China.
Collapse
Affiliation(s)
- Xudong Zheng
- Department of Forensic Medicine, Medical School of Zhengzhou University, Zhengzhou 450052, Henan, PR China.
| | | | | | | | | | | |
Collapse
|
47
|
Yan J, Shen C, Li Y, Yu X, Xiong X, Mu H, Huang Y, Deng Y, Yu J. Genetic analysis of 15 STR loci on Chinese Tibetan in Qinghai Province. Forensic Sci Int 2007; 169:e3-6. [PMID: 17350778 DOI: 10.1016/j.forsciint.2007.02.008] [Citation(s) in RCA: 43] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2006] [Revised: 02/07/2007] [Accepted: 02/07/2007] [Indexed: 11/28/2022]
Abstract
We report allele frequencies and statistical parameters of 15 short tandem repeats (STR) loci (D8S1179, D21S11, D7S820, CSF1PO, D3S1358, TH01, D13S317, D16S539, D2S1338, D19S433, vWA, TPOX, D18S51, D5S818 and FGA) determined in 850 unrelated individuals of Chinese Tibetan, an ethnic group residing in Qinghai Province, China. We observed 155 alleles with allele frequencies ranging from 0.0006 to 0.5682. The distribution of these observed genotypes were not significantly different from the expected distribution according to Hardy-Weinberg equilibrium. The forensic parameters from the data showed high values. In conclusion, the 15 STR loci are useful for forensic analysis, paternity tests for Tibetans in the region, and population genetic studies.
Collapse
Affiliation(s)
- Jiangwei Yan
- Beijing Genomics Institute, Chinese Academy of Sciences, Beijing 101300, PR China
| | | | | | | | | | | | | | | | | |
Collapse
|
48
|
Kang LL, Zhao J, Liu K, Li X. Allele frequencies of 15 STR loci of Tibetan lived in Tibet Lassa. Forensic Sci Int 2007; 168:236-40. [PMID: 16542804 DOI: 10.1016/j.forsciint.2006.02.041] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2005] [Revised: 02/06/2006] [Accepted: 02/10/2006] [Indexed: 11/30/2022]
Abstract
Allele frequency data for 15 Short Tandem Repeat (STR) loci included in the AmpFl STR Identifiler kit were obtained from a sample of 196 healthy unrelated individuals of Tibetan born in Lassa of Tibet Autonomy Region of China (SW China). The distribution of these observed genotypes were not significantly different from the expected distribution according to Hardy-Weinberg equilibrium.
Collapse
Affiliation(s)
- Long Li Kang
- Medicine Department of Tibet Nationality College, 712082 Xianyang Shaanxi, China.
| | | | | | | |
Collapse
|
49
|
Zeng ZS, Zheng XD, Zhu YL, Wang ZQ, Xiang ZD, Meng XS, Wang TP, Dong ZM. Population genetic data of 15 STR loci in Han population of Henan province (central China). Leg Med (Tokyo) 2007; 9:30-2. [PMID: 17150403 DOI: 10.1016/j.legalmed.2006.08.002] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2006] [Revised: 08/06/2006] [Accepted: 08/10/2006] [Indexed: 11/21/2022]
Abstract
Allele frequencies of the 15 STR loci were determined in 208 unrelated individuals from Han population living in Henan, China (central China). All loci except D5S818 were found no deviation from Hardy-Weinberg equilibrium. The combined power of discrimination (PD) and the combined chance of exclusion (CE) for the 15 studied loci were >0.9999999 and 0.999996119, respectively. Our data were statistically compared with the previously reported data from other Chinese population groups, and significant difference was found between central Han Chinese (n=208) and eastern Chinese (n=100) at vWA, or between central Han Chinese (n=208) and southeast Chinese (n=122) at D13S317.
Collapse
Affiliation(s)
- Zhao Shu Zeng
- Department of Forensic Medicine, Medical School of Zhengzhou University, Zhengzhou, Henan 450052, China.
| | | | | | | | | | | | | | | |
Collapse
|
50
|
Deng Y, Zhu B, Yu X, Li Y, Fang J, Xiong X, Mu H, Huang Y, Shi X. Genetic polymorphisms of 15 STR loci of Chinese Dongxiang and Salar ethnic minority living in Qinghai Province of China. Leg Med (Tokyo) 2006; 9:38-42. [PMID: 17150400 DOI: 10.1016/j.legalmed.2006.08.003] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2006] [Revised: 08/11/2006] [Accepted: 08/18/2006] [Indexed: 11/30/2022]
Abstract
Fifteen autosomal STRs loci were analyzed from two samples of 178 healthy unrelated autochthonous individuals of Chinese Dongxiang and Salar ethnic minority groups using a multiplex PCR system. Allele frequencies distribution and statistical parameters for all STR loci, D8S1179, D21S11, D7S820, CSF1PO, D3S1358, TH01, D13S317, D16S539, D2S1338, D19S433, vWA, TPOX, D18S51, D5S818 and FGA, were determined by the AmpFISTR Identifiler Kit. The observed genotype frequencies and expected of genotype frequencies were evaluated by chi(2)-test and the Fisher exact tests. chi(2)-test showed that the agreement with Hardy-Weinberg equilibrium (p>0.05) was for all studied STR loci of two populations. The data in the present study can be used greatly for routine forensic application in the region, and enrich Chinese ethnical genetic informational resources.
Collapse
Affiliation(s)
- Yajun Deng
- Beijing Genomics Institute, Chinese Academy of Sciences, Beijing 101300, PR China.
| | | | | | | | | | | | | | | | | |
Collapse
|