Sequence polymorphisms of mtDNA HV1, HV2 and HV3 regions in eight population groups living in Taiwan

Australian Journal of Forensic Sciences

Volumn 44, Issue 3, 2012, Pages 243-252

  Hwa, Hsiao Lin ^a   Ko, Tsang Ming ^b   Chen, Yen Ching ^a   Lin, Chun Yen ^c   Huang, Yu Hsuan ^c   Tseng, Li Hui ^d   Su, Yi Ning ^d   Lee, James Chun I ^a,c  

^a NATIONAL TAIWAN UNIVERSITY   (Taiwan)

^b Genephile Bioscience Laboratory   (Taiwan)

^c Institute of Forensic Medicine   (Taiwan)

^d NATIONAL TAIWAN UNIVERSITY HOSPITAL   (Taiwan)

Author keywords

haplogroup; hypervariable region 1; hypervariable region 2; hypervariable region 3; mitochondrial DNA

Indexed keywords

MITOCHONDRIAL DNA;

ARTICLE; CONTROLLED STUDY; DNA POLYMORPHISM; DNA SEQUENCE; DNA STRUCTURE; FEMALE; GENE DELETION; GENE INSERTION; GENE STRUCTURE; HAPLOTYPE; HUMAN; HUMAN TISSUE; HYPERVARIABLE REGION 1; HYPERVARIABLE REGION 2; HYPERVARIABLE REGION 3; MAJOR CLINICAL STUDY; PHYLOGENETIC TREE; POPULATION GENETICS; RETROSPECTIVE STUDY; TAIWAN;

EID: 84866263206     PISSN: 00450618     EISSN: 1834562X     Source Type: Journal    
DOI: 10.1080/00450618.2011.650208     Document Type: Article

References (38)

1. Cordner SM, Woodford N, Bassed R. Forensic aspects of the 2009 Victorian bushfire disaster. Forensic Sci Int. 2011;205:2-7.
2. Pfeiffer H, Forster P, Ortmann C, Brinkmann B. The results of an mtDNA study of 1,200 inhabitants of a German village in comparison to other Caucasian databases and its relevance for forensic casework. Int J Legal Med. 2001;114:169-172. (Pubitemid 32167718)
3. Nur Haslindawaty AR, Panneerchelvam S, Edinur HA, Norazmi MN, Zafarina Z. Sequence polymorphisms of mtDNA HV1, HV2, and HV3 regions in the Malay population of Peninsular Malaysia. Int J Legal Med. 2010;124:415-426.
4. Budowle B, Allard MW, Wilson MR, Chakraborty R. Forensics and mitochondrial DNA: applications, debates, and foundations. Ann Rev Genomics Hum Genet. 2003;4:119-141. (Pubitemid 37392921)
5. Tsai LC, Lin CY, Lee JC, Chang JG, Linacre A, Goodwin W. Sequence polymorphism of mitochondrial D-loop DNA in the Taiwanese Han population. Forensic Sci Int. 2001;119:239-247. (Pubitemid 32455498)
6. Yao YG, Kong QP, Bandelt HJ, Kivisild T, Zhang YP. Phylogeographic differentiation of Mitochondrial DNA in Han Chinese. Am J Hum Genet. 2002;70:635-651. (Pubitemid 34177919)
7. Tajima A, Sun CS, Pan IH, Ishida T, Saitou N, Horai S. Mitochondrial DNA polymorphisms in nine aboriginal groups of Taiwan: implications for the population history of aboriginal Taiwanese. Hum Genet. 2003;113:24-33. (Pubitemid 36869035)
8. Allard MW, Wilson MR, Monson KL, Budowle B. Control region sequences for East Asian individuals in the Scientific Working Group on DNA Analysis Methods forensic mtDNA data set. Legal Medicine. 2004;6:11-24. (Pubitemid 38169247)
9. Trejaut JA, Kivisild T, Loo JH, Lee CL, He CL, Hsu CJ, Lee ZY, Lin M. Traces of archaic mitochondrial lineages persist in Austronesian-speaking Formosan populations. PLoS Biol. 2005;3:e247.
10. Thangaraj K, Chaubey G, Kivisild T, Selvi Rani D, Singh VK, Ismail T, Carvalho-Silva D, Metspalu M, Bhaskar LV, Reddy AG, Chandra S, Pande V, Prathap Naidu B, Adarsh N, Verma A, Jyothi IA, Mallick CB, Shrivastava N, Devasena R, Kumari B, Singh AK, Dwivedi SK, Singh S, Rao G, Gupta P, Sonvane V, Kumari K, Basha A, Bhargavi KR, Lalremruata A, Gupta AK, Kaur G, Reddy KK, Rao AP, Villems R, Tyler-Smith C, Singh L. Maternal footprints of Southeast Asians in North India. Hum Hered. 2008;66:1-9. (Pubitemid 351342229)
11. Department of Statistics, Ministry of the Interior, Taiwan. [http://www.moi.gov.tw/]. Accessed on 12 September 2011.
12. Council of Indigenous Peoples, Executive Yuan, Taiwan. [http://www.apc.gov.tw/]. Accessed on 12 September 2011.
13. National Immigration Agency Taiwan. [http://www.immigration.gov.tw/]. Accessed on 12 September 2011.
14. Sambrook J, Fritsch EF, Maniatis T. Molecular cloning: a laboratory manual. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press; 1989.
15. Vigilant L, Pennington R, Harpending H, Kocher TD, Wilson AC. Mitochondrial DNA sequences in single hairs from a southern African population. Proc Natl Acad Sci USA. 1989;86:9350-9354. (Pubitemid 20010423)
16. Anderson S, Bankier AT, Barrell BG, de Bruijn MH, Coulson AR, Drouin J, Eperon IC, Nierlich DP, Roe BA, Sanger F, Schreier PH, Smith AJ, Staden R, Young IG. Sequence and organization of the human mitochondrial genome. Nature. 1981;290:457-465. (Pubitemid 11159074)
17. Andrews RM, Kubacka I, Chinnery PF, Lightowlers RN, Turnbull DM, Howell N. Reanalysis and revision of the Cambridge reference sequence for human mitochondrial DNA. Nat Genet. 1999;23:147. (Pubitemid 29455385)
18. Carracedo A, BärW, Lincoln P,Mayr W, Morling N, Olaisen B, Schneider P, Budowle B, Brinkmann B, Gill P, Holland M, Tully G, Wilson M. DNA commission of the international society for forensic genetics: guidelines for mitochondrial DNA typing. Forensic Sci Int. 2000;110:79-85. (Pubitemid 30243182)
19. Irwin JA, Ikramov A, Saunier J, Bodner M, Amory S, Röck A, O'Callaghan J, Nuritdinov A, Atakhodjaev S, Mukhamedov R, Parson W, Parsons TJ. The mtDNA composition of Uzbekistan: a microcosm of Central Asian patterns. Int J Legal Med. 2010;124:195-204.
20. Bendall KE, Sykes BC. Length heteroplasmy in the first hypervariable segment of the human mtDNA control region. Am J Hum Genet. 1995;57:248-256.
21. Vanecek T, Vorel F, Sip M. Mitochondrial DNA D-loop hypervariable regions: Czech population data. Int J Legal Med. 2004;118:14-18. (Pubitemid 38325688)
22. Lee HY, Yoo JE, Park MJ, Chung U, Shin KJ. Mitochondrial DNA control region sequences in Koreans: identification of useful variable sites and phylogenetic analysis for mtDNA data quality control. Int J Legal Med. 2006;120:5-14. (Pubitemid 41830898)
23. Kloss-Brandstätter A, Pacher D, Schönherr S, Weissensteiner H, Binna R, Specht G, Kronengerg F. HaploGrep: a fast and reliable algorithm for automatic classification of mitochondrial DNA haplogroups. Hum Mutat. 2011;32:25-32.
24. Nei M, Li WH. Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc Natl Acad Sci USA. 1979;76:5269-5273. (Pubitemid 10236121)
25. Excoffier L, Smouse PE, Quattro JM. Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics. 1992;131:479-491.
26. Excoffier L, Smouse PE. Using allele frequencies and geographic subdivision to reconstruct gene trees within a species: molecular variance parsimony. Genetics. 1994;136:343-359. (Pubitemid 24016698)
27. Excoffier L, Laval G, Schneider S. Arlequin (version 3.0): an integrated software package for population genetics data analysis. Evolutionary Bioinformatics Online. 2007;1:47-50.
28. Reynolds J, Weir BS, Cockerham CC. Estimation of the coancestry coefficient: basis for a short-term genetic distance. Genetics. 1983;105:767-779. (Pubitemid 14246280)
29. Parson W, Parsons TJ, Scheithauer R, Holland MM. Population data for 101 Austrian Caucasian mitochondrial DNA d-loop sequences: application of mtDNA sequence analysis to a forensic case. Int J Legal Med. 1998;111:124-132. (Pubitemid 28197816)
30. Maruyama S, Minaguchi K, Saitou N. Sequence polymorphisms of the mitochondrial DNA control region and phylogenetic analysis of mtDNA lineages in the Japanese population. Int J Legal Med. 2003;117:218-225. (Pubitemid 37039761)
31. Butler JM. Forensic DNA typing, 2nd ed. Burlington, MA: Elsevier Academic Press; 2005. Chapter 10, Mitochondrial DNA analysis; p. 241-298.
32. Nohira C, Maruyama S, Minaguchi K. Phylogenetic classification of Japanese mtDNA assisted by complete mitochondrial DNA sequences. Int J Legal Med. 2010;124:7-12.
33. Irwin JA, Saunier JL, Strouss KM, Diegoli TM, Sturk KA, O'Callaghan JE, Paintner CD, Hohoff C, Brinkmann B, Parsons TJ. Mitochondrial control region sequences from a Vietnamese population sample. Int J Legal Med. 2008;122:257-259. (Pubitemid 351534092)
34. Fucharoen G, Fucharoen S, Horai S. Mitochondrial DNA polymorphisms in Thailand. J Hum Genet. 2001;46:115-125. (Pubitemid 32290639)
35. Li H, Cai X, Winograd-Cort ER, Wen B, Cheng X, Qin Z, Liu Y, Pan S, Qian J, Tan CC, Jin L. Mitochondrial DNA diversity and population differentiation in southern East Asia. Am J Phys Anthropol. 2007;134:481-488. (Pubitemid 350155983)
36. Loo JH, Trejaut JA, Yen CJ, Chen ZS, Lee CL, Lin M. Genetic affinities between the Yami tribe people of Orchid Island and the Philippine Islanders of the Batanes archipelago. BMC Genet. 2011;12:21.
37. Zhang YJ, Xu QS, Zheng ZJ, Lin HY, Lee JB. Haplotype diversity in mitochondrial DNA hypervariable region I, II and III in northeast China Han. Forensic Sci Int. 2005;149:267-269. (Pubitemid 40321067)
38. Hwa HL, Tseng LH, Ko TM, Chang YY, Yin HY, Su YN, Lee JC. Seventeen Y-chromosomal short tandem repeat haplotypes in seven groups of population living in Taiwan. Int J Legal Med. 2010;124:295-300.