Peopling of Myanmar as demonstrated by genotyping of urinary JC virus DNA

Anthropological Science

Volumn 110, Issue 3, 2002, Pages 235-249

  Saruwatari, Lei ^a   Zheng, Huai Ying ^b,c   Takasaka, Tomokazu ^b   Sugimoto, Chie ^b   Sakai, Eiichi ^a   Bo, Bo ^d   Aung, Nwe Nwe ^d   Kitamura, Tadaichi ^c   Yogo, Yoshiaki ^b   Ohno, Norikazu ^a  

^a AICHI GAKUIN UNIVERSITY   (Japan)

^b UNIVERSITY OF TOKYO   (Japan)

^c UNIVERSITY OF TOKYO   (Japan)

^d Institute of Dental Medicine   (Myanmar)

Author keywords

Human migration; JC virus genotypes; Peopling of Myanmar; Subtype SC; Whole genome approach

Indexed keywords

VIRUS DNA;

ARTICLE; CONTROLLED STUDY; ETHNIC GROUP; GENETIC ANALYSIS; GENOME; GENOTYPE; HUMAN; HUMAN EXPERIMENT; JC VIRUS; MIGRATION; MYANMAR; NORMAL HUMAN; PHYLOGENY; POPULATION; URINALYSIS;

EID: 0036661985     PISSN: 09187960     EISSN: None     Source Type: Journal    
DOI: 10.1537/ase.110.235     Document Type: Article

References (41)

1. Agostini H. T., Yanagihara R., Davis V., Ryschkewitsch C. F., and Stoner G. L. (1997) Asian genotypes of JC virus in Native Americans and in a Pacific Island population: Markers of viral evolution and human migration. Proceedings of the National Academy Sciences, USA, 94: 14542-14546.
2. Ault G. S. and Stoner G. L. (1992) Two major types of JC virus defined in progressive multifocal leukoencephalopathy brain by early and late coding region DNA sequences. Journal of General Virology, 73: 2669-2678.
3. Chang D., Wang M., Ou W.-C., Lee M.-S., Ho H.-N., and Tsai R.-T. (1996) Genotypes of human polyomaviruses in urine samples of pregnant women in Taiwan. Journal of Medical Virology, 48: 95-101.
4. Chang D., Sugimoto C., Wang M., Tsai R.-T., and Yogo Y. (1999) JC virus genotypes in a Taiwan aboriginal tribe (Bunun): Implications for its population history. Archives of Virology, 144: 1081-1090.
5. Chesters P. M., Heritage J., and McCance D. J. (1983) Persistence of DNA sequences of BK virus and JC virus in normal human tissues and in diseased tissues. The Journal of Infectious Diseases, 147: 676-684.
6. Cole C. N. and Conzen S. D. (2001) Polyomaviridae: The viruses and their replication. In: Knipe D. M., Howley P. M., Griffin D. E., Lamb R. A., Martin M. A., Roizman B. and Straus S. E. (eds.), "Fields Virology, 4th Ed.," Lippincott Williams & Wilkins, Philadelphia, pp. 2141-2173.
7. Cribbs G. and Smith M. (1999) Ethnographical history, In: Diran R.K., "The Vanishing Tribes of Burma," Seven Dials, London, pp. 196-200.
8. Enriquez C. M. (1933) Races of Burma. Ava Publishing House, Bangkok.
9. Felsenstein J. (1985) Confidence limits on phylogenies: An approach using the bootstrap. Evolution, 39: 783-791.
10. Guo J., Kitamura T., Ebihara H., Sugimoto C., Kunitake T., Takehisa J., Na Y. Q., Al-Ahdal M. N., Hallin A., Kawabe K., Taguchi F., and Yogo Y. (1996) Geographical distribution of the human polyomavirus JC virus types A and B and isolation of a new type from Ghana. Journal of General Virology, 77: 919-927.
11. Guo J., Sugimoto C., Kitamura T., Ebihara H., Kato A., Guo Z., Liu J., Zheng S. P., Wang Y. L., Na, Y. Q., Suzuki M., Taguchi F., and Yogo Y. (1998) Four geographically distinct genotypes of JC virus are prevalent in China and Mongolia: Implications for the racial composition of modern China. Journal of General Virology, 79: 2499-2505.
12. Guo Z., Zheng S. P., Sugimoto C., Wang Y. L., Zheng H.-Y., Takasaka T., Kitamura T., Guo J., and Yogo Y. (2001) JC virus genotypes in northwestern China: Implications for its population history. Anthropological Science, 109: 203-212.
13. Hatwell J. N. and Sharp P. M. (2000). Evolution of human polyomavirus JC. Journal of General Virology, 81: 1191-1200.
14. Imanishi T. (1998) DendroMaker for Macintosh. Center for Information Biology, National Institute of Genetics, Japan [http://www.cib.nig.ac.jp/dda/timanish/dendromaker/home-j.html].
15. Jobes D. V., Chima S. C., Ryschkewitsch C. F., and Stoner G. L. (1998) Phylogenetic analysis of 22 complete genomes of the human polyomavirus JC virus. Journal of General Virology, 79: 2491-2498.
16. Jobes D. V., Friedlaender J. S., Mgone C. S., Agostini H. T., Koki G., Yanagihara R., Ng T. C. N., Chima S. C., Ryschkewitsch C. F., and Stoner G. L. (2001) New JC virus (JCV) genotypes from Papua New Guinea and Micronesia (type 8 and type 2E) and evolutionary analysis of 32 complete JCV genomes. Archives of Virology, 146: 2097-2113.
17. Kato A., Kitamura T, Sugimoto C., Ogawa Y., Nakazato K., Nagashima K., Hall W. W., Kawabe K., and Yogo Y. (1997) Lack of evidence for the transmission of JC polyomavirus between human populations. Archives of Virology, 142: 875-882.
18. Kato A., Sugimoto C., Zheng H.-Y., Kitamura T., and Yogo Y. (2000) Lack of disease-specific amino acid changes in the viral proteins of JC virus isolates from the brain with progressive multifocal leukoencephalopathy. Archives of Virology, 145: 2173-2182.
19. Kimura M. (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution, 16: 111-120.
20. Kitamura T., Aso Y., Kuniyoshi N., Hara K., and Yogo Y. (1990) High incidence of urinary JC virus excretion in nonimmunosuppressed older patients. The Journal of Infectious Diseases, 161: 1128-1133.
21. Kitamura T., Kunitake T, Guo J., Tominaga T., Kawabe K., and Yogo Y. (1994) Transmission of the human polyomavirus JC virus occurs both within the family and outside the family. Journal of Clinical Microbiology, 32: 2359-2363.
22. Kitamura T., Sugimoto C., Kato A., Ebihara H., Suzuki M., Taguchi F., Kawabe K., and Yogo Y. (1997) Persistent JC virus (JCV) infection is demonstrated by continuous shedding of the same JCV strains. Journal of Clinical Microbiolgy, 35: 1255-1257.
23. Kunitake T., Kitamura T., Guo J., Taguchi F., Kawabe K., and Yogo Y. (1995) Parent-to-child transmission is relatively common in the spread of the human polyomavirus JC virus. Journal of Clinical Microbiology, 33: 1448-1451.
24. Padgett B. L., Walker D. L., ZuRhein G. M., Eckroade R. J., and Dessel B. H. (1971) Cultivation of papova-like virus from human brain with progressive multifocal leucoencephalopathy. Lancet, i: 1257-1260.
25. Padgett B. L., and Walker D. L. (1973) Prevalence of antibodies in human sera against JC virus, an isolate from a case of progressive multifocal leukoencephalopathy. The Journal of Infectious Diseases, 127: 467-470.
26. Page R. D. M. (1996) TREEVIEW: An application to display phylogenetic trees on personal computers. Computer Applications in the Biosciences, 12: 357-358.
27. Ruhlen M. (1991) A Guide to the World's Languages, Vol. 1: Classification. Stanford University Press, Stanford.
28. Ryschkewitsch C. F., Friedlaender J. S., Mgone C. S., Jobes D. V., Agostini H. T., Chima S. C., Alpers M. P., Koki G., Yanagihara R., and Stoner G. L. (2000) Human polyomavirus JC variants in Papua New Guinea and Guam reflect ancient population settlement and viral evolution. Microbes and Infection, 2: 987-996.
29. Saitou N. and Nei M. (1987) The neighbor-joining method: A new method for reconstructing phylogentic trees. Molecular Biology and Evolution, 4: 406-425.
30. Saruwatari L., Sugimoto C., Kitamura T., Ohno N., Sakai E., Shresta P., Hoa B. K., Phi P. T. P., An H. P. H., Tuyet N. T. A., Honjo T., Kobayashi N., Zheng H.-Y., Takasaka T., and Yogo Y. (2002) Asian domains of four major genotypes of JC virus, Af2, B1-b, CY and SC. Archives of Virology, 147: 1-10.
31. Stoner G. L., Jobes D. V., Cobo M. F., Agostini H. T., Chima S. C., and Ryschkewitsch C. F. (2000) JC virus as a marker of human migration to the Americas. Microbes and Infection, 2: 1905-1911.
32. Sugimoto C., Kitamura T., Guo J., Al-Ahdal M. N., Shchelkunov S. N., Otova B., Ondrejka P., Chollet J.-Y., El-Safi S., Ettayebi M., Grèsenguet G., Kocagöz T., Chaiyarasamee S., Thant K. Z., Thein S., Moe K., Kobayashi N., Taguchi F., and Yogo Y. (1997) Typing of urinary JC virus DNA offers a novel means of tracing human migrations. Proceedings of the National Academy Sciences, USA, 94: 9191-9196.
33. Sugimoto C., Kobayashi N., Kitamura T., and Yogo Y. (1998) Origin of Amerind populations in Guatemala and Peru as viewed from JC virus DNA sequence variation. Abstracts of the papers presented at the 51st meeting of the Anthropological Society of Nippon. Anthropological Science 106: 170.
34. Sugimoto C., Hasegawa M., Kato A., Zheng H.-Y., Ebihara H., Taguchi F., Kitamura T., and Yogo Y. (2002) Evolution of human polyomavirus JC: Implications for the population history of humans. Journal of Molecular Evolution, 54: 285-297.
35. Takaya N. (1997) The Shan people of Burma, In: Tamura K., Nemoto K. (eds.), "Burma," Kawadeshobou-shinsha, Tokyo (in Japanese), pp. 34-41.
36. Thompson J. D., Higgins D. G., and Gibson T. J. (1994) CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Research, 22: 4673-4680.
37. Tominaga T., Yogo Y., Kitamura T., and Aso Y. (1992) Persistence of archetypal JC virus DNA in normal renal tissue derived from tumor-bearing patients. Virology, 186: 736-741.
38. Yabu S. (1998) Tribes and Languages, In: Ayabe T. and Ishii Y. (eds.), "Motto Shiritai Myanmar," Koubundou, Tokyo (in Japanese), pp. 73-110.
39. Yogo Y., Kitamura T., Sugimoto C., Ueki T., Aso Y., Hara K., and Taguchi F. (1990) Isolation of a possible archetypal JC virus DNA sequence from nonimmunocompromised individuals. Journal of Virology, 64: 3139-3143.
40. Yogo Y., Iida T., Taguchi F., Kitamura T., and Aso Y. (1991) Typing of human polyomavirus JC virus on the basis of restriction fragment length polymorphisms. Journal of Clinical Microbiology, 29: 2130-2138.
41. Yogo Y., Sugimoto C., Suzuki M., Zheng H.-Y., Kato A., Kunitake T., and Kitamura T. (2000) Population-linked transmission of JC virus. Abstracts of the papers presented at the 53rd meeting of the Anthropological Society of Nippon. Anthropological Science, 108: 86.