Intracemetery genetic analysis at the Nakazuma Jomon site in Japan by mitochondrial DNA sequencing

Anthropological Science

Volumn 107, Issue 2, 1999, Pages 129-140

  Shinoda, Ken Ichi ^a   Kanai, Satoru ^b  

^a SAGA UNIVERSITY   (Japan)

^b BIOMOL ENG RESEARCH INSTITUTE   (Japan)

Author keywords

Ancient DNA; Control region; Jomon; Mitochondria; Sequence

Indexed keywords

EID: 0039021698     PISSN: 09187960     EISSN: None     Source Type: Journal    
DOI: 10.1537/ase.107.129     Document Type: Article

References (33)

1. Anderson S., Bankier A.T., Barrell B.G., de Bruijn M.H., Coulson A.R., Drouin J., Eperon I.C., Nierlich O.P., Roe B.A., Sanger F., Schreier P.H., Smith A.J., Staden R., and Young I.G. (1981) Sequence and organization of the human mitochondrial genome. Nature, vol. 290, pp. 457-465.
2. Boom R., Sol C.J., Salimans M.M., Jansen C.L., Wertheim-van Dillen P.M., and van der Noordaa J. (1990) Rapid and simple method for purification of nucleic acids. Journal of Clinical Microbiology, vol. 28, pp. 495-503.
3. Cann R.L., Stoneking M. and Wilson A.C. (1987) Mitochondrial DNA and human evolution. Nature, vol. 325, pp. 31-36.
4. Educational Committee of Toride City (1995) Nakazuma shell midden. Toride (in Japanese).
5. Felsenstein J. (1993) PHYLIP (Phylogeny Inference Package) version 3.5c. Department of Genetics, University of Washington, Seattle.
6. Hagelberg E. (1997) Ancient and modern mitochondrial DNA sequences and the colonization of the Pacific. Electrophoresis, vol. 18, pp. 1529-1533.
7. Higgins D.G., Bleasby A.J., and Fuchs R. (1991) CLUSTAL V: improved software for multiple sequence alignment., Computer Applications in the Biosciences, vol. 8, pp. 189-191.
8. Horai S. and Matsunaga E. (1986) Mitochondrial DNA polymorphism in Japanese II. Analysis with restriction enzymes of four or five base pair recognition. Human Genetics, vol. 72, pp. 105-117.
9. Horai S., Hayasaka K., Murayama K., Wate N., Koike H., and Nakai N. (1989) DNA amplification from ancient human skeletal remains and their sequence analysis. Proceedings of the Japan Academy, vol. 65, series B, pp. 229-233.
10. Horai S. and Hayasaka K. (1990) Intraspecific nucleotide sequence differences in the major noncoding region of human mitochondrial DNA. American Journal of Human Genetics, vol. 46, pp. 828-842.
11. Horai S. (1991) A genetic trail of human mitochondrial DNA. In Mukohata Y. ed., "New era of bioenergetics", Academic Press, Tokyo, pp. 273-299.
12. Horai S., Kondo R., Murayama K., Hayashi S., Koike H., and Nakai N. (1991) Phylogenetic affiliation of ancient and contemporary humans inferred from mitochondrial DNA. Philosophical Transactions of the Royal Society of London - series B: Biological Sciences, vol. 333, pp. 409-417.
13. Horai S., Hayasaka K., Kondo R., Tsugane K., and Takahata N. (1995) Recent African origin of modern humans revealed by complete sequences of hominoid mitochondrial DNAs. Proceedings of the National Academy of Sciences of the United States of America, vol. 92, pp. 532-536.
14. Höss M. and Pääbo S. (1993) DNA extraction from Pleistocene bones by a silica-based purification method. Nucleic Acids Research, vol. 21, pp. 3913-3914.
15. Ikawa-Smith F. (1980) Current issures in Japanese archaeology. American Scientist, vol. 68, pp. 134-145.
16. Ivanov P.L., Wadhams M.J., Roby R.K., Hollamd M.M., Weedn V.W., and Parsons TJ. (1996) Mitochondrial DNA sequence heteroplasmy in the Grand Duke of Russia Georgij Romanov establishes the authenticity of the remains of Tsar Nocholas II. Nature Genetics, vol. 12, pp. 417-420.
17. Krings M., Stone A., Schmitz R.W., Krainitzki H., Stoneking M., and Pääbo S. (1997) Neandertal DNA sequences and the origin of modern humans. Cell, vol. 90, pp. 19-30.
18. Lawlor D.A., Dickel C.D., Hauswirth W.W., and Parham P. (1991) Ancient HLA genes from 7,500-year-old archaeological remains. Nature, vol. 349, pp. 785-788.
19. Matsumura H. and Nishimoto T. (1996) Statistical analysis on kinship of the Nakazuma Jomon people using tooth crown measurements. Zoo-archaeology, vol. 6, pp. 1-17 (in Japanese with English summary).
20. Monsalve M.V., Cardenas F., Guhl F., Delaney A.D., and Devine D.V. (1996) Phylogenetic analysis of mtDNA lineages in South American mummies. Annuls of Human Genetics, vol. 60, pp. 293-303.
21. Nei M. and Tajima F. (1981) DNA polymorphism detectable by restriction endonucleases. Genetics, vol. 97, pp. 145-163.
22. Oota H., Saitou N., Matsushita T., and Ueda S. (1995) A genetic study of 2,000-year-old human remains from Japan using mitochondrial DNA sequences. American Journal of Physical Anthropology, vol. 98, pp. 133-145.
23. Page R.D. (1996) Tree View: an application to display phylogenetic trees on personal computers. Computer Applications in the Biosciences, vol. 12, pp. 357-358.
24. Lys intergenic 9 base pair deletion in human mitochondrial DNAs from the Pacific. Molecular Biology and Evolution, vol. 12, pp. 604-615.
25. Saitou N. and Nei M. (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution, vol. 4, pp. 406-425.
26. Shinoda K. and Kunisada T. (1990) Extraction and amplification of the human mitochondrial DNA from the Jomon skeletal remains. Journal of the Anthropological Society of Nippon, vol. 98, pp. 471-482 (in Japanese with English summary).
27. Shinoda K. and Kunisada T. (1994) Analysis of ancient Japanese society through mitochondrial DNA sequencing. International Journal of Osteoarchaeology, vol. 4, pp. 291-297.
28. Sokal R.R. and Sneath P.H.A. (1963) Principles of numerical taxonomy. W.H. Freeman, San Francisco.
29. Stone A.C. and Stoneking M. (1993) Ancient DNA from a pre-Columbian Amerindian population. American Journal of Physical Anthropology, vol. 92, pp. 463-471.
30. 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, vol. 22, pp. 4673-4680.
31. Ward R.H., Frazier B.L., Dew-Jager K., and Pääbo S. (1991) Extensive mitochondrial diversity within a single Amerindian tribe. Proceedings of the National Academy of Sciences of the United States of America, vol. 88, pp. 8720-8724.
32. Wrischnik L.A., Higuchi R.G., Stoneking M., Erlich H.A., Arnheim N., and Wilson A.G. (1987) Length mutations in human mitochondrial DNA: direct sequencing of enzymatically amplified DNA. Nucleic Acids Research, vol. 15, pp. 529-542.
33. Zierdt H., Hummel S., and Herrmann B. (1996) Amplification of human short tandem repeats from medieval teeth and bone samples. Human Biology, vol. 68, pp. 185-199.