Evolutionary genomics lab

ゲノム情報解析学

English page

ゲノムと進化


竹崎直子 （教授）

研究内容について

  1. ゲノム進化　
  2. 脊椎動物の系統関係
  3. 人類進化
  4. 系統樹作成
  5. 分子時計

  1. 「分子進化と分子系統学」根井正利／S. クマー共著　根井正利監訳・改訂　大田竜也・竹崎直子共訳
  2. 博士課程大学院生募集
    3. 　　　　 　
  3. ポスドク研究員として来られたい方はご連絡ください
  4. 履歴
  5. 学会活動
  6. Publication list
  7. 配布ソフトウェア
博士課程大学院生募集 香川大学大学院医学系研究科 （博士課程）担当
興味のある方はお問い合わせください。 履歴

学歴

１９８４年３月　東京大学教育学部教育心理学科卒業
１９８８年４月　ブリガムヤング大学社会学部修士課程入学
１９８９年９月　ユタ大学人類学部修士課程入学
１９９１年６月　ユタ大学人類学部修士課程修了
１９９１年８月　ペンシルバニア州立大学遺伝学専攻博士課程入学
１９９６年５月　ペンシルバニア州立大学遺伝学専攻博士課程修了

職歴

１９８４年４月ー１９８８年３月　富士通株式会社勤務
１９９６年９月ー１９９９年３月　国立遺伝学研究所技術補佐員
１９９９年４月ー２０００年８月　総合研究大学院大学非常勤講師
２０００年９月ー２００３年１０月マックスプランク研究所研究員
２００３年１１月―２００４年８月 国立遺伝学研究所生命情報・ＤＤＢＪ研究センター科学技術振興研究員
２００４年９月― 香川大学総合情報基盤センター・教授
２００7年4月― 香川大学総合生命科学研究センター・教授
２００8年9月― 葉山高等研究センター・研究員

学会活動

日本遺伝学会
日本進化学会
日本人類学会
Society for Molecular Biology and Evolution
2005年７月- Associate Editor of Molecular Biology and Evolution

Publication list

  1. Tateno, Y., N. Takezaki, and M. Nei. 1994. Relative efficiencies of the maximum likelihood, neighbor-joining, and maximum parsimony methods when substitution rate varies with site. Mol. Biol. Evol. 11:261-277.
  2. Nei, M. and N. Takezaki. 1994. Estimation of genetic distances and phylogenetic trees from DNA analysis.
    3. Proc. 5th World Cong. Genet. Appl. Livestock Prod. 21:405-412.
  3. Takezaki, N. and M. Nei. 1994. Inconsistency of the maximum parsimony method when the rate of nucleotide substitution is constant. J. Mol. Evol. 39:210-218.
  4. Tajima, F. and N. Takezaki. 1994. Estimation of evolutionary distance for reconstructing molecular phylogenetic trees. Mol. Biol. Evol. 11:278-286.
  5. Redd, A. J., N. Takezaki, S. T. Sherry, S. T. McGarvey, A. M. M. Sofro, and M. Stoneking. 1995. Evolutionary history of the COII/tRNALys intergenic 9 base pair deletion in human mitochondrial DNAs from the Pacific. Mol. Biol. Evol. 12:604-615.
  6. Russo, C., N. Takezaki, and M. Nei. 1995. Molecular phylogeny and divergence time of drosophilid species. Mol. Biol. Evol. 12:391-404.
  7. Nei, M., N. Takezaki, and T. Sitnikova. 1995. Assessing molecular phylogenies. Science 267:253-254.
  8. Takezaki, N., A. Rzhetskey, and M. Nei. 1995. Phylogenetic test of the molecular clock and linearized trees. Mol. Biol. Evol. 12:823-833.
  9. Nei, M. and N. Takezaki. 1996. The root of the phylogenetic tree of human populations. Mol. Biol. Evol. 13:170-177.
  10. Russo, C., N. Takezaki, and M. Nei. 1996. Efficiencies of different genes and different tree-building methods in recovering a known vertebrate phylogeny. Mol. Biol. Evol. 13:525-536.
  11. Takezaki, N. and M. Nei. 1996. Genetic distances and reconstruction of phylogenetic trees from microsatellite DNA. Genetics 144: 389-399.
  12. Nei, M. and N. Takezaki. 1996. Reconstruction of phylogenetic trees from microsatellite (STR) loci. Animal Genetics 27:1-16.
  13. Takezaki, N. 1998. Tie trees generated by distance methods of phylogenetic reconstruction. Mol. Biol. Evol 15:727-737.
  14. Takezaki, N. and T. Gojobori. 1999. Correct and incorrect vertebrate phylogenies obtained by the entire mitochondrial DNA sequences. Mol. Biol. Evol 15:727-37
  15. Suzuki, H., K. Tsuchiya and N. Takezaki. 2000. A molecular phylogenetic framework for the Ryukyu endemic rodents Tokusdaia osimensis and Diplothrix legata. Molecular Phylogenetics and Evolution 15:15-24.
  16. Nagl, S., H. Tichy, W. E. Mayer, N. Takezaki, N. Takahata, and J. Klein. 2000. The origin and age of haplochromine fishes in Lake Victoria, east Africa. Proc R Soc Lond B Biol Sci. 267:1049-61.
  17. Figueroa F., W. E. Mayer, H. Sultmann, C. O'hUigin, H. Tichy, Y. Satta, N. Takezaki, N. Takahata, and J. Klein. 2000. Mhc class II B gene evolution in East African cichlid fishes. Immunogenetics 51: 556-75.
  18. Sultman, H., A. Sato, B. W. Murray, N. Takezaki, R. Geisler, G. Rauch, and J. Klein. 2000. Conservation of Mhc Class II Region Synteny between zebrafish and human as determined by radiation hybrid mapping. Journal of Immunology 165:6984-6993.
  19. Takezaki, N., Z. Zaleska-Rutczynska, and F. Figueroa. 2002. Sequencing of amphioxus PSMB5/8 gene and phylogenetic position of agnathan sequences. Gene 282:179-187.
  20. Uinuk-Ool, T. S., N. Takezaki, R. I. Sukernik, S. Nagl, and J. Klein. 2002. Origin and affinities of indigenous Siberian populations as revealed by HLA class II gene frequencies. Hum. Genet. 110: 209-226.
  21. Takezaki, N., F. Figueroa, Z. Zaleska-Rutczynska, and J. Klein. 2003. Molecular phylogeny of early vertebrates: Monophyly of the agnathans as revealed by sequences of 35 genes. Mol. Biol. Evol. 20:287-292.
  22. Sato, A. , N. Takezaki, H. Tichy, F. Figueroa, W. E. Mayer, and J. Klein. 2003. Origin and speciation of Haplochromine fishes in East African crater lakes investigated by the analysis of their mtDNA, Mhc Genes, and SINEs. Mol. Biol. Evol. 20:1448-62.
  23. Uinuk-Ool, T. S., W. E. Mayer, A. Sato, N. Takezaki, L. Benyon, M. D. Cooper, and J. Klein. Identification and characterization of a TAP-family gene in the lamprey. 2003. Immunogenetics 55(1):38-48.
  24. Sato, A., T. S. Uinuk-Ool, N. Kuroda, W. E. Mayer, N. Takezaki, R. Dongak, F. Figueroa, and M. D. Cooper, J. Klein. Macrophage migration inhibitory factor (MIF) of jawed and jawless fishes: implications for its evolutionary origin. 2003. Dev. Comp. Immunol. 27:401-12.
  25. Tozaki, T., N. Takezaki, T. Hasegawa, N. Ishida, M. Kurosawa, M. Tomita, N. Saitou, and H. Mukoyama. 2003. Microsatellite variation in Japanese and Asian horses and their phylogenetic relationship using a European horse outgroup. J. Hered. 94 :374-80.
  26. T.S. Uinuk-ool, N. Takezaki, N. Kuroda, F. Figueroa, A. Sato, I. E. Samonte, W. E. Mayer and J. Klein. 2003. Phylogeny of antigen processing enzymes: Cathepsins of a cephalochordate, an agnathan and a bony fish. Scand. J. Immunol. 58 :436-48.
  27. Terai, Y. , N. Takezaki, W. E. Mayer, H. Tichy, N. Takahata, J. Klein, and N. Okada. 2004. Phylogenetic relationships among East African haplochromine fishes as revealed by short interspersed elements (SINEs). J. Mol. Evol. 54: 64-78.
  28. Uinuk-Ool, T.S., N. Takezaki, O. A. Derbeneva, N. V. Volodko, and R. I. Sukernik. 2004. Variation of HLA class II genes in the Nganasan and Ket, two aboriginal Siberian populations. Eur. J. Immunogenet. 31: 43-51.
  29. Takezaki, N., F. Figueroa, Z. Zaleska-Rutczynska, N. Takahata, and J. Klein. 2004. The phylogenetic relationship of tetrapod, coelacanth, and lungfish revealed by the sequences of 44 nuclear genes. Mol. Biol. Evol. 21:1512-1523.
  30. Sato, A., R. Dongak, L. Hao, N. Takezaki, S. Shintani, T. Aoki, and J. Klein. 2006. Mhc class I genes of the cichlid fish Oreochromis niloticus. Immunogenetics. 58(11): 917-928.
  31. Nonaka, I., K. Minaguchi, and N. Takezaki. 2007. Y-chromosomal binary haplogroups in the Japanese population and their relationship to 16 Y-STR polymorphisms. Ann. Hum. Genet. 71(Pt 4):480-495.
  32. Tsuboi, K., N. Takezaki, and N. Ueda. 2007. The N-acylethanolamine-hydrolyzing acid amidase (NAAA). Chem. Biodivers. 4:1914-1925.
  33. Takezaki, N., and M. Nei. 2008. Empirical tests of the reliability of phylogenetic trees constructed with microsatellite DNA. Genetics. 178:384-392.
  34. Maruyama S, Minaguchi K, Takezaki N, Nambiar P. 2008. Population data on 15 STR loci using AmpF/STR Identifiler kit in a Malay population living in and around Kuala Lumpur, Malaysia. Leg. Med. 10(3):160-162.
  35. Maruyama S, Minaguchi K, Takezaki N, Nambiar P. 2008. Population data on 15 STR loci using AmpF/STR Identifiler kit in a Malay population living in and around Kuala Lumpur, Malaysia. Leg. Med. 10(3):160-162.
  36. Takezaki, N. and M. Nei. 2009. Genomic drift and evolution of microsatellite DNAs in human populations. Mol. Biol. Evol. 26:1835-1840.
  37. Takezaki, N., M. Nei, and K. Tamura. 2010. POPTREE2 : Software for constructing population trees from allele frequency data and computing other population statistics with Windows-interface. Mol. Biol. Evol. 27:747-752.
  38. Takezaki, N. Evolution of microsatellites. In. ENCYCLOPEDIA OF LIFE SCIENCES. John Wiley & Sons, Ltd: Chichester http://www.els.net/ [DOI: 10.1002/9780470015902.a0022866]
  39. Takezaki, N., M. Nei, and K. Tamura. 2014. POPTREEW: web version of POPTREE for constructing population trees from allele frequency data and computing some other quantities. Mol. Biol. Evol. 31:1622-1644.
  40. Takezaki, N. and H. Nishihara. 2016. Resolving the phylogenetic position of coelacanth: The closest relative Is not always the most appropriate outgroup. Genome Biol Evol 8:1208-1221.
  41. Takezaki, N. and H. Nishihara. 2017. Support for lungfish as the closest relative of tetrapods by using slowly evolving ray-finned fish as the outgroup. Genome Biol Evol 9:93-101.
  42. Takezaki, N. 2017. CNVs and microsatellite DNA polymorphism. In. N. Saitou, Edior, Evolution of the Human Genome I, Springer, Tokyo, Japan. pp 143 - 155.
  43. Takezaki, N. 2018. Global rate variation in bony vertebrates. Genome Biol Evol 10:1803-1815.


配布ソフトウェア

  1. lintre
    • Program for making linearized trees (by re-estimating branch lengths under the assumption of constant rate of evolution) and testing the molecular clock for a given topology of a phylogenetic tree.
  2. poptree
    3.
  3. Poptree2
    • Software for construction of population trees from allele frequency data and computing other population statistics with Windows-interface
  4. SENDBS
    • Program that computes average nucleotide substitutions within and between populations. The method is described in Nei and Jin (1989, MBE 6:290-300). However, note that sendbs computes standard errors of average nucleotide substitutions with a bootstrap method by resampling sites, which is different from Nei and Jin's method. Also, sensbs constructs a population tree with a neighbor-joining method.



トップに戻る
教授 竹崎直子
TEL/FAX 087-891-2419
Email takezaki@med.kagawa-u.ac.jp
住所〒７６１−０７９３香川県木田郡三木町大字池戸１７５０−１
香川大学総合生命科学研究センター