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1999 Fiscal Year Final Research Report Summary

Natural historical study of genes in genomes in view of the notion that a gene is segmented

Research Project

Project/Area Number 10836022
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeSingle-year Grants
Section一般
Research Field 自然史科学
Research InstitutionNational Institute of Genetics

Principal Investigator

TATENO Yoshio  National Institute of Genetics, Center for Information Biology, Professor, 生命情報研究センター, 教授 (00202424)

Co-Investigator(Kenkyū-buntansha) KAWANISHI Yuichi  FUJITSU LIMITED, Science Systems Division, Researcher, 科学システム統括部, 研究職
FUKAMI Kaoru (KOBAYASHI)  National Institute of Genetics, Center for Information Biology, Assistant professor, 生命情報研究センター, 助手 (20225494)
GOJOBORI Takashi  National Institute of Genetics, Center for Information Biology, Professor, 生命情報研究センター, 教授 (50162136)
Project Period (FY) 1998 – 1999
KeywordsNatural history / Molecular evolution / Structural evolution / HLA / Genome / Operon / Mitochondria / Periplasmic binding protein
Research Abstract

We have carried out research in the following topics in the past two years with the view that a gene is composed of sub-units each of which corresponds to a structural or a functional unit of a protein and thus is considered to be an evolutionary unit of a gene.
1. Evolutionary dynamics of a HLA genome region,
2. Evolution of operons by comparison of the whole bacterial genome,
3. Estimation of evolutionary rate over the whole E, coli genomes,
4. Phylogeny of vertebrates on the basis of the whole mitochondrial genomes,
5. Structural evolution of periplasmic binding proteins,
6. Evolution of acetylcholin receptor units,
7. Discovery of a new gene in eukaryote by proteome analysis,
8. Evolution of the pigment synthesis system in ascidian,
9. Database design for genome datat,
10. Database management system for genome sequences.
These topics do not seem be related each other at first glance. However, one can categorize 1,2,3 and 4 into genome evolution, 5 and 6 into evolution of functional and structural units, 7 and 8 into evolution of a genome as an interrelated complex of genes and non-genes, and 9 and 10 into genome databases. I strongly believe that those research outcomes will contribute to the study of natural history of genomes.

  • Research Products

    (28 results)

All Other

All Publications (28 results)

  • [Publications] Sato, S. ら: "Structure and Developmental Expression of the Ascidian TRP Gene : Insights Into the Evolution of Pigment Cell-specific Gene Expression"Developmental Dynamics. 215. 225-237 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Itoh, T. ら: "A low rate of nucleotide changes in Escherichia coil K-12 estimated from a comparison of the genomo sequences between two different sub strains"FEBS Letters. 450. 72-76 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Itoh, T. ら: "Evolutionary Instability of Operon Structures Disclosed by Sequence Comparisons of Complete Microbial Genomes"Mol. Biol. Evol.. 16. 332-346 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Hatta, Y. ら: "HLA genes and haplotypes in Ryukyuan suggest a recent gene flow to the Okinawa islands"Human Biology. 71・3. 353-365 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Shiina, T. ら: "Multiple class I loci expressed by the quail MHC"Immunogentics. 49・5. 456-460 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Takezaki, N. ら: "Correct and incorrect vertebrate phylogeniesobtained by the entire mitochondria DNA sequences"Mol. Bol. Evol.. 16. 590-601 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Yamazaki, M. ら: "Genomic organization around the centromeric of the HLA class I region : Large-sequence analysis"J. Mol. Evol.. 48. 317-327 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Fuakmi-Kobayashi, K. ら: "Domein dislocation : aachange of core structure in preriplasmic binding proteins in their evolutionary history"J. Mol. Biol.. 286. 279-290 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Watanabe, M ら: "A phoshate-induced gene which promotes Penicillium mediated bioconversion of cis-propenylphosphnic acid to Fosfomycia"*plied and Environmental Microbiology. 65. 1036-1044 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Sugawara, H. ら: "DNA Data Bank of Japan dealing with large-scale data submission"Nucleic Acids Res.. 27. 25-28 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Mizuki, N. ら: "Major histocompatibility complex class II alleles in an Uygur population in the Silk Route of Northwest China"Tissue antigens. 51. 287-292 (1998)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Okayama, T. ら: "Formal design and implementation of improved DDBJ DNA database with a new schema and object oriented library"Bioinformatics. 14. 472-478 (1998)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Tsunoyama, K. ら: "Evolution of Nicotinic Acetylcholine.Receptor Subunits."Mol . Biol. Evol.. 15. 518-527 (1998)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Tateno, Y. ら: "DNA Data Bank of Japan at work on genome sequence data"Nucleic Acids Res.. 26. 16-20 (1998)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Sato, S., Toyoda, R., Katsuyama, Y., Saiga, H., Numakunai, T., Ikeo, K., Gojobori, T., Yajima,1. And Yamamoto, H.: "Structure and Developmental Expression of the Ascidian TRP Gene: Insights Into the Evolution of Pigment Cell-Specific Gene Expression"Developmental Dynamics. 215. 225-237 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Itoh, T., Okayama, T., Hashimoto, H., Takeda, J., Davis, R. W., Mori, H. and Gojobori, T.: "A low rate of nucleotide changes in Escherichia coil K-12 estimated from a comparison of the genome sequences between two different sub strains"FEBS Letters. 450. 72-76 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Takezaki, N. and Gojobori, T.: "Correct and Incorrect Vertebrate Phylogenies Obtained by the Entire Mitochondrial DNA"Mo1. Bio1. Evo1.. 16. 590-601 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Itoh, T., Takemoto, K., Mori, H. and Gojobori, T.: "Evolutionary Instability of Operon Structures Disclosed by Sequence Comparisons of Complete Microbial Genomes"Mo1. Bio1. Evo1.. 16. 332-346 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Shiina, T., Oka, A., Imanishi, T., Hanzawa, K., Gojobori, T., Watanabe, S., and Inoko, H.: "Multiple class I 1oci expressed by the quail MHC"Immunogenetics. 49-5. 456-460 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Hatta, Y., Ohashi, J., Imanishi, T., Kamiyama, H.,Iha, M., Simabukuro, T., Ogawa, A., Tanaka, H., Akaza, T., Gojobori, T., Juji, T., and Tokunaga, K.: "HLA genes and haplotypes in Ryukyuan suggest a recent gene flow to the Okinawa islands"Human Biology. 71-3. 353-365 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Fukami-Kobayashi, K., Tateno, Y. and Nishikawa, K.: "Domain Dislocation: a Change of Core Structure in Periplasmic Binding Proteins in their Evolutionary History"J. Mo1. Bio1.. 286+. 279-290 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Yamazaki, M., Tateno, Y. and Inoko, H.: "Genomic organization around the centromeric end of the HLA class I region: Large-scale e analysis"J. Mo1. Bio1.. 48. 317-327 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Watanabe, M., Sumida, N., Murakami, S., Anzai, H., Thompson, C J. Tateno, Y. and Murakami, T.: "A phosphate-induced gene which promotes Penicillium mediated bioconversion ofcis-propenylphosphonic acid to Fosfomycin. Applied and Environmental"Microbiology. 65. 1036-1044 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Sugawara, H., Miyazaki, S., Gojobori, T. and Tateno, Y.: "DNA Data Bank of Japan dealing with large-scale date submission"Nucleic Acids Res.. 27. 25-28 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Tateno, Y., Jukami-Kobayashi, K., Miyazaki, S., Sugawara, H. and Gojobori, T.: "DNA Data Bank of Japan at work on genome sequence data"Nucleic Acids Res.. 26. 16-20 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Tsunoyama, K. and Gojobori, T.: "Evolution of Nicotinic Acetylcholine. Receptor Subunits"Mol. Bio. Evol.. 15. 518-527 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Okayama, T., Tamura, T., Gojobori, T., Tateno, Y., Ikeo, K., Miyazaki, S., Fukami-Kobayashi, K., and Sugawara, H.: "Formal design and implementation of an improved DDBJ DNA database with a new schema and object-oriented library"Bioinformatics. 14-6. 472-478 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Mizuki, N., Ohno., S., Ando, H., Sato, T., Imanishi, T., Gojobori, T., Ishihara, M., Goto, K., Ota, M., Geng, Z., Geng, L., Li, G., and Inoko, H.: "Major histocompatibility complex class II alleles in an Uygur population in the Silk Route of Northwest China"Tissue Antigens. 51-3. 287-292 (1998)

    • Description
      「研究成果報告書概要(欧文)」より

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Published: 2001-10-23  

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