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Development of functional analysis of genes in cells using functional nucleic acids

Research Project

Project/Area Number 12305052
Research Category

Grant-in-Aid for Scientific Research (A)

Allocation TypeSingle-year Grants
Section一般
Research Field 生物・生体工学
Research InstitutionUniversity of Tokyo

Principal Investigator

TAIRA Kazunari  University of Tokyo, School of Engineering, Professor, 大学院・工学系研究科, 教授 (10261778)

Co-Investigator(Kenkyū-buntansha) KAWASAKI Hiroaki  University of Tokyo, School of Engineering, Assistant, 大学院・工学系研究科, 助手 (60332623)
KURATA Hiroyuki  University of Kyusyu Institute technology, Faculty of computer Science and System Engineering, Associate Professor, 情報工学部, 助教授 (90251371)
AWAI Shigenori  University of Tokyo, School of Engineering, Associate Professor, 大学院・工学系研究科, 助教授 (10168544)
MIYAGISHI Makoto  University of Tokyo, School of Engineering, Assistant, 大学院・工学系研究科, 助手 (30323538)
Project Period (FY) 2000 – 2003
Project Status Completed (Fiscal Year 2003)
Budget Amount *help
¥46,280,000 (Direct Cost: ¥39,500,000、Indirect Cost: ¥6,780,000)
Fiscal Year 2003: ¥4,940,000 (Direct Cost: ¥3,800,000、Indirect Cost: ¥1,140,000)
Fiscal Year 2002: ¥4,940,000 (Direct Cost: ¥3,800,000、Indirect Cost: ¥1,140,000)
Fiscal Year 2001: ¥19,500,000 (Direct Cost: ¥15,000,000、Indirect Cost: ¥4,500,000)
Fiscal Year 2000: ¥16,900,000 (Direct Cost: ¥16,900,000)
KeywordsRibozyme / Gene Discovery / apoptosis / Alzheimer Disease / Metastasis / RNAヘリケース / poly A / アポトーシス / RNAヘリカーゼ / 遺伝子治療 / ジーン・ディスカバリー / ハンマーヘッドリボザイム / 慢性骨髄性白血病 / RNA工学 / 遺伝子破壊
Research Abstract

Now that the sequences of many genomes are available, methods are required for the rapid identification of functional genes. We describe here a simple system for the isolation of genes that function in the tumor necrosis factor-α(TNF-α)-mediated pathway of apoptosis, using RNA helicase-associated ribozyme libraries with randomized substrate-binding arms. Because target-site accessibility considerably limits the effective use of intracellular ribozymes, the effectiveness of a conventional ribozyme library has been low. To overcome this obstacle, we attached to ribozymes an RNA motif (poly(A)-tail) able to interact with endogenous RNA helicase(s) so that the resulting helicase-attached, hybrid ribozymes can more easily attack target sites regardless of their secondary or tertiary structures. When the phenotype of cells changes upon introduction of a ribozyme library, genes responsible for these changes may be identified by sequencing the active ribozyme clones. In the case of TNF-α-mediated apoptosis, when a ribozyme library was introduced into MCF-7 cells, surviving clones were completely or partially resistant to TNF-α-induced apoptosis. We identified many pro-apoptotic genes and partial sequences of previously uncharacterized genes using this method. Our gene discovery system should be generally applicable to the identification of functional genes in various systems such as cancer metastasis.

Report

(5 results)
  • 2003 Annual Research Report   Final Research Report Summary
  • 2002 Annual Research Report
  • 2001 Annual Research Report
  • 2000 Annual Research Report
  • Research Products

    (35 results)

All Other

All Publications (35 results)

  • [Publications] Onuki, R., Bando, Y., Suyama, E., Katayama, T., Kawasaki, H., Baba, T., Tohyama, M., Taira, K.: "Involvement of an RNA-dependent protein kinase (PKR) in tunicamycin-induced apoptosis and Alzheimer's disease."EMBO J.. 23. 959-968 (2003)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Suyama, E., Kawasaki, H., Nakajima, M., Taira, K.: "Identification of genes involved in cell invasion by using a library of randomized hybrid ribozymes."Proc.Natl.Acad.Sci.USA. 100. 5616-5621 (2003)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Suyama, E., Kawasaki, H., Kasaoka, T., Taira, K.: "Identification of genes responsible for cell migraion by a library of randomized ribozymes."Cancer Res.. 63. 119-124 (2003)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Kawasaki, H., Taira, K.: "Identification of genes by hybrid ribozymes that couple cleavage activity with the unwinding activity of an endogenous RNA helicase."EMBO Rep.. 3. 443-450 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Kawasaki, H., Onuki, R, Suyama, E., Taira, K: "Identification of genes that function in the TNF-alpha-mediated apoptotic pathway using randomized hybrid ribozyme libraries."Nature Biotechnology. 20. 376-380 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Kawasaki, H., Kuwabara, T., Taira, K.: "Tumor-Suppressing Viruses, Genes, and Drugs : Innovative Cancer Therapy Approaches"Academic Press. 27 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Warashina, M., Kuwabara, T., Kawasaki, H., Ohkawa, J., Taira.K: "RNA"Elsevier Science. 31 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Onuki, R., Bando, Y., Suyama, E., Katayama, T., Kawasaki, H., Baba, T., Tohyama, M., Taira, K.: "Involvement of an RNA-dependent protein kinase (PKR) in tunicamycin-induced apoptosis and Alzheimer's disease."EMBO J.. 23. 959-968 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Suyama, E., Kawasaki, H., Nakajima, M., Taira, K.: "Identification of genes involved in cell invasion by using a library of randomized hybrid ribozymes."Proc.Natl.Acad.Sci.USA. 100. 5616-5621 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Suyama, E., Kawasaki, H., Kasaoka, T., Taira, K.: "Identification of genes responsible for cell migraion by a library of randomized ribozymes."Cancer Res. 63. 119-124 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Kawasaki, H., Taira, K: "Identification of genes by hybrid ribozymes that couple cleavage activity with the unwinding activity of an endogenous RNA helicase."EMBO Rep.. 3. 443-450 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Kawasaki, H., Onuki, R., Suyama, E., Taira, K.: "Identification of genes that function in the TNF-alpha-mediated apoptotic pathway using randomized hybrid ribozyme libraries."Nature Biotechnology. 20. 376-380 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Onuki, R., Bando, Y, Suyama, E., Katayama, T., Kawasaki, H., Baba, T.: "Involvement of an RNA-dependent protein kinase (PKR) in tunicamycin-induced apoptosis and Alzheimer's disease."EMBO J. 23. 959-968 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Suyama, E., Kawasaki, H., Nakajima, M., Taira, K.: "Identification of genes involved in cell invasion by using a library of randomized hybrid ribozymes."Proc.Natl.Acad.Sci.USA. 100. 5616-5621 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Suyama, E., Kawasaki, H., Kasaoka, T., Taira, K.: "Identification of genes responsible for cell migraion by a library of randomized ribozymes."Cancer Res. 63. 119-124 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Oshima, K., Kawasaki, H., Soda, Y, Tani, K., Asano, S., Taira, K.: "Maxizymes and small hairpin-type RNAs that are driven by a tRNA promoter specifically cleave a chimeric gene associated with leukemia in vitro and in vivo."Cancer Res. 63. 6809-6814 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Hiroaki Kawasaki: "Identification of genes that function in the TNF-alpha-mediated apoptotic pathway using randomized hybrid ribozyme libraries"Nature Biotechnol.. 20・4. 376-380 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Hiroaki Kawasaki: "A functional gene discovery in the Fas-mediated pathway to apoptosis by analysis of transiently expressed randomized hybrid-ribozyme libraries"Nucleic Acids Res.. 30・16. 3609-3614 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Hiroaki Kawasaki: "Identification of genes by hybrid ribozymes that couple cleavage activity with the unwinding activity of an endogenous RNA helicase"EMBO Rep.. 3・5. 443-450 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Mayu Iyo: "Allosterically controllable maxizymes for molecular gene therapy"Curr Opin Mol Ther.. 4・2. 154-165 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Eigo Suyama: "Identification of a caspase 3-independent role of pro-apoptotic factor Bak in TNF-alpha-induced apoptosis"FEBS Lett.. 528. 63-69 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Masayuki Sano: "Novel method for selection of tRNA-driven ribozymes with enhanced stability in mammalian cells"Antisense Nucleic Acid Drug Dev.. 12・5. 341-352 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Kato Y, Kuwabara T, Warashina M, Toda H, Taira K: "Relationships between the activities in vitro and in vivo of various kinds of ribozyme and their intracelluar localization in mammaian cells"Journal of Biological Chemistry. 276. 15378-15385 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Kawasaki H, Onuki R, Suyama E, Taira K: "Identification of genes that function in the TNF-α-mediated pathway to apoptosis by analysis of randomized hybrid-ribozyme libraries"Nature Biotechnology. (in press). (2002)

    • Related Report
      2001 Annual Research Report
  • [Publications] Kawasaki H, Taira K: "A functional gene discovery in the Fas-mediated pathway to apoptosis by analysis of transiently expressed randomized hybrid-ribozyme libraries"EMBO Reports. (in press). (2002)

    • Related Report
      2001 Annual Research Report
  • [Publications] Kuwabara T, Hamada M, Warashina M, Taira K: "Allosterically controlled single-chained maxizymes with extremely high and specific activity"Biomacromolecules. 2. 788-799 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Kuwabara T, Tanabe T, Warashina M, Xiong KX, Tani K, Taira K, Asano S: "Allosterically controllable maxizyme-medicated suppression of progression of leukemia in mice"Biomacromolecules. 2. 1220-1228 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Kuwabara T, Warashina M, Taira K: "Kluwer Academic/Plenum Publishers New York"16 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Kawasaki,H et al.: "Parameters governing in vivo activities of hammerhead ribozymes : construction of intracellularly active ribozyme expression systems"In "Ribozyme : Biochemistry and Biotechnology,Krupp,G.and Gaur,R.K.(Eds.),Eaton Publishing,Natick,MA,U.S.A.. 457-482 (2000)

    • Related Report
      2000 Annual Research Report
  • [Publications] Warashina,M. et al.: "Novel RNA-protein hybrid ribozymes efficiently cleave any mRNA independently of the structure of the target RNA."Proc.Natl.Acad.Sci.USA. (in press). (2001)

    • Related Report
      2000 Annual Research Report
  • [Publications] Kurata, et al.: "MAXIZYMEs : Alosterically controllable ribozymes with biosensor functions."J.Biochem.Mol.Biol.. 33. 359-365 (2000)

    • Related Report
      2000 Annual Research Report
  • [Publications] Miyagishi,M. et al.: "Transport of intracellularly active ribozymes to the cytoplasm."Cancer Chemoth.Pharm.. (in press). (2000)

    • Related Report
      2000 Annual Research Report
  • [Publications] Tanabe,T. et al.: "Maxizymes, novel allosterically controllable ribozymes, can be designed to cleave various substrates."Biomacromol. 1. 108-117 (2001)

    • Related Report
      2000 Annual Research Report
  • [Publications] Kawasaki,T. et al.: "Design of hammerhead ribozymes and allosterically controllable maxizymes for a cancer gene therapy"In "Tumor Suppressing Viruses, Genes, and Drugs : Innovative Cancer Therapy Approaches",Murata H.(Ed.),Academic Press. (in press). (2001)

    • Related Report
      2000 Annual Research Report
  • [Publications] 宮岸真 ら: "遺伝子治療を目指した高機能リボザイムの開発"医薬ジャーナル. (2001)

    • Related Report
      2000 Annual Research Report

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Published: 2000-04-01   Modified: 2016-04-21  

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