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Metabolic flux analysis using isotope distribution together with gene and protein expression analyses

Research Project

Project/Area Number 14350438
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field 生物・生体工学
Research InstitutionKyushu Institute of Technology

Principal Investigator

SHIMIZU Kazuyuki  Kyushu Institute of Technology, Kyushu Institute of Technology, Dept.of Bioscience and Bioinformatics, Professor (00150318)

Project Period (FY) 2002 – 2003
Project Status Completed (Fiscal Year 2003)
Budget Amount *help
¥11,700,000 (Direct Cost: ¥11,700,000)
Fiscal Year 2003: ¥4,000,000 (Direct Cost: ¥4,000,000)
Fiscal Year 2002: ¥7,700,000 (Direct Cost: ¥7,700,000)
KeywordsMetbolic engineering / Protein expression / gene expression / Isotope distribution / NMR / GC-MS / Metabolic flux distribution / Metabolic regulation / 代謝解析 / 微生物
Research Abstract

In order to develop a quantitative model for the main metabolic pathway of Escherichia coli, we cultivated E.coliK12 and W3110, as well as E.coli BW25113 developed in Keio University, and its several single-gene-knockout mutants (zwf^-, pykF^-, gnd^-, ppc^-, pck^-, pgi^- etc.) in batch and continuous modes. We also cultivated several gene knockout mutants (pflA, B, C, D-, pta-, ppc-, adhA- etc.) in microaerobic condition for lactate production. Then we made the metabolic flux analysis based on ^<13>C labeling experiments, measured enzyme activities and the intracellular metabolite concentrations as well as gene expressions using RT-PCR to understand the metabolic regulation quantitatively for the modeling.

Report

(3 results)
  • 2003 Annual Research Report   Final Research Report Summary
  • 2002 Annual Research Report
  • Research Products

    (12 results)

All 2004 2003 Other

All Journal Article (8 results) Publications (4 results)

  • [Journal Article] Metabolic regulation analysis of icd-gene knockout Escherichia coli based on 2D electrophoresis with MALDI-TOF mass spectrometry and enzyme activity measurements2004

    • Author(s)
      M.Kabir, K.Shimizu
    • Journal Title

      Applied Microbiology and Biotechnology 65

      Pages: 84-96

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Journal Article] Metabolic Flux Analysis Based on ^<13>C Labeling Experiments and Integration of the Information with Gene and Protein Expression Patterns2004

    • Author(s)
      K.Shimizu
    • Journal Title

      Advanced Biochemical Engineering/Biotechnol (in press)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Journal Article] Metabolic regulation analysis of icd-gene knockout Escherichia coli based on 2D electrophoresis with MALDI-TOF mass spectrometry and enzyme activity measurements2004

    • Author(s)
      M.Kabir, K.Shimizu
    • Journal Title

      Appl.Microbiol.Biotech. 65

      Pages: 84-96

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Journal Article] Metabolic Flux Analysis Based on 13^C Labeling Experiments and Integration of the Information with Gene and Protein Expression Patterns2004

    • Author(s)
      Shimizu, K.
    • Journal Title

      Adv.Biochemical Eng/Biotechnol. (in press)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Journal Article] Metabolic flux analysis of S, cerevisiae grown on glucose, glycerol or acetate by ^<13>C-labeling experiments2003

    • Author(s)
      Zhang,H., K.Shimizu, S.Yao
    • Journal Title

      Biochemical Engineering Journal 16

      Pages: 211-220

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Journal Article] An Improved method for statistical analysis of metabolic flux analysis using isotopomer mapping matrices with analytical expressions2003

    • Author(s)
      M.Arauzo, K.Shimizu
    • Journal Title

      Journal of .Biotechnology 105

      Pages: 117-133

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Journal Article] Metabolic flux analysis of Scerevisiae grown on glucose, glycerol or acetate by 13C-labeling experiments2003

    • Author(s)
      Zhang, H., K.Shimizu, S.Yao
    • Journal Title

      Bioc.hem.Eng.J. 16

      Pages: 211-220

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Journal Article] An Improved method for statistical analysis of metabolic flux analysis using isotopomer mapping matrices with analytical expressions2003

    • Author(s)
      Arauzo, M., K.Shimizu
    • Journal Title

      J.Biotechnol 105

      Pages: 117-133

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] M.J.Arauzo, K.Shimizu: "An Improved method for statistical analysis of metabolic flux analysis using isotopomer mapping matrices with analytical expressions"Journal of Biotechnology. 105. 117-133 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] K.Shimizu: "Metabolic Flux Analysis Based on ^<13>C Labeling Experiments and Integration of the Information with Gene and Protein Expression Patterns"Advances in Biochem.Eng./Biotechnol.. (in press). (2004)

    • Related Report
      2003 Annual Research Report
  • [Publications] M.Kabir, K.Shimizu: "Metabolic regulation analysis of icd-gene knockout E.coli based on 2DE with TOF-MASS and enzyme activity"Applied Microbiology and Biotechnology. (in press). (2004)

    • Related Report
      2003 Annual Research Report
  • [Publications] H.Zhang, K.Shimizu, S.Yano: "Metabolic flux analysis of S.cerevisiae grown ox glucose, glycerol, or acetate by ^<13>C-labeling experiments"Biochemical Engineering Journal. (in press). 1-9 (2003)

    • Related Report
      2002 Annual Research Report

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Published: 2002-04-01   Modified: 2016-04-21  

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