Publication

2015

Original papers

• "Construction of a genome-scale metabolic model of Arthrospira platensis NIES-39 and metabolic design for cyanobacterial bioproduction"
  Katsunori Yoshikawa, Shimpei Aikawa, Yuta Kojima, Yoshihiro Toya, Chikara Furusawa, Akihiko Kondo, Hiroshi Shimizu
  PLoS One 10, 12, e0144430 (2015).
• "Integrating Kinetic Model of E. coli with Genome Scale Metabolic Fluxes Overcomes Its Open System Problem and Reveals Bistability in Central Metabolism"
  Ahmad A. Mannan, Yoshihiro Toya, Kazuyuki Shimizu, Johnjoe McFadden, Andrzej M. Kierzek, Andrea Rocco
  PLoS One 10, 10, e0139507 (2015).
• "Phenotypic Convergence in Bacterial Adaptive Evolution to Ethanol Stress"
  Takaaki Horinouchi, Shingo Suzuki, Takashi Hirasawa, Naoaki Ono, Tetsuya Yomo, Hiroshi Shimizu, Chikara Furusawa
  BMC Evolutionary Biology 15, 180 (2015).
• "Metabolic characterization of cultured mammalian cells by mass balance analysis, tracer labeling experiments and computer-aided simulations"
  Nobuyuki Okahashi, Susumu Kohno, Shunsuke Kitajima, Fumio Matsuda, Chiaki Takahashi, Hiroshi Shimizu
  Journal of Bioscience and Bioengineering 120, 6, 725-31 (2015).
• "Enhanced dipicolinic acid production during the stationary phase in Bacillus subtilis by blocking acetoin synthesis"
  Yoshihiro Toya, Takashi Hirasawa, Shu Ishikawa, Onuma Chumsakul, Takuya Morimoto, Shenghao Liu, Kenta Masuda, Yasushi Kageyama, Katsuya Ozaki, Naotake Ogasawara, Hiroshi Shimizu
  Bioscience, Biotechnology, and Biochemistry 79, 12, 2073-80 (2015).
• "13C-metabolic flux analysis in S-adenosyl-L-methionine production by Saccharomyces cerevisiae"
  Kenshi Hayakawa, Shuichi Kajihata, Fumio Matsuda, Hiroshi Shimizu
  Journal of Bioscience and Bioengineering 120, 5, 532-8 (2015).
• "Metabolomic analysis of acid stress response in Saccharomyces cerevisiae"
  Riyanto Heru Nugroho, Katsunori Yoshikawa, Hiroshi Shimizu
  Journal of Bioscience and Bioengineering 120, 4, 396-404 (2015).
• "13C-based metabolic flux analysis of Saccharomyces cerevisiae with a reduced Crabtree effect"
  Shuichi Kajihata, Fumio Matsuda, Mika Yoshimi, Kenshi Hayakawa, Chikara Furusawa, Akihisa Kanda, Hiroshi Shimizu
  Journal of Bioscience and Bioengineering 120, 2, 140-144 (2015).
• "Absolute quantitation of glycolytic intermediates reveals thermodynamic shifts in Saccharomyces cerevisiae strains lacking PFK1 or ZWF1 genes"
  Shunsuke Nishino, Nobuyuki Okahashi, Fumio Matsuda, Hiroshi Shimizu
  Journal of Bioscience and Bioengineering 120, 3, 280-6 (2015).
• "SSDesign: Computational metabolic pathway design based on flux variability using elementary flux modes"
  Yoshihiro Toya, Takanori Shiraki, Hiroshi Shimizu
  Biotechnology and Bioengineering 112, 4, 759-768 (2015).
• "Nano-scale liquid chromatography coupled to tandem mass spectrometry using the multiple reaction monitoring mode based quantitative platform for analyzing multiple enzymes associated with central metabolic pathways of Saccharomyces cerevisiae using ultra fast mass spectrometry"
  Fumio Matsuda, Tairo Ogura, Atsumi Tomita, Ichiro Hirano, Hiroshi Shimizu
  Journal of Bioscience and Bioengineering 119, 1, 117-20 (2015).
• "Effect of malic enzyme on ethanol production by Synechocystis sp. PCC 6803"
  Katsunori Yoshikawa, Takashi Hirasawa, Hiroshi Shimizu
  Journal of Bioscience and Bioengineering 119, 1, 82-84 (2015).

Review papers

• "代謝デザインと13C同位体標識を用いた代謝フラックス解析の物質生産への応用"
  清水 浩, 松田 史生, 戸谷 吉博
  化学と生物 53, 7, 455-461 (2015).

Ph.D. theses

• "微生物育種に向けた多重遺伝子破壊の探索手法の開発"
  大野 聡
  (2015).
• "13C代謝フラックス解析ソフトウェアの開発と真核生物への応用"
  梶畠 秀一
  (2015).
• "シアノバクテリアの代謝フラックス解析法の開発と異なる栄養条件におけるSynechocystis sp. PCC6803の代謝解析"
  仲嶋 翼
  (2015).
• "Metabolomics study of Saccharomyces cerevisiae under acid stress condition"
  Riyanto Heru Nugroho
  (2015).