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Reconstruction and verification of a genome-scale metabolic model for Synechocystis sp. PCC6803

  • Genomics, transcriptomics, proteomics
  • Published:
Applied Microbiology and Biotechnology Aims and scope Submit manuscript

Abstract

In terms of generating sustainable energy resources, the prospect of producing energy and other useful materials using cyanobacteria has been attracting increasing attention since these processes require only carbon dioxide and solar energy. To establish production processes with a high productivity, in silico models to predict the metabolic activity of cyanobacteria are highly desired. In this study, we reconstructed a genome-scale metabolic model of the cyanobacterium Synechocystis sp. PCC6803, which included 465 metabolites and 493 metabolic reactions. Using this model, we performed constraint-based metabolic simulations to obtain metabolic flux profiles under various environmental conditions. We evaluated the simulated results by comparing these with experimental results from 13C-tracer metabolic flux analyses, which were obtained under heterotrophic and mixotrophic conditions. There was a good agreement of simulation and experimental results under both conditions. Furthermore, using our model, we evaluated the production of ethanol by Synechocystis sp. PCC6803, which enabled us to estimate quantitatively how its productivity depends on the environmental conditions. The genome-scale metabolic model provides useful information for the evaluation of the metabolic capabilities, and prediction of the metabolic characteristics, of Synechocystis sp. PCC6803.

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Acknowledgments

This work was supported by Grants-in-Aid for Scientific Research (B) to HS (21360401). This work was also supported in part by a grant from the Global Centers of Excellence Program of Osaka University under the Ministry of Education, Culture, Sports, Science and Technology, Japan

Conflict of interest

The authors declare that they have no conflict of interest.

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Authors and Affiliations

  1. Department of Bioinformatic Engineering, Graduate School of Information Science and Technology, Osaka University, 1-5 Yamadaoka, Suita, Osaka, 565-0871, Japan

    Katsunori Yoshikawa, Yuta Kojima, Tsubasa Nakajima, Chikara Furusawa, Takashi Hirasawa & Hiroshi Shimizu

  2. Japan Science and Technology Agency (JST), Core Research for Evolutional Science and Technology (CREST), Osaka University, 1-5 Yamadaoka, Suita, Osaka, 565-0871, Japan

    Katsunori Yoshikawa, Yuta Kojima, Tsubasa Nakajima, Chikara Furusawa, Takashi Hirasawa & Hiroshi Shimizu

Authors
  1. Katsunori Yoshikawa
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  2. Yuta Kojima
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  3. Tsubasa Nakajima
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  4. Chikara Furusawa
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  5. Takashi Hirasawa
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  6. Hiroshi Shimizu
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Corresponding authors

Correspondence to Chikara Furusawa or Hiroshi Shimizu.

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Katsunori Yoshikawa and Yuta Kojima equally contributed to this work.

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Yoshikawa, K., Kojima, Y., Nakajima, T. et al. Reconstruction and verification of a genome-scale metabolic model for Synechocystis sp. PCC6803. Appl Microbiol Biotechnol 92, 347–358 (2011). https://doi.org/10.1007/s00253-011-3559-x

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  • DOI: https://doi.org/10.1007/s00253-011-3559-x

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