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Development of gene expression-metabolic model of Escherichia coli

大肠杆菌基因表达代谢模型的建立

基本信息

批准号：
22860056
负责人：
TOYA Yoshihiro
金额：
$ 2.01万
依托单位：
Keio University
依托单位国家：
日本
项目类别：
Grant-in-Aid for Research Activity Start-up
财政年份：
2010
资助国家：
日本
起止时间：
2010 至 2011
项目状态：
已结题

来源：
https://kaken.nii.ac.jp/en/grant/KAKENHI-PROJECT-22860056/
关键词：
大腸菌中心炭素代謝経路動的シミュレーション代謝フラックス解析トランスクリプトーム硝酸代謝メタボローム arcA遺伝子欠損株代謝工学細胞シミュレーション代謝フラックスカタボライト抑制硝酸呼吸

项目摘要

Cellular metabolism is regulated at transcription, translation, and enzymatic reactions. It is of interest how the metabolism is controlled at the multi-levels system. We measured transcriptome, metabolome, and metabolic fluxes for wild-type E. coli and the. arcA mutant under various conditions in continuous culture, and revealed the regulatory mechanism in each condition. Furthermore, the measured multi-omics data were integrated using the dynamic model and the model parameters were tuned. The arcA gene knockout condition was simulated based on the measured gene expressions. The simulated reaction rates were well matched with the^<13> C flux values. In this study, we demonstrated that the dynamic model has a potential as a platform for the integration of different levels omics data in order to reveal the intracellular regulatory mechanisms.

细胞代谢受转录、翻译和酶促反应的调控。代谢是如何在多层次系统中被控制的是一个有趣的问题。我们测量了野生型大肠杆菌和大肠杆菌的转录组、代谢组和代谢通量。arcA突变体在不同条件下连续培养，并揭示了每种条件下的调控机制。此外，利用动态模型对测量的多组学数据进行整合，并对模型参数进行调整。根据测定的基因表达量模拟arcA基因敲除条件。模拟反应速率与^<13> C通量值吻合较好。在这项研究中，我们证明了动态模型有潜力作为整合不同水平组学数据的平台，以揭示细胞内调控机制。