Modeling and simulation: tools for metabolic engineering

被引:114
作者
Wiechert, W [1 ]
机构
[1] Univ Siegen, Inst Mech & Control Engn, Dept Simulat & Comp Sci, D-57068 Siegen, Germany
关键词
metabolic engineering; metabolic modeling; stoichiometry; flux analysis; mechanistic models; metabolic optimization; model validation;
D O I
10.1016/S0168-1656(01)00418-7
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
Mathematical modeling is one of the key methodologies of metabolic engineering. Based on a given metabolic model different computational tools for the simulation, data evaluation, systems analysis, prediction, design and optimization of metabolic systems have been developed. The currently used metabolic modeling approaches can be subdivided into structural models, stoichiometric models, carbon flux models, stationary and nonstationary mechanistic models and models with gene regulation. However, the power of a model strongly depends on its basic modeling assumptions, the simplifications made and the data sources used. Model validation turns out to be particularly difficult for metabolic systems. The different modeling approaches are critically reviewed with respect to their potential and benefits for the metabolic engineering cycle. Several tools that have emerged from the different modeling approaches including structural pathway synthesis, stoichiometric pathway analysis, metabolic flux analysis, metabolic control analysis, optimization of regulatory architectures and the evaluation of rapid sampling experiments are discussed. (C) 2002 Elsevier Science B.V. All rights reserved.
引用
收藏
页码:37 / 63
页数:27
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