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Elementary Mode Analysis: A Useful Metabolic Pathway Analysis Tool for Reprograming Microbial Metabolic Pathways

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Reprogramming Microbial Metabolic Pathways

Part of the book series: Subcellular Biochemistry ((SCBI,volume 64))

Abstract

Elementary mode analysis is a useful metabolic pathway analysis tool to characterize cellular metabolism. It can identify all feasible metabolic pathways known as elementary modes that are inherent to a metabolic network. Each elementary mode contains a minimal and unique set of enzymatic reactions that can support cellular functions at steady state. Knowledge of all these pathway options enables systematic characterization of cellular phenotypes, analysis of metabolic network properties (e.g. structure, regulation, robustness, and fragility), phenotypic behavior discovery, and rational strain design for metabolic engineering application. This chapter focuses on the application of elementary mode analysis to reprogram microbial metabolic pathways for rational strain design and the metabolic pathway evolution of designed strains.

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Abbreviations

CASOP:

computational approach for strain optimization aiming at high productivity

cMCS:

constrained minimal cut set

EM:

elementary mode

EMA:

elementary mode analysis

ExPa:

extreme pathway

FBA:

flux balance analysis

MFA:

metabolic flux analysis

MPA:

metabolic pathway analysis

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Acknowledgements

This work is supported in parts by the laboratory start-up, SEERC seed, and JDRD funds for CT from the University of Tennessee, Knoxville.

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Authors and Affiliations

  1. Department of Chemical and Biomolecular Engineering, University of Tennessee, Knoxville, TN, USA

    Cong T. Trinh

  2. Bredesen Center for Interdisciplinary Research and Graduate Education, University of Tennessee, Knoxville, TN, USA

    R. Adam Thompson

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  1. Cong T. Trinh
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  2. R. Adam Thompson
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Correspondence to Cong T. Trinh .

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Editors and Affiliations

  1. , State Key Laboratory, Jiangnan University, Lihu Avenue 1800, Wuxi, 214122, Jiangsu, China, People's Republic

    Xiaoyuan Wang

  2. School of Biotechnology, Jiangnan University, Lihu Avenue 1800, Wuxi, 214122, China, People's Republic

    Jian Chen

  3. , Div. of Life Sciences, King's College London, Stamford Street 150, London, SE1 9NH, United Kingdom

    Peter Quinn

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© 2012 Springer Science+Business Media Dordrecht

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Trinh, C.T., Thompson, R.A. (2012). Elementary Mode Analysis: A Useful Metabolic Pathway Analysis Tool for Reprograming Microbial Metabolic Pathways. In: Wang, X., Chen, J., Quinn, P. (eds) Reprogramming Microbial Metabolic Pathways. Subcellular Biochemistry, vol 64. Springer, Dordrecht. https://doi.org/10.1007/978-94-007-5055-5_2

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