Large scale dynamic model reconstruction for the central carbon metabolism of escherichia coli

Rafael S. Costa, Daniel Machado, Isabel Rocha, EugénioC. Ferreira

Research output: Chapter in Book/Report/Conference proceedingArticle in proceedingsResearchpeer-review

Abstract

The major objective of metabolic engineering is the construction of industrially relevant microbial strains with desired properties. From an engineering perspective, dynamic mathematical modeling to quantitatively assess intracellular metabolism and predict the complex behavior of living cells is one of the most successful tools to achieve that goal. In this work, we present an expansion of the original E. coli dynamic model [1], which links the acetate metabolism and tricarboxylic acid cycle (TCA) with the phosphotransferase systems, the pentose-phosphate pathway and the glycolysis system based on mechanistic enzymatic rate equations. The kinetic information is collected from available database and literature, and is used as an initial guess for the global fitting. The results of the numeric simulations were in good agreement with the experimental results. Thus, the results are sufficiently good to prompt us to seek further experimental data for comparison with the simulations. © 2009 Springer Berlin Heidelberg.
Original languageEnglish
Title of host publicationDistributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, and Ambient Assisted Living : 10th International Work-Conference on Artificial Neural Networks, IWANN 2009 Workshops, Salamanca, Spain, June 10-12, 2009. Proceedings
Volume2
PublisherSpringer
Publication date2009
Pages1079-1083
ISBN (Print)978-3-642-02480-1
ISBN (Electronic)978-3-642-02481-8
DOIs
Publication statusPublished - 2009
Externally publishedYes
Event10th International Work-Conference on Artificial Neural Networks (IWANN 2009) - Salamanca, Spain
Duration: 9 Jun 200912 Jun 2009
Conference number: 10

Conference

Conference10th International Work-Conference on Artificial Neural Networks (IWANN 2009)
Number10
CountrySpain
CitySalamanca
Period09/06/200912/06/2009
SeriesLecture Notes in Computer Science
Volume5518
ISSN0302-9743

Cite this

Costa, R. S., Machado, D., Rocha, I., & Ferreira, E. (2009). Large scale dynamic model reconstruction for the central carbon metabolism of escherichia coli. In Distributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, and Ambient Assisted Living: 10th International Work-Conference on Artificial Neural Networks, IWANN 2009 Workshops, Salamanca, Spain, June 10-12, 2009. Proceedings (Vol. 2, pp. 1079-1083). Springer. Lecture Notes in Computer Science, Vol.. 5518 https://doi.org/10.1007/978-3-642-02481-8_163