Dataset Information

Kim2007 - Genome-scale metabolic network of Mannheimia succiniciproducens (iTY425)

ABSTRACT: Kim2007 - Genome-scale metabolic network of Mannheimia succiniciproducens (iTY425) This model is described in the article: Genome-scale analysis of Mannheimia succiniciproducens metabolism. Kim TY, Kim HU, Park JM, Song H, Kim JS, Lee SY. Biotechnol. Bioeng. 2007 Jul; 97(4): 657-671 Abstract: Mannheimia succiniciproducens MBEL55E isolated from bovine rumen is a capnophilic gram-negative bacterium that efficiently produces succinic acid, an industrially important four carbon dicarboxylic acid. In order to design a metabolically engineered strain which is capable of producing succinic acid with high yield and productivity, it is essential to optimize the whole metabolism at the systems level. Consequently, in silico modeling and simulation of the genome-scale metabolic network was employed for genome-scale analysis and efficient design of metabolic engineering experiments. The genome-scale metabolic network of M. succiniciproducens consisting of 686 reactions and 519 metabolites was constructed based on reannotation and validation experiments. With the reconstructed model, the network structure and key metabolic characteristics allowing highly efficient production of succinic acid were deciphered; these include strong PEP carboxylation, branched TCA cycle, relative weak pyruvate formation, the lack of glyoxylate shunt, and non-PTS for glucose uptake. Constraints-based flux analyses were then carried out under various environmental and genetic conditions to validate the genome-scale metabolic model and to decipher the altered metabolic characteristics. Predictions based on constraints-based flux analysis were mostly in excellent agreement with the experimental data. In silico knockout studies allowed prediction of new metabolic engineering strategies for the enhanced production of succinic acid. This genome-scale in silico model can serve as a platform for the systematic prediction of physiological responses of M. succiniciproducens to various environmental and genetic perturbations and consequently for designing rational strategies for strain improvement. This model is hosted on BioModels Database and identified by: MODEL1507180062. To cite BioModels Database, please use: BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information.

SUBMITTER: Nicolas Le Novère

PROVIDER: MODEL1507180062 | BioModels | 2015-07-30

REPOSITORIES: BioModels

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Genome-scale analysis of Mannheimia succiniciproducens metabolism.

Kim Tae Yong TY Kim Hyun Uk HU Park Jong Myoung JM Song Hyohak H Kim Jin Sik JS Lee Sang Yup SY

Biotechnology and bioengineering 20070701 4

Mannheimia succiniciproducens MBEL55E isolated from bovine rumen is a capnophilic gram-negative bacterium that efficiently produces succinic acid, an industrially important four carbon dicarboxylic acid. In order to design a metabolically engineered strain which is capable of producing succinic acid with high yield and productivity, it is essential to optimize the whole metabolism at the systems level. Consequently, in silico modeling and simulation of the genome-scale metabolic network was empl ...[more]

PMID: 17405177

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