Dataset Information

Pastick2009 - Genome-scale metabolic network of Streptococcus thermophilus (iMP429)

ABSTRACT: Pastick2009 - Genome-scale metabolic network of Streptococcus thermophilus (iMP429) This model is described in the article: Genome-scale model of Streptococcus thermophilus LMG18311 for metabolic comparison of lactic acid bacteria. Pastink MI, Teusink B, Hols P, Visser S, de Vos WM, Hugenholtz J. Appl. Environ. Microbiol. 2009 Jun; 75(11): 3627-3633 Abstract: In this report, we describe the amino acid metabolism and amino acid dependency of the dairy bacterium Streptococcus thermophilus LMG18311 and compare them with those of two other characterized lactic acid bacteria, Lactococcus lactis and Lactobacillus plantarum. Through the construction of a genome-scale metabolic model of S. thermophilus, the metabolic differences between the three bacteria were visualized by direct projection on a metabolic map. The comparative analysis revealed the minimal amino acid auxotrophy (only histidine and methionine or cysteine) of S. thermophilus LMG18311 and the broad variety of volatiles produced from amino acids compared to the other two bacteria. It also revealed the limited number of pyruvate branches, forcing this strain to use the homofermentative metabolism for growth optimization. In addition, some industrially relevant features could be identified in S. thermophilus, such as the unique pathway for acetaldehyde (yogurt flavor) production and the absence of a complete pentose phosphate pathway. This model is hosted on BioModels Database and identified by: MODEL1507180063. 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: MODEL1507180063 | BioModels | 2015-07-30

REPOSITORIES: BioModels

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			Action	DRS
	MODEL1507180063?filename=MODEL1507180063-biopax2.owl	Owl
	MODEL1507180063?filename=MODEL1507180063-biopax3.owl	Owl
	MODEL1507180063?filename=MODEL1507180063.m	Other
	MODEL1507180063?filename=MODEL1507180063.pdf	Pdf
	MODEL1507180063?filename=MODEL1507180063.png	Other

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Publications

Genome-scale model of Streptococcus thermophilus LMG18311 for metabolic comparison of lactic acid bacteria.

Pastink Margreet I MI Teusink Bas B Hols Pascal P Visser Sanne S de Vos Willem M WM Hugenholtz Jeroen J

Applied and environmental microbiology 20090403 11

In this report, we describe the amino acid metabolism and amino acid dependency of the dairy bacterium Streptococcus thermophilus LMG18311 and compare them with those of two other characterized lactic acid bacteria, Lactococcus lactis and Lactobacillus plantarum. Through the construction of a genome-scale metabolic model of S. thermophilus, the metabolic differences between the three bacteria were visualized by direct projection on a metabolic map. The comparative analysis revealed the minimal a ...[more]

PMID: 19346354

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Project description:Oliveira2005 - Genome-scale metabolic network of Lactococcus lactis (iAO358) This model is described in the article: Modeling Lactococcus lactis using a genome-scale flux model. Oliveira AP, Nielsen J, Förster J. BMC Microbiol. 2005; 5: 39 Abstract: BACKGROUND: Genome-scale flux models are useful tools to represent and analyze microbial metabolism. In this work we reconstructed the metabolic network of the lactic acid bacteria Lactococcus lactis and developed a genome-scale flux model able to simulate and analyze network capabilities and whole-cell function under aerobic and anaerobic continuous cultures. Flux balance analysis (FBA) and minimization of metabolic adjustment (MOMA) were used as modeling frameworks. RESULTS: The metabolic network was reconstructed using the annotated genome sequence from L. lactis ssp. lactis IL1403 together with physiological and biochemical information. The established network comprised a total of 621 reactions and 509 metabolites, representing the overall metabolism of L. lactis. Experimental data reported in the literature was used to fit the model to phenotypic observations. Regulatory constraints had to be included to simulate certain metabolic features, such as the shift from homo to heterolactic fermentation. A minimal medium for in silico growth was identified, indicating the requirement of four amino acids in addition to a sugar. Remarkably, de novo biosynthesis of four other amino acids was observed even when all amino acids were supplied, which is in good agreement with experimental observations. Additionally, enhanced metabolic engineering strategies for improved diacetyl producing strains were designed. CONCLUSION: The L. lactis metabolic network can now be used for a better understanding of lactococcal metabolic capabilities and potential, for the design of enhanced metabolic engineering strategies and for integration with other types of 'omic' data, to assist in finding new information on cellular organization and function. This model is hosted on BioModels Database and identified by: MODEL1507180014. 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.