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Open Access Highly Accessed Research article

Modeling Lactococcus lactis using a genome-scale flux model

Ana Paula Oliveira1, Jens Nielsen12 and Jochen Förster1*

Author Affiliations

1 Fluxome Sciences A/S, Søltofts Plads, Building 223, DK-2800 Kgs. Lyngby, Denmark

2 Center for Microbial Biotechnology, BioCentrum-DTU, Technical University of Denmark, Building 223, DK-2800 Kgs. Lyngby, Denmark

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BMC Microbiology 2005, 5:39  doi:10.1186/1471-2180-5-39

Published: 27 June 2005

Additional files

Additional File 1:

List of reactions, ordered by metabolic pathway and alphabetically. List of reactions included in the metabolic network of Lactococcus lactis. Sheet "pathway_order" contains the reactions grouped by metabolic pathway, and journal references are indicated whenever reaction information is taken from journal references other than Bolotin et al. (2001). Sheet "alphabetic_order" lists the reactions alphabetically.

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Additional File 2:

Biomass composition. Derivation of the equation for biomass composition, based on literature information.

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Additional File 3:

Non-connected Metabolites. List of the non-connected metabolites and reactions.

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Additional File 4:

Single gene and reaction deletions. List of genes and reactions from the metabolic network found to be lethal, ie, no growth was observed when setting the corresponding flux to zero and applying FBA or MOMA. Results are described both under anaerobic and aerobic conditions and both during growth on rich and minimal media.

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Additional File 5:

Modeling the shift from homolactic ot heterolactic metabolism. These tables summarize the modeling procedure for inclusion of appropriate constrains when applying FBA to simulate anaerobic growth.

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