A community effort towards a knowledge-base and mathematical model of the human pathogen Salmonella Typhimurium LT2.
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Hyduke, Daniel R
Allen, Douglas K
Fleming, Ronan M T
Hsiung, Chao A
De Keersmaecker, Sigrid C J
Mo, Monica L
Reed, Jennifer L
Thijs, Inge M
Palsson, Bernhard O
Adkins, Joshua N
MetadataShow full item record
CitationBMC Syst Biol. 2011, 5:8
AbstractMetabolic reconstructions (MRs) are common denominators in systems biology and represent biochemical, genetic, and genomic (BiGG) knowledge-bases for target organisms by capturing currently available information in a consistent, structured manner. Salmonella enterica subspecies I serovar Typhimurium is a human pathogen, causes various diseases and its increasing antibiotic resistance poses a public health problem.
Here, we describe a community-driven effort, in which more than 20 experts in S. Typhimurium biology and systems biology collaborated to reconcile and expand the S. Typhimurium BiGG knowledge-base. The consensus MR was obtained starting from two independently developed MRs for S. Typhimurium. Key results of this reconstruction jamboree include i) development and implementation of a community-based workflow for MR annotation and reconciliation; ii) incorporation of thermodynamic information; and iii) use of the consensus MR to identify potential multi-target drug therapy approaches.
Taken together, with the growing number of parallel MRs a structured, community-driven approach will be necessary to maximize quality while increasing adoption of MRs in experimental design and interpretation.
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