In situ to in silico and back: elucidating the physiology and ecology of Geobacter spp. using genome-scale modelling.

TitleIn situ to in silico and back: elucidating the physiology and ecology of Geobacter spp. using genome-scale modelling.
Publication TypeJournal Article
Year of Publication2011
AuthorsMahadevan R, Palsson BØ, Lovley DR
JournalNat Rev Microbiol
Volume9
Issue1
Pagination39-50
PubMed Date2010-12-7
ISSN1740-1534
KeywordsComputer Simulation, Environment, Gene Expression Regulation, Bacterial, Genome, Bacterial, Geobacter, Models, Biological
Abstract

There is a wide diversity of unexplored metabolism encoded in the genomes of microorganisms that have an important environmental role. Genome-scale metabolic modelling enables the individual reactions that are encoded in annotated genomes to be organized into a coherent whole, which can then be used to predict metabolic fluxes that will optimize cell function under a range of conditions. In this Review, we summarize a series of studies in which genome-scale metabolic modelling of Geobacter spp. has resulted in an in-depth understanding of their central metabolism and ecology. A similar iterative modelling and experimental approach could accelerate elucidation of the physiology and ecology of other microorganisms inhabiting a diversity of environments, and could guide optimization of the practical applications of these species.

Alternate JournalNat. Rev. Microbiol.
PubMed ID21132020

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