Genomically and biochemically accurate metabolic reconstruction of Methanosarcina barkeri Fusaro, iMG746.

TitleGenomically and biochemically accurate metabolic reconstruction of Methanosarcina barkeri Fusaro, iMG746.
Publication TypeJournal Article
Year of Publication2013
AuthorsGonnerman MC, Benedict MN, Feist AM, Metcalf WW, Price ND
JournalBiotechnol J
PubMed Date2013-2-20
ISSN1860-7314
Abstract

Methanosarcina barkeri is an Archaeon that produces methane anaerobically as the primary byproduct of its metabolism. M. barkeri can utilize several substrates for ATP and biomass production including methanol, acetate, methyl amines and a combination of hydrogen and carbon dioxide. In 2006, a metabolic reconstruction of M. barkeri, iAF692, was generated based on a draft genome annotation. The iAF692 reconstruction enabled the first large-scale simulations for Archaea. Since the publication of the first metabolic reconstruction of M. barkeri, additional genomic, biochemical, and phenotypic data have clarified several metabolic pathways. We have used this newly available data to improve the M. barkeri metabolic reconstruction. Modeling simulations using the updated model, iMG746, have led to increased accuracy in predicting gene knockout phenotypes and dynamic simulations of batch growth behavior. We have used the model to examine knockout lethality data and make predictions about metabolic regulation under different growth conditions. Thus, the updated metabolic reconstruction of M. barkeri metabolism is a useful tool for predicting cellular behavior, studying the methanogenic lifestyle, guiding experimental studies and making predictions relevant to metabolic engineering applications.

Alternate JournalBiotechnol J
PubMed ID23420771
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