Improving the phenotype predictions of a yeast genome-scale metabolic model by incorporating enzymatic constraints.

Sánchez BJ, Zhang C, Nilsson A, Lahtvee PJ, Kerkhoven EJ, Nielsen J

Mol Syst Biol 13 (8) 935 [2017-08-03; online 2017-08-03]

Genome-scale metabolic models (GEMs) are widely used to calculate metabolic phenotypes. They rely on defining a set of constraints, the most common of which is that the production of metabolites and/or growth are limited by the carbon source uptake rate. However, enzyme abundances and kinetics, which act as limitations on metabolic fluxes, are not taken into account. Here, we present GECKO, a method that enhances a GEM to account for enzymes as part of reactions, thereby ensuring that each metabolic flux does not exceed its maximum capacity, equal to the product of the enzyme's abundance and turnover number. We applied GECKO to a

Affiliated researcher

PubMed 28779005

DOI 10.15252/msb.20167411

Crossref 10.15252/msb.20167411

pmc: PMC5572397

Publications 9.5.0