Mechanistic Models of Metabolic Flux
Two-scale 13C Metabolic Flux Analysis (TS-13C MFA) measures intracellular metabolic fluxes by using data obtained from 13C substrate labeling experiments and genome-scale models. Metabolic fluxes map how carbon and electrons flow through metabolism to enable cell function and provide the best available insights to guide metabolic engineering. This is the only 13C labeling technique that has been used to produce flux measurements for genome-scale models and improve bioproduct yields. TS-13C MFA provides a mechanistic modeling approach that is proven to guide metabolic engineering efforts to improve bioproducts yields. TS-13C MFA is an accurate but slow capability that may take several months to produce results. Currently we can process 4-5 strains per semester. Code is available as part of the open source jQMM library. Expertise is available internally to ABF researchers, as well as to ABF CRADA projects.
References and Additional Information:
García Martín, Héctor, et al. “A method to constrain genome-scale models with 13C labeling data.” PLoS computational biology 11.9 (2015): e1004363.
Ghosh, Amit, et al. “13c metabolic flux analysis for systematic metabolic engineering of S. cerevisiae for overproduction of fatty acids.” Frontiers in bioengineering and biotechnology 4 (2016): 76.
Ghosh, Amit, et al. “A peptide-based method for 13C metabolic flux analysis in microbial communities.” PLoS computational biology 10.9 (2014): e1003827.
Lawrence Berkeley National Laboratory
National Renewable Energy Laboratory
Pacific Northwest National Laboratorya