Ensemble cell-wide kinetic modeling of anaerobic organisms to support fuels and chemicals production
The goal of this project is to understand the metabolism and underlying regulatory networks of two anaerobic microorganisms, Moorella thermoacetica and Clostridium thermocellum by making use of Ensemble Modeling (EM) paradigm through integration of multiple omic information (transcriptomic, proteomic, metabolomic & fluxomic). Kinetic models have the potential to provide a mechanistic description of cellular metabolism by combining several layers of regulatory events into an integrated framework. The foundation of the kinetic model is a stoichiometric network description. To this end, we have developed and curated genome-scale metabolic (GSM) models of the organisms that will serve as scaffold for building the kinetic models. For M. thermoacetica, the GSM model was constructed and tested by the Stephanopoulos group with experimental growth rate. The GSM elucidated the energy conservation mechanism under autotrophic growth conditions. For C. thermocellum, the Maranas group has developed the second-generation GSM model through integration of experimental data. The Maranas group has also constructed a core metabolic kinetic model of the organism which includes the central metabolism and all relevant pathways for biofuels production. The stoichiometric and kinetic model predictions were tested extensively using experimental data for wild-type and 20 mutant strains. We have outlined below in detail the progress related to specific individual aims. Below are listed publications of research carried out based on this research grant support.
- Research Organization:
- Pennsylvania State Univ., University Park, PA (United States)
- Sponsoring Organization:
- USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science (BSS)
- Contributing Organization:
- University of California, Los Angeles; Massachusetts Institute of Technology
- DOE Contract Number:
- SC0012377
- OSTI ID:
- 1481196
- Report Number(s):
- DE-SC0012377; RPT-0000001759
- Country of Publication:
- United States
- Language:
- English
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