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Engineering Synthetic Microbial Communities for Biomethane Production

Resources

    1. Micodymora is a python package allowing the simulation of Ordinary Differential Equations (ODE) models of microbial population dynamics, as presented in Delattre et al, J. R. Soc. Interface, 2020Link opens in a new window. For further details and to access the package, please visit the GitHubLink opens in a new window page.
    2. MI-Sim is a MATLAB graphical user-interface whose main function is the numerical analysis of dynamical systems describing ecological interactions (motifs) as presented in "Wade M, et al, PLoS ONE, 2017Link opens in a new window". Software available at GitHubLink opens in a new window and Mathworks.Link opens in a new window
    3. EvoFBA - This is a MATLAB implementation of the evolutionary and ecological dynamics simulations of growing E.coli populations as presented in "Grosskopf T, et al, BMC Evol Bio, 2016Link opens in a new window". These simulations involve mimicking growth dynamics of E.coli cells using dynamical constraint-based modeling of cellular metabolism and mimicking ecological dynamics through differential equations describing concentrations of media components. See the associated paper for further details. ZIP filesLink opens in a new window
    4. We made a video describing how we culture anaerobes in the lab:
    5. We also made a short video describing our research on microbial communities.