Kinetic Model of Clostridium Beijerinckii Based on Phenotypic States Superposition
Conference on Constraint-Based Reconstruction and Analysis (COBRA)
2018
5th Conference on Constraint-Based Reconstruction and Analysis (COBRA 2018)
Poster Session
Poster Session
Sunday, October 14, 2018 - 6:00pm to 7:00pm
We propose a kinetic model where all three stages of C beijerinckii are present at any given time. The dynamics between phenotypic states are described by differential equations within dynamic FBA. To model the vegetative-clostrial and spore-vegetative transitions, we used the concentration of acidic species as arguments to a logistic equation whose value can be interpreted as the fraction of the vegetative cells transiting to clostridial state. Likewise, we used a second logistic equation, this time as a function of the concentration of solvents, to model the fraction of clostridial cells that change into spores.
Using public RNA-seq databases we determined divergently expressed genes in each phenotype. We pruned the metabolic network of C beijerinckii accordingly to create phenotype-specific metabolic networks. To train our model we measured changes in substrates, and acidic and solventogenic species along batch cultures of C beijerinckii under various conditions.