Team:Bielefeld-Germany/Modell

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Revision as of 18:23, 6 September 2011

Modelling of intracellular bisphenol A degradation

To model the BPA degradation by E. coli carrying BioBricks for BPA degradation (<partinfo>K123000</partinfo> and <partinfo>K123001</partinfo>) the cell growth has to be described first. The observed growth of E. coli on (our) LB medium was [http://en.wikipedia.org/wiki/Diauxie diauxic] with two different growth phases. Cell growth is a [http://en.wikipedia.org/wiki/First_order_kinetics#First-order_reactions first-order reaction] and is mathematically described as

with the specific growth rate µ and the cell count X. The specific growth rate is dependent on the concentration of the growth limiting substrate (e.g. glucose) and can be described as

with the substrate concentration S, the Monod constant K_S and the maximal specific growth rate µ_max. Because LB medium is a complex medium we cannot measure the substrate concentration so we have to assume an imaginary substrate concentration. Due to the diauxic growth two different substrates with different Monod constants and consumption rates are necessary to model the cell growth. The amount of a substrate S can be modelled as follows

with the specific substrate consumption rate per cell q_S. The whole model for the diauxic growth of E. coli on LB medium with two not measurable (imaginary) substrates looks like:

The specific BPA degradation rate per cell q_D is modelled with a Michaelis-Menten like kinetics. In the beginning of the cultivations, when E. coli growths on the "good" imaginary substrate S₁, there is no BPA degradation observed. When this substrate is consumed, the BPA degradation starts so the model looks like as follows:

The modelling was done with the software [http://www.berkeleymadonna.com/ Berkeley Madonna] using [http://en.wikipedia.org/wiki/Runge–Kutta_methods#Common_fourth-order_Runge.E2.80.93Kutta_method common fourth-order Runge-Kutta] method to solve the equations. The model was fitted to the measured data by the function "curve fit" in Berkeley Madonna to calculate the constants etc.

Fig. 1 shows a comparison between modelled and measured data for cultivations with BPA degrading E. coli. In Tab. 1 the parameters for the model are given obtained by curve fitting the model to the data.

Fig. 1: Comparison between modelled (lines) and measured (dots) data for cultivations of E. coli KRX carrying BPA degrading BioBricks. The BioBricks K525512 (polycistronic bisdAB genes behind medium strong promoter, showed in black) and K525517 (fusion protein between BisdA and BisdB, expressed with medium strong promoter, showed in red) were cultivated at least five times in E. coli KRX in LB + Amp + BPA medium at 30 °C, using 300 mL shaking flasks without baffles with silicon plugs. The BPA concentration (closed dots) and the cell density (open dots) is plotted against the cultivation time.