# Team:University College London/Module 4/Modelling

### From 2012.igem.org

# Module 4: Buoyancy

**Description | Design | Construction | Characterisation | Modelling | Results | Conclusions**

## Modelling

We have two separate models for buoyancy, namely a Simbiology Model and a MATLab Mathematical Model. The aim for the simbiology model was to investigate if the addition of T7 RNA Polymerase as well as T7 promoter woud increase the expression levels for the GFP.

**Simbiology Model**

The block diagram shows the module where GFP expression is control by cstA promoter; the expression is triggered under low glucose concentrations.

In the models the environmental sensitive promoters (cstA) is activated by carbon starvation stress, then the mRNA encoding T7 RNA polymerase is transcribed, whose protein binds the T7 promoter driving the expression of the the reporter output (GFP).

Graph represents the GFP accummulation through time when is controlled by cstA promoter

The green line represents GFP expression levels and the blue line shows the T7 RNAP concentration over time. GFP production is considerably higher than in the previous model.

Conclusion and influence to our experimental work From the results obtained above we can see that our model suggest increase of expression of GFP when the T7 RNA Polymerase as well as T7 promoter are added to the original construct (which was cstA + GFP). We expect that our experimental data fill follow this.

**Mathematical Model**

Given a fixed ratio of volume of gas produced to total *E.coli* volume, this model calculates the number of *E.coli* cells required to keep a certain mass of aggregated microplastic buoyant. The model also compares how the number of cells is affected by varying densities of microplastics, and allows the user to investigate how the results will change in different sea water densities. Sea water density, under influence of temperature, salinity and pressure, can be calculated using a third party calculator by CSG Network.

Taking sea water density to be at 1020kg/m3, and volume ratio of gas produced in e.coli to be 0.5, the model produces the following graph.

Results confirm the general trend that a higher number of cells is required to keep buoyant a higher mass of aggregated plastic. Plastics with higher densities also require more cells to be kept buoyant as opposed to lower density plastics of the same mass. Though conclusions drawn from the model seem simplistic, they confirm that the model makes sense in the real-world context.

The MATLab script file can be downloaded here: Media:buoyancy3.m

The mathematical model was written based on Archimedes' Principle that at the point of buoyancy:

**Mass of e.coli + aggregated plastic + gas produced = Mass of total sea water displaced**

From that, we get the corresponding equations:

Where

Using the following substitutions,

The first equation can be rewritten as:

The equation was written into a MATLab script and can be used to find the relationship between the number of cells required to keep a certain mass of aggregated plastic buoyant. The model leads into experimental work by informing us how the number of cells that would be required to make our buoyancy module effective.