IGEM:IMPERIAL/2007/Projects/Biofilm Detector/Modelling

Biofilm Detection: Modelling

• Introduction
• Specifications
• Design
• Modelling
• Implementation
• Testing/Validation
• Notes
• References

Overview of Modelling

Welcome to our Portal Page for the modelling of Infector Detector.

Infector Dectector (ID) is based on the Quorum Sensing Pathway and our aim in modelling of ID is to determine the concentration of AHL in biofilm we can detect such that we report a visible signal .We are looking at two constructs to emulate the quorum sensing pathway:

17.08.07 Modelling General Concerns

For protocols to figure out :

1. Degradation terms:GFP,LuxR,AHL - want expt to find delta as a function of chassis
2. What is the visual threshold of [GFP] - want expt to find this
3. What is the concentration of promoters - is this chassis dependant ?
4. Activation/Response Time of Plux (F2620)?

(Protocols) Construct 1 specific:

1. What is the lifespan of the whole system?
2. Can we get steady-stateof LuxR? - When will this happen ? - Before cell dies ?
3. Having reached steady state is there enough E left to express [GFP]

(Protocols) Construct 2 specific:

1. Can we obtain purified LuxR to be injected into System - protocol for prep of LuxR
2. Protease inhibitors available?
3. How long will it take to get construct 2 ready ?

For modelling to figure out :

1. K-values for rxn pathway
2. Response of Biofilm : Is [AHL] constant ?
3. Simulation of [LuxR] vs. Time

Construct 1

The main feature of this construct is that it constitutively expresses LuxR

Here is what our construct looks like composed of biobricks

Ptet promoting LuxR, Plux promoting GFP

Here is a Block Diagram Picture of how construct 1 will work

Construct 1 - LuxR expressed constitutively

Construct 2

(image will appear here)

The main feature of this construct is that it does not constitutively expresses LuxR and therefore enables us to determine the initial concentration of LuxR

• Block Diagram Picture of how construct will work

• Chemical Equations