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Nisin Diffusion Tool

By Andrew Blanchard

University of Illinois at Urbana-Champaign

Simulate cell fluorescence based on nisin concentration

Launch Tool

This tool version is unpublished and cannot be run. If you would like to have this version staged, you can put a request through HUB Support.

Archive Version 1.0
Published on 24 Apr 2013
Latest version: 1.2a. All versions

doi:10.4231/D3JW86M90 cite this

Open source: license | download

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Tools

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Abstract

Certain strains of bacteria produce an antimicrobial peptide known as nisin. The production of nisin is regulated by a set of genes, as shown in supporting documents, which involves a positive feedback loop. Thus, active nisin serves to activate its own production. When nisin concentrations reach a certain threshold, it induces cell death, thereby regulating the density of the bacterial population. By introducing a fluorescent protein which is under the control of a nisin-inducible promoter, we can visualize nisin concentrations in a bacterial population. High levels of nisin will induce cell death, medium levels will induce fluorescence, and low levels will yield negligible changes.

To visualize this phenomenon, we have constructed a tool on nanohub to simulate nisin diffusion and interaction with a bacterial population. The user selects from a list of predefined initial distributions of nisin in the chemical mask above the agar layer. The nisin then diffuses across the agar layer to the cell layer according to a three dimensional diffusion equation with degradation.

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