From 2010.igem.org

Revision as of 17:58, 26 October 2010

Achievements Overview

Short movie of an E. coli cell switching between the tumbling and the straight swimming modes..

BioBrick Toolbox

Being now BBF RFC28 (cloning strategy for combinatorial multip-part assembly [http://dspace.mit.edu/handle/1721.1/46721] ) experts, we highly recommend you to check out our BrickBox collection comprising of proteins used for chemotaxis, cellular anchoring, light sensing and fluorescent reporting. We also gave a lot of thoughts how to make BBF RFC28 (method for combinatorial multi-part assembly based on the Type II restriction enzyme AarI) compatible with Tom Knight's OAS standard.

Also about the characterization of our parts you will find more information on this page.

Don't forget our favourite parts including the light sensing couple PhyB-Pif3 and the Archaeal light receptor!

MATLAB Toolbox (Lemming Toolbox)

MATLAB Toolbox Screenshot of the Simulink blocks available in the toolbox. Please note that these blocks can be visually assembled with the Simulink blocks of other Toolboxes (e.g. blocks for nearly any mathematical function), and that the algorithms we developed can be accessed directly through Matlab code, too.

As a result of our efforts to make all our computer based tools & algorithms modular and re-usable, we have assembled the entire in silico setup of the E. Lemming into a MATLAB Toolbox that includes 18 Simulink blocks that encapsulate the algorithms we developed/implemented. This is available for [http://sourceforge.net/projects/ethzigem10/files/LemmingToolbox_Setup.zip/download downloading].

New Technical Standard

After weeks of cloning with BBF RFC28 we came up with a strategy how it can easily be made compatible to Tom Knight`s original assembly standard.

Model of light-inducible chemotaxis pathway

We made a model to control the chemotaxis by uisng light. The idea was to use Light Seceptive Proteins to change the concentrations of the proteins responsible for chemotaxis, in such a way that the motion of the cell can be controlled the way we want.

Movement Model

We made a stochastic model to realistically simulate the chemotaxis motion of the cell, which responds to the light input that is converted into changes in the chemotaxis pathway, that influence the motion of the cell.

μPlateImager - software for the microscope

We developed μPlateImager, a platform independent software which enables the parallel acquisition of images and the modification of light input signals to control our E. lemmings with light, while having them under the lens.

E. lemming - The Game

The synthetic biology shooting game featuring our very own E. lemming!

Systems Design

Systems Implementation