Revision as of 19:02, 23 October 2007

Main Page System Modeling Simulations System Implementation Lab Notes Meet the Team Team Notes Pictures!

.:: ETH Zurich - educatETH E.coli ::.

Introduction

"ALL ANIMALS ARE EQUAL BUT SOME ANIMALS ARE MORE EQUAL THAN OTHERS" (Animal Farm by George Orwell)

In this year's iGEM competition, the ETH team is interested in quite small but well known animals, E.colis. And even for these, Orwell's remark holds (although in a somewhat more positive way): We have been working on teaching E.colis in order to make them capable of deliberately recognizing their environment.

In detail, our combined team of biologists and engineers was working on the E.coli 's ability, first, to recognize two different inputs (here we used two different chemicals), second, to remember which input was presented to them, and third, when confronted with a new input to recognize if it is the same as before. Thereby, the educatETH E.coli 's provide a first step towards the development of biological equivalents to complex engineering building blocks like, e.g. , flip-flops and other logical circuits. We also introduced the concept of double promoters to the [http://partsregistry.org/Main_Page Registry of Standard Biological Parts], which can be helpful for future projects. The concept of learning and recognition plays a major role in different high-level applications like, e.g., recognition of handwriting on a [http://en.wikipedia.org/wiki/Personal_digital_assistant PDA] as well as biological applications. On the other hand, learning plays a major role for living organisms, as well: it enables them to survive by adapting to an ever-changing environment. Therefore, engineering a simple biological system which exhibits learning behavior is of great interest as it can support our understanding of this procedure by comparison with natural systems.

In the following, we would like to present you a detailed description of the proposed system: starting with the modeling of the system, we describe both, simulations and theoretical considerations of the system, as well as the actual implementation using bio-bricks accompanied by our lab notes. Additionally, you find some further information on the team, some more details about ideas we developed before we came up with the system we finally implemented, and some pictures documenting our work.

Team Members

ETHZ iGEM2007 Team

The ETH Zurich team consists of good mixture between biologists and engineering students, we are:

Undergraduate students: Martin Brutsche, Katerina Dikaiou, Raphael Guebeli, Sylke Hoehnel, Nan Li, Stefan Luzi
Graduate students: [http://christos.bergeles.net Christos Bergeles], [http://www.tik.ee.ethz.ch/~sop/people/thohm/ Tim Hohm], [http://www.fussenegger.ethz.ch/people/kemmerc Christian Kemmer], Joseph Knight, [http://csb.inf.ethz.ch/people/uhr.html Markus Uhr], [http://www.ricomoeckel.de Rico Möckel]
Project advisors: [http://www.ipe.ethz.ch/laboratories/bpl/people/panke Sven Panke], [http://csb.inf.ethz.ch/people/stelling.html Joerg Stelling]

For more information about us, visit our Meet the Team page.

Acknowledgments

The idea for the project as well as its implementation was done by the ETH iGEM 2007 team. Still, we would like to thank the people in [http://www.ipe.ethz.ch/laboratories/bpl/index Sven Panke's Lab], especially Andreas Meyer who was always there for us when we had a problem. Additionally, we would like to thank [http://www.facs.ethz.ch Alfredo Franco-Obregóns lab] and Oralea Büchi for the help with the flow cytometry.

We would also like to acknowledge the financial support by [http://europa.eu EU], the [http://www.ethz.ch ETH Zurich], and [http://www.geneart.com GeneArt]:

[http://europa.eu http://www.tik.ee.ethz.ch/~thohm/EU.gif]

[http://www.ethz.ch http://www.tik.ee.ethz.ch/~thohm/ethlogo.jpg]

[http://www.geneart.com http://www.tik.ee.ethz.ch/~thohm/geneart.gif]

Site Map

.:: TODOs ::.

put a fancy picture in the intro
put all Links to subpages including a short description in the "site map" section
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@@ Line 13: / Line 13: @@
 In this year's iGEM competition, the ETH team is interested in quite small but well known animals, ''E.coli''s. And even for these, Orwell's remark holds (although in a somewhat more positive way): We have been working on teaching ''E.coli''s in order to make them capable of deliberately recognizing their environment.
-In detail, our combined team of biologists and engineers was working on the ''E.coli'' 's ability, first, to recognize two different inputs (here we used two different chemicals), second, to remember which input was presented to them, and third, when confronted with a new input to recognize if it is the same as before. Thereby, the educatETH ''E.coli'' 's provide a first step towards the development of biological equivalents to complex engineering building blocks like, e.g. , [[ETHZ/FlipFlop | flip-flops]] and other logical circuits. The concept of learning and recognition plays a major role in different high-level applications like, e.g., recognition of handwriting on a [http://en.wikipedia.org/wiki/Personal_digital_assistant PDA] as well as [[ETHZ/Applications | biological applications]]. On the other hand, learning plays a major role for living organisms, as well: it enables them to survive by adapting to an ever-changing environment. Therefore, engineering a simple biological system which exhibits learning behavior is of great interest as it can support our understanding of this procedure by comparison with natural systems.
+In detail, our combined team of biologists and engineers was working on the ''E.coli'' 's ability, first, to recognize two different inputs (here we used two different chemicals), second, to remember which input was presented to them, and third, when confronted with a new input to recognize if it is the same as before. Thereby, the educatETH ''E.coli'' 's provide a first step towards the development of biological equivalents to complex engineering building blocks like, e.g. , [[ETHZ/FlipFlop | flip-flops]] and other logical circuits. We also introduced the concept of [https://2007.igem.org/ETHZ/Biology/parts double promoters] to the [http://partsregistry.org/Main_Page Registry of Standard Biological Parts], which can be helpful for future projects. The concept of learning and recognition plays a major role in different high-level applications like, e.g., recognition of handwriting on a [http://en.wikipedia.org/wiki/Personal_digital_assistant PDA] as well as [[ETHZ/Applications | biological applications]]. On the other hand, learning plays a major role for living organisms, as well: it enables them to survive by adapting to an ever-changing environment. Therefore, engineering a simple biological system which exhibits learning behavior is of great interest as it can support our understanding of this procedure by comparison with natural systems.
 In the following, we would like to present you a detailed description of the proposed system: starting with the [[ETHZ/Model | modeling of the system]], we describe both, [[ETHZ/Simulation | simulations and theoretical considerations]] of the system, as well as the actual [[ETHZ/Biology | implementation using bio-bricks]] accompanied by our [[ETHZ/Biology/Lab | lab notes]]. Additionally, you find some further [[ETHZ/Meet_the_team | information on the team]], some more details about [[ETHZ/Internal | ideas we developed]] before we came up with the system we finally implemented, and some [[ETHZ/Pictures | pictures]] documenting our work.

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