Melbourne Uni 2008. What is iGEM? International Genetically Engineered Machine competition Started in 2003 within MIT.

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Presentation transcript:

Melbourne Uni 2008

What is iGEM? International Genetically Engineered Machine competition Started in 2003 within MIT

What is iGEM? Now a global competition 54 teams, 750 students, 19 countries

What is iGEM Teams of students use principles of synthetic biology to create biological systems

What is Synthetic Biology? Builds on genetic engineering technologies Adds a set of guiding principles to aid coordination of activities Standardisation Abstraction

Lego BrickBioBrick Standardisation

Abstraction

2008 Team Project BioClock

A customisable regulatory system One signal switches between multiple states Signa l 1 2 3

InputOutputLogic BioClock System State 2 State 3 State 1 t=1 t=2 t=3 123

How will it work? Two methods currently being looked at Ideal implementation through a binary counting system Contingency plan using a linear system Both will have the similar components, with different interactions

Linear Model Signa l

State 1 Mechanism State 2 Mechanism State 3 Mechanism State 1 Mechanism Signa l State 2 Mechanism Signa l Linear Model

Signa l State 1 Mechanism State 2 Mechanism State 3 Mechanism State 1 Mechanism Signa l State 2 Mechanism State 1 Mechanism Signa l

Linear Model Signa l State 1 Mechanism State 2 Mechanism State 3 Mechanism State 2 Mechanism State 3 Mechanism Signa l State 2 Mechanism

Design Small teams researching different parts of system Signaling Riboswitch Positive feedback Modeling

Signaling System Signal Sensor

Riboswitch RiboLockRiboKey

Positive Feedback Feedback loop that upregulates itself

Signa l State 1 Mechanism State 2 Mechanism State 3 Mechanism State 1 Mechanism Signa l State 2 Mechanism Signa l Where they fit in Signal SensorRiboswitch Positive Feedback

Binary Model

Genetic map from circuit

Binary Model

Time Division Tasking

Modeling with two colours

Current output of two colour model

Goal We want to count as high as possible in binary Example with two colour system:

Sensitivity Analysis Code program that will produce sensitivity plot Plot sensitivities against each kinetic parameter to to select best proteins

Timeline MarchAprilMayJune JulyAugust Septembe r October Sensitivity testing of model Kinetic testing of components Assemble Systems Test systems Prepare for Jamboree Post results Novembe r

Budget Lab Expenses$10,000 Sequencing3,000 Synthesising3,000 SELEX3,000 Consumables1,000 Jamboree Expenses$22,000 iGEM Registration$1,000 Jamboree Fee$1,000 Accommodation$2,000 Flights$18,000 Total$32,000

Questions 2008