Photos in Living Color Purdue University iGEM Team Purdue University iGEM Team.
iGEM @ Imperial
-
Upload
kermit-baxter -
Category
Documents
-
view
50 -
download
2
description
Transcript of iGEM @ Imperial
Starting off: Week 1Starting off: Week 1
Week 1Week 1
Engineering/Biology Engineering/Biology Introduction LecturesIntroduction LecturesJournal ClubJournal ClubWikiWikiBrainstormingBrainstorming
3 ideas3 ideas
Bio Hard Drive
Cell Networking
Bacterial balloon
Biological to Electrical Interface
Bio-Clock
Bio Calculator
Remote Controlled
Bacteria
Crazy Ideas
Bio-Clock Bio-Clock (Re-defining Time)(Re-defining Time)
• Pulse of AHL moves along a gutter of medium
• Cells fluoresce when activated
•Refractory period
•The time period is controlled by
•the radius
•gutter width
•cell density
Bio-MemoryBio-Memory
•Data stored in bacteria written using a green laser
•Data read using a UV laser + fluorimeter
•Cells either 1 (RFP) or 0 (no RFP)
•Data stored in switch
Very High Compression due to small size of bacteria
The OscillatorThe Oscillator
Changing Concentration of AHL
Culture Wide Culture Wide oscillations of AHLoscillations of AHL
Frequency must Frequency must be tuned easilybe tuned easily
Oscillations must Oscillations must be stablebe stable
Week 2Week 2
Investigation of all 3 ideasInvestigation of all 3 ideas ModellingModelling Evaluating risksEvaluating risks
Start work in the Wet labStart work in the Wet lab
Decision on the Oscillator Decision on the Oscillator as main project;as main project;can use other ideas as can use other ideas as further developments further developments
Week 3Week 3
Further researchFurther research
ModellingModelling
Assembly of partsAssembly of parts
Protocols for testing partsProtocols for testing parts
Setting up OWWSetting up OWW
Lotka-Voltarra Model output
Predator Prey DynamicsPredator Prey Dynamics
Simply Make a Bio-
chemical system
that can do this.
DesignDesign
A
B
A B
• Positive Feedback of A
• AB Induces production of more B
• Both A and B are used to make AB
Two Cell SystemTwo Cell SystemTwo independent populations of CellsTwo independent populations of Cells
These cells These cells do notdo not kill each other kill each other
AB
Altering the initial ratios of these cells will Altering the initial ratios of these cells will alter the frequency of oscillationsalter the frequency of oscillations
Design Cell1 (Prey)Design Cell1 (Prey)
Prey cell must produce molecule A exponentiallyPrey cell must produce molecule A exponentially
Pc
Plux
Lux R
Lux I
Pc is always on
Lux R is produced which detects molecule A
Then initiates transcription at Plux
Which Produces More AA
A
A
A
DesignDesign
The Predator CellThe Predator Cell
The role of a predator is to reduce the prey numbers as a function of the predator population numbers.
PredatorDetect Prey Population Size
Reduce Prey Population Size
DesignDesign
Plux Lux R aiiA
The Predator CellThe Predator Cell
Detects Prey Population Size
Reduces Prey Population Size
Design (Entire System)Design (Entire System)
Extra cellular pool of A (HSL) (this should oscillate)
Diffusion
Plux
Lux R aiiA
The Predator CellThe Predator CellA
A
LuxR
LuxR
A
aiiA
A
Pc
Plux
Lux R
Lux I
A
The Prey Cell
A shocking discovery: at first sight...A shocking discovery: at first sight...
After finishing our oscillator design...After finishing our oscillator design...
MIT Project 2004:MIT Project 2004:Cell-Cell synchronized Oscillator DesignCell-Cell synchronized Oscillator Design
Similar approach using concepts of quorum sensingSimilar approach using concepts of quorum sensing
BUT: This system does not use predator-prey BUT: This system does not use predator-prey dynamics and is implemented in a single cell (ours is dynamics and is implemented in a single cell (ours is multicellular multicellular
MIT Oscillator Design
http://web.mit.edu/~cbatten/www/work/ssbc04/system-spec-ssbc04.pdf
Communication: The WikiCommunication: The Wiki
Wiki-NewspaperWiki-NewspaperDocumentation for Documentation for future referencesfuture referencesCommunicationCommunication Within the teamWithin the team With other teamsWith other teams
Monitoring Monitoring progress (Gantt progress (Gantt Chart)Chart)Present ourselves Present ourselves & our project& our project
OutlineOutline
Further modelling & testing of partsFurther modelling & testing of parts
Parts assemblyParts assembly
Phase 2Phase 2 Coupling the oscillator to a biological to Coupling the oscillator to a biological to
electrical interface electrical interface Synchronizing oscillations 2 petri dishes Synchronizing oscillations 2 petri dishes