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iGEM @ Imperial

iGEM @ Imperial. Week 1 Engineering/Biology Introduction Lectures Journal Club Wiki Brainstorming 3 ideas. Starting off: Week 1. Only three ideas made the cut. Bio-Clock (Re-defining Time). Pulse of AHL moves along a gutter of medium Cells fluoresce when activated Refractory period

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iGEM @ Imperial

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  1. iGEM @ Imperial

  2. Week 1 Engineering/Biology Introduction Lectures Journal Club Wiki Brainstorming 3 ideas Starting off: Week 1

  3. Only three ideas made the cut.

  4. Bio-Clock (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

  5. Bio-Memory 1010100000000011111000010101011111100000000111111111000001010100010100001000010100101001010000001001010101001010101001101010101001010 • 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

  6. The Oscillator • Culture Wide oscillations of AHL • Frequency must be tuned easily • Oscillations must be stable Changing Concentration of AHL

  7. Week 2 Investigation of all 3 ideas Modelling Evaluating risks Start work in the Wet lab Decision on the Oscillator as main project;can use other ideas as further developments Week 3 Further research Modelling Assembly of parts Protocols for testing parts Setting up OWW

  8. Predator Prey Dynamics Simply Make a Bio-chemical system that can do this. Lotka-Voltarra Model output

  9. A A B B Design • Positive Feedback of A • AB Induces production of more B • Both A and B are used to make AB

  10. A B Two Cell System • Two independent populations of Cells • These cells do not kill each other • Altering the initial ratios of these cells will alter the frequency of oscillations

  11. A A A A Design Cell1 (Prey) • Prey cell must produce molecule A exponentially Lux R is produced which detects molecule A Pc Lux R Then initiates transcription at Plux Pc is always on Lux I Plux Which Produces More A

  12. Design The Predator Cell The role of a predator is to reduce the prey numbers as a function of the predator population numbers. Predator Detect Prey Population Size Reduce Prey Population Size

  13. Lux R aiiA Plux Design The Predator Cell Detects Prey Population Size Reduces Prey Population Size

  14. Design The Predator Cell A LuxR A A LuxR aiiA Lux R aiiA Plux

  15. Pc Lux R Lux I Plux A A A Design (Entire System) Diffusion Extra cellular pool of A (HSL) (this should oscillate) The Prey Cell The Predator Cell LuxR A A LuxR aiiA Lux R aiiA Plux

  16. Modelling • Tom’s Monster

  17. Modelling

  18. Testing parts: T9002

  19. A shocking discovery: at first sight... • After finishing our oscillator design... • MIT Project 2004: • Cell-Cell synchronized Oscillator Design • Similar approach using concepts of quorum sensing • BUT: This system does not use predator-prey dynamics and is implemented in a single cell (ours is multicellular MIT Oscillator Design http://web.mit.edu/~cbatten/www/work/ssbc04/system-spec-ssbc04.pdf

  20. Communication: The Wiki • Wiki-Newspaper • Documentation for future references • Communication • Within the team • With other teams • Monitoring progress (Gantt Chart) • Present ourselves & our project

  21. Outline • Further modelling & testing of parts • Parts assembly • Phase 2 • Coupling the oscillator to a biological to electrical interface • Synchronizing oscillations 2 petri dishes

  22. Thank you

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