20.109(S11):Module 2

Module 2

Instructors: Ron Weiss and Agi Stachowiak

TA: Adrian Randall

As engineers, we would like to make useful objects that behave in a predictable fashion. As biological engineers, we face unique challenges in implementing our ideas: the biological machines we create may evolve, their components may not always play nicely together, and slight variations in the environment might substantially affect their function. In this module, we will work on understanding and improving an edge detection system effected by bacteria. By way of diffusible signals and photosensitivity, a single cell population is able to copy the outline of an image placed above it. However, the system can be finicky, with low contrast, poor resolution, and little margin for variability in preparation. Using a more easily manipulatable system (not based on light) as a tool, we will attempt to improve system robustness and transfer our knowledge to improve the light-based system.

need an image

We thank 20.109 instructor Natalie Kuldell for helpful discussions during early module development, as well as for her prior work in developing a related module.

Module 2 Day 1: Explore model system
Module 2 Day 2: Complete DNA desig
Module 2 Day 3: Prepare DNA for cloning
Module 2 Day 4: Ligate DNA and transform bacteria
Module 2 Day 5: Prepare candidate clones in model cell strain
Module 2 Day 6: Evaluate DNA and choose clone
Module 2 Day 7: Assay modified model system
Module 2 Day 8: Wrap-up analysis and modelingb

Laboratory Report

TA notes, mod 2

Mod 2 draft material