HackteriaLab 2013 Commons
<- back to main page of HackteriaLab_2013 - Bangalore
Start putting down ideas...
Fluorescent Reporter Bacteria for Arsenic Sensing
(still editing, not completed)
The arsenic reporter bacteria is built on what makes many naturally occuring bacteria resistant (i.e. won't die in the presence of) arsenite and arsenate.
Sensor element is the ArsR (in red), which is a protein that has 2 functions:
- binds to a specific region of DNA (bright green boxes on the linear representation of DNA)
- to bind to arsenite
Sensor output is the GFP (green fluorescent protein) expression. The gene for GFP (represented by the bright green arrow on the DNA) is engineered to be behind the repressive element.
The dark green arrow is the ArsR gene. In other words, in this design, more aresenite the bacteria "sees", the more repressor element it expresses.
In the presence of arsenite (As), which enters the bacteria passively, the ArsR prefers to bind to As rather than the repressive element. This makes room for gene transcription to start. Transcription, Translation into GFP protein. Under UV light, or at ~400 or ~488nm excitation, the protein fluorescence can be measured or visualized.
The details can be found in this manuscript: Stocker, J., D. Balluch, et al. (2003). Environ. Sci. Technol. 37: 4743-4750.
The reporter bacteria is in the common laboratory E. coli DH5α strain used in molecular biology. They can be easily grown using standard molecular biology techniques in LB, with kanamycin as the antibiotic used for selecting the bacteria with the arsenic GFP reporter.
This bacteria was made available to us as a part of an international collaboration BIO-DESIGN for the REAL WORLD between (Art)ScienceBLR, Lifepatch, and EPFL to design a sensor for arsenic and/or E. coli in the local waters. The bacteria was shipped to the NCBS.
Build a fluorescence microscope based on the Hackteria webcam kit by adding UV-LEDs. Eventualy modifying the webcam to longer exposure to increase sensitivity. Inspect different samples to find fluorescent material. Modify samples (blood cells) to be fluorescent and try to sort them based in microscopy imaging.
source:microscopy resource center
WebCam long exposure hack:
Portable, Battery-Operated, Low-Cost, Bright Field and Fluorescence Microscope, Miller et al. PlosOne
Building Bio Domes
Grow real Computer Bugs
In 1947, Grace Murray Hopper was working Mark II Computer when the machine was experiencing problems. An investigation showed that there was a moth trapped between the points of Relay #70, in Panel F. This was the "First actual case of bug being found." The computer was debugged - and what happed to the bug that actual tried to "reprogram" the computer and make the first steps in bio-computing? It was affixed in the log book of Mr. Hopper. It was actually a moth and since it did not follow moore's law it was somehow forgotten. We want to identify and rediscover the famous animal. Find out what other bugs have been active in bugging (in fact the modern meaning can be dated back to at least 1896). Grow them and give them a new chance to be part of an "Art-Sci Bio Computer Project". For example a BioDuino micro controller board with a real bug actively reprogramming it...
Photo of the first recorded computer bug.
Take the shruti hacking started in 2012 to a new level. Approach Radel to get more devices (for free (and pay flights for some talented music artists to come to Bangalore)) and bring new spirit into these amazing boxes. Try to fully understand the previously reverse engineered multi chorous audio system. Spend long nights immersing into the sound of shruti.
Radel Electronics Pvt. Ltd. is the pioneer in the field of electronic musical instruments for Indian music. Radel started in a garage in 1979 and has today state-of-the-art facilities for designing and manufacturing a wide range of Digital Indian musical instruments.
... done that at last HackteriaLab! see DIY Micro Dispensing and Bio Printing
Poor Man's BioPrinter
Making Chyaang / Tho: A Traditional Rice Beer From The Kathmandu Valley
The Making of an Euglena Burger
Mmmmmhhhh, half animal, half plant!