IGEM:IMPERIAL/2009/Main/OLD

iGEM 2009 - Imperial College London Team

Work in progress ...

The E.ncapsulator

ToDo & Deadlines
Click on the bubble to expand so you can see all the text in each calendar entry 

Contents
*Main page - Navigate through modules


 * Weekly Aims
 * Feedback & Debriefs
 * Encapsulation project overview
 * Module 1 : Compound Production
 * Module 2 : Encapsulation and Trehalose Production
 * Module 3 : Genomic Neutralisation
 * Quality Control
 * Dry Lab
 * Modelling
 * Wet Lab
 * Assay Protocols and Cloning Strategies
 * Up to Date WetLab Plan and Cloning Strategies
 * Testing Constructs
 * List of Assays
 * Shopping List
 * BioBrick Designs
 * Schematics and Parts
 * Timer
 * Primers for PCR
 * Specifications by Module
 * Past Presentations
 * Journal Clubs
 * Tutorials
 * Brainstorming
 * Initial Ideas
 * Possible Encapsulation Applications
 * Drug Delivery Applications - Details
 * Applications Page

Useful Links

 * Imperial iGEM 2009 Official Wiki
 * iGEM 2009 Main Page
 * BioBrick Registry
 * Ecoli wiki

Team Roles
Change your role when applicable Charles - M1/Wiki Dave - M2 Dineka - M3/Wet lab James - M2/Wet lab Kun - M3 Nuri - M2 Royah - Wet lab/ Primer design for In-Fusion SLIC Tianyi - M1 'Please write what you have accomplished each day. Click the link for the day, this will take you to a page where you can give a brief summary of what you have been doing.'

Vincent 04:55, 15 August 2009 (EDT):The calendar is not part of the Imperial/2009 sub-domain. It should be under IGEM:IMPERIAL/2009. Change name=Calendar:TeamProgress to name=IGEM:IMPERIAL/2009/Calendar:TeamProgress. And, copy the existing pages. Royah Vaezi 11:50, 15 August 2009 (EDT):Sorry about that; I've made the necessary changes.

name=Calendar:IGEM:IMPERIAL/2009/Calendar:TeamProgress view=threemonths format=%name/%year-%month-%day weekstart=7

Synthetic Biology @ Imperial

 * Institute of Systems and Synthetic Biology
 * Center of Synthetic Biology (press release)
 * Synthetic Biology Course @ Imperial

iGEM resources

 * iGEM website at MIT
 * Registry of BioBricks
 * iGEM updates

Advisor Contributions
Schumann lab from Uni. Beyreuth, DE have done some interesting work on using spores to direct antigens to the gut - to act as vaccines. Sporulation guys might also be interested in this paper, describing the B. sub coat protein (and how it's hilariously complex but not all required). Oh, and subtilis spores will germinate in the gut (probably), justifying using the killswitch!

Killswitch guys, I think perhaps looking into recombinases as opposed to restriction enzymes would be useful as they won't act on host DNA. Xer and Dif sites will recombine with themselves in presence of the required enzyme, excising any genes between them - you could flank genes with them, then express the enzyme to chop your construct up. Sites are required to be within ≈5kb of each other, I think, so random ones on host DNA shouldn't be affected. It might take a while to work so look into the time; could be useful as a fallback, anyway.

Biobrick images you can use if you need (advisors like named/labelled circuit diagrams!):

~ Tom Adie 15:44, 20 July 2009 (EDT)

Killing guys, things to keep in mind for the restriction enzymes...

1. Restriction enzyme: 2. Regulation of expression:
 * Cuts at short sequences; makes it easier to insert (see next point) and will cut in the genome and plasmid more often by chance
 * Restriction sites be inserted by codon changes; GeneArt optimise constructs to remove restriction sites all the time, so putting them in should be OK
 * Is not native; if it's expressed somehow by the cell, it'll suicide on its own
 * Needs to be near 100% off when off; even a low level of expression will destroy your cells long before any product is produced
 * You may want to look for a less-efficient enzyme so small leakage wouldn't be that bad; or an enzyme that is degraded relatively quickly
 * Bistable switch with no leakage might be good; or flippase regulation! My pet idea for the bioremediation project last year =P

You can also insert sites after the transcription terminators in all your genes to ensure full destruction of the construct, and maybe add your sites into normal bricks (terminators etc.) and put them up as variants.

~ Tom Adie 11:41, 23 July 2009 (EDT)

 var sc_project=4444613; var sc_invisible=1; var sc_partition=55; var sc_click_stat=1; var sc_security="fb1ae6cb";

 