User:Maira Tariq/sandbox: Difference between revisions
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*[[Image:ICGEMS_dvc_PHrpL_x-gal.PNG|left|thumb|200px|]] | *[[Image:ICGEMS_dvc_PHrpL_x-gal.PNG|left|thumb|200px|]] | ||
*[[Image:ICGEMS_sys_Ptet_luxR_Plux_x-gal.PNG|left|thumb|400px|]] | *[[Image:ICGEMS_sys_Ptet_luxR_Plux_x-gal.PNG|left|thumb|400px|]] | ||
==[[IGEM:IMPERIAL/2007/Projects/Experimental_Design/Problems|Problems page]]== | |||
*Contains a list of all the problems being faced by the team regarding the experiments being carried out |
Revision as of 13:41, 5 September 2007
Application driven projects: (23/07/07)
- Detecting food spoiling
- Detect pH change and temp change in surrounding environment
- Visual change to show spoiling
- Ternström A, Lindberg AM, and Molin G. Classification of the spoilage flora of raw and pasteurized bovine milk, with special reference to Pseudomonas and Bacillus. J Appl Bacteriol. 1993 Jul;75(1):25-34. DOI:10.1111/j.1365-2672.1993.tb03403.x |
- Biofilm removal from surfaces, eg medical insrtuments, food etc.
- Prosthetic hip joints: http://jcm.asm.org/cgi/reprint/37/10/3281 - but would need to replace
- E coli biofilm: http://www.blackwell-synergy.com/links/doi/10.1046/j.1365-2958.2003.03490.x/full/?cookieSet=1
- Using signalling within biofilms to destroy them: http://www.nature.com/nbt/journal/v21/n4/full/nbt0403-361.html
- http://www.blackwell-synergy.com/links/doi/10.1046/j.1462-2920.2000.00128.x/abs/
- http://iai.asm.org/cgi/reprint/IAI.01143-06v1.pdf
- http://www.sciencemag.org/cgi/content/full/311/5764/1113
- Catheter tubes
- can use bacteria to detect biofilm on surface.
- don't introduce bacteria inside as may accumulate
- discard the catheter if biofilm detected
- Detect food for allergic substances eg nuts, dairy products etc.
- Indicate excess UV exposure of skin
- Biofilm to form lubricant(cartilage) on joints
- Biocompatible
- Stimulate bacteria in a contolled way
- Create 3D images
- Biological-electronic interface
- Gut bacteria - assess nutritients in diet
- Layer of biofilm on stagnant water to block sunlight and oxygen
- Kill mosquito cells
- HRP system applications:
- Glucose/insulin regulation system
- Problem: no receptor in E. coli to detect glucose directly
AHL produced in biofilms:
(Notes on the journal modeling AHL production in biofilms of the same bacterial population)
AHL synthesis is subject to autoinduction in which production of AHLs operates
as a positive feedback loop.
Assumptions made in the model:
- All bacterial cells are physiologically identical with regard to size, shape and permeability of the cell membrane, as well as production and degradation rates of the signalling molecules
- Bacterial population exhibit a standard logistic growth pattern
- No metabolic or physiological lag is assumed
- At very low Cbc, the net rate of AHL production, h(Cbc), is assumed to be determined solely by the difference between basal production, Bp, and degradation of AHLs
- Degradation of AHLs is proportional to the concentration of AHL and occurs at a rate d*Cbc
Not considered in the model: permeability constant a, which is characteristic of the bacterial cell membrane, the diffusability of a given AHL, and the viscosity of the cell and the biofilm
Conclusions from the model: high concentrations of AHL inside cells could be achieved at very low population densities. Rapid rise in AHL concentration early in population growth, followed by a plateau, followed by another rise to a second plateau
Biofilm detection using AHL as signals
http://aem.asm.org/cgi/reprint/67/2/575
Cell-free Schedule
Week 3 | Week 4 | Week 5 | Week 6 | Week 7 | Week 8 |
---|---|---|---|---|---|
Design EBF Model ECBD Protocol EHRP |
Experiment: EBF I ECBD I |
Making EHRP | Testing EHRP | ||
Test-tube/In-vitro Characterization | Design/Mod TT BF TT CBD |
Expt/Test TT BF I/II/III TT CBD I/II/III |
|||
In-Veso: Characterization | Mod/Design VBF I/II/II VCBD I/II/III |
Expt/Test VBF I/II/II VCBD I/II/III |
Colour Scheme
Orange indicating E-Coli
Red indicating "Pure" cell-free extract
Green indicating Vesicular form
Constructs
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Problems page
- Contains a list of all the problems being faced by the team regarding the experiments being carried out