IGEM:MIT/2005/Sensor 2: Difference between revisions
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>Aanniev |
>Aanniev |
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'''July Week 3''' | '''July Week 3''' | ||
*Make stock of WT FecA, FecA promoter, FecI, and FecR | *Make stock of WT FecA, FecA promoter, FecI, and FecR | ||
Make FecA' | Make FecA', FecR' | ||
*Order: primers for gene sequences for fusion | *Order: primers for gene sequences for fusion | ||
*Obtain: Fur- | *Obtain: Fur- | ||
'''July Week 4''' | '''July Week 4''' | ||
*Make | *Make FecA- | ||
Make FecA- | Make FecA-scFv fusions | ||
* | *Assemble FecA promoter with GFP | ||
'''Aug Week 1''' | '''Aug Week 1''' |
Revision as of 01:53, 22 July 2005
POC
FecAnnie
- Office: BUG Lounge
- Email: aanniev@mit.edu
- Phone: 617-252-1680
- X5-6256 (dorm)
Function
- Main component: FecA protein
- Purpose: fusion with scFv
- Mechanism: ligand binds to scFv induces conformational changes in FecA protein --> PoPS
Device Depiction
Device Parts
- Specified:
- FecA gene BBa_J07017
- FecA' (w/out PstI) BBa_J07018
- FecA promoter BBa_J07019
- FecI gene BBa_J07022
- FecR gene BBa_J07021
- FecR' (w/out PstI) BBa_J07023
- GFP under FecA promoter BBa_J07034
- Test construct for FecA BBa_J07035
- Biobricking: all base components
Current Status
Done with
- Primers:
- native FecA
- to point-mutate FecA
- FecA promoter
- FecI
- FecR
- to point-mutate FecR
- Experiment read out
- Cells:
- FecA+ (MC4100)
Working on
- Redesign FecA promoter primers
- Design primers for internal fusion
- Spec out FecA-scFv
- LambdaRed to make our own FecA-
- Obtain Fur- from Boston Medical Center -- POC Ray
- Specifying composite parts
Open Issues/Questions
- Linker design
- FecA, FecI, and FecR same promoter have issues?
- Delete loops that's not necessary to make the FecA-scFv work
- [[../Issues solved/]]
Need Help With
- Need to do:
- Internal fusion
- Get Fur- -- Work w/ Ray
- Make FecA- (Talked to Samantha)
- Need opinions/knowledge/expertise:
- FecA, FecI, and FecR relationship w/ respect to control of one promoter
- Alternative methods for gene fusion: random mutation by circular permutation and XL1-Red
Experiments
META LEVEL
1.Build
- (a) [[../Fuse FecA with scFv/]] at chosen points and attach chimera to known promoter (makes promoter::FecA::scFv)
- (b) Attach FecA promoter with reporter(GFP) - makes FecApromoter::GFP
- (c) If needed put FecI and FecR under a known promoter.
2.Tests Test expression of (b):
- Transform FecA- strain:
- FecApromoter::GFP --> Nothing
- FecApromoter only --> Nothing
- GFP only --> Nothing
- Transform wt strain:
- FecApromoter::GFP --> light up
- FecApromoter only --> nothing
- GFP only --> nothing
3. Transform FecA- strain with 1(a), (b) and (c), or 7
4. Test scFv expression in outer membrane: Detect TAG by Ab*fluorophore --> centrifuge --> FACS
FecA::scFv::TAG | FecA (no scFv) | FecA::scFv | FecA::TAG/OmpA::TAG | |
---|---|---|---|---|
Fluorescence | Yes | No (-ve control) | No (-ve control) | No (+ve control) |
5.Test overall system: (Negative controls: no GFP under promoter, no scFv, wt FecA strain)
+ Fluorescein | - Fluorescein | To Do Next |
---|---|---|
GFP produced | No GFP produced | System works!! --> Characterize system |
Anything else | Anything else | Go To 6. |
6. System doesn't work. Troubleshoot. Test binding of antibody with antigen (FRET etc). If ok, then:
(a) Either choose a new point to fuse scFv with FecA. Go to 1.
(b) Introduce random mutations. Go to 7.
7. Miniprep plasmid DNA and insert random mutations (by either transposons/Drew's paper/circularization). Go to 3.
TIME SCHEDULE
July Week 3 *Make stock of WT FecA, FecA promoter, FecI, and FecR Make FecA', FecR' *Order: primers for gene sequences for fusion *Obtain: Fur-
July Week 4 *Make FecA- Make FecA-scFv fusions *Assemble FecA promoter with GFP
Aug Week 1 *Finish making FecA-scFv fusions *Assemble parts
Aug Week 2 *Finish assembling parts
Aug Week 3
Aug Week 4