IGEM:MIT/2005/Sensor 2: Difference between revisions
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>Aanniev |
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==='''''Working on'''''=== | ==='''''Working on'''''=== | ||
*PLAN | *PLAN | ||
# | #Checking primers (for: fusion and adding linker) | ||
#Make | #Make FecA- -- Work w/ Ray | ||
#Make Fur- -- Work w/ Ray | |||
*LAB | *LAB | ||
Mon: digest FecI & FecR miniprep | |||
digest FecA' PCR product | |||
run FecI, FecR, FecA' on gel | |||
gather materials for transformation on Tues. | |||
Tues: transform FecA' | |||
plate FecA' | |||
==Open Issues/Questions== | ==Open Issues/Questions== |
Revision as of 23:18, 31 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
- PCR:
- FecA WT
- FecI
- FecR
- Biobrick:
- FecA
- FecI
- FecR
- Primers design:
- Adding external linker to scFv
- FecA'-scFv fusion
Working on
- PLAN
- Checking primers (for: fusion and adding linker)
- Make FecA- -- Work w/ Ray
- Make Fur- -- Work w/ Ray
- LAB
Mon: digest FecI & FecR miniprep digest FecA' PCR product run FecI, FecR, FecA' on gel gather materials for transformation on Tues. Tues: transform FecA' plate FecA'
Open Issues/Questions
- 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:
- Lab: QuikChange FecA and FecR, PCR FecA Promoter --> Biobrick it
- Get Fur- -- Work w/ Ray
- 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.
Progression
July Week 3 *PCR WT FecA, FecI, and FecR (FecA Promoter failed) *Biobricked WT FecA
July Week 4 *Biobricked FecI and FecR *PCR FecA promoter (still failed) --> on hold till new primers come *Started making FecA' and FecR'
Aug Week 1
Aug Week 2