Meeting Minutes for July 7, 2006
From 2006.igem.org
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'''Freeze tag:''' | '''Freeze tag:''' | ||
- | Problems: | + | Problems:<br> |
- | -MotB flagellar machinery is intact, not structurally changing bacteria, just the motor (good) | + | -MotB flagellar machinery is intact, not structurally changing bacteria, just the motor (good)<br> |
- | - it bridges into to the cell, shouldn’t cause a quantum increase | + | - it bridges into to the cell, shouldn’t cause a quantum increase <br> |
- | '''Sender cell:''' all parts grown up, minipreps on all parts. Colonies didn’t grow | + | '''Sender cell:''' all parts grown up, minipreps on all parts. Colonies didn’t grow run another gel, digest it, get it sequenced and ligate the 3 parts together. <br> |
- | run another gel, digest it, get it sequenced and ligate the 3 parts together | + | -will sequence after first digestion (Brendan)<br> |
- | -will sequence after first digestion (Brendan) | + | -designing the primers: Annie and Prof. Wessel<br> |
- | -designing the primers: Annie and Prof. Wessel | + | Receiver cell: need to run digest of the two parts (Victoria and Megan)<br> |
- | Receiver cell: need to run digest of the two parts (Victoria and Megan) | + | '''“Freeze Machine”:''' need to incubate cells, do minipreps (Jamie and Annie) <br> |
- | '''“Freeze Machine”:''' need to incubate cells, do minipreps | + | '''Unfreeze:''' do miniprep tonight (Jason and Azeem)<br> |
- | '''Unfreeze:''' do miniprep tonight (Jason and Azeem) | + | |
- | '''Modeling Mechanism''' | + | '''Modeling Mechanism'''<br> |
- | -put a gene then a protein with a line connecting it, RBS and primer is an effector of that pathway | + | -put a gene then a protein with a line connecting it, RBS and primer is an effector of that pathway <br> |
- | Problems: can’t inhibit the rate the promoter outputs | + | Problems: can’t inhibit the rate the promoter outputs<br> |
- | -talks about having a metabox | + | -talks about having a metabox<br> |
- | -website: bio tapestry | + | -website: bio tapestry<br> |
- | '''What are hopes of model?''' | + | '''What are hopes of model?''' <br> |
-10 internal signaling pathways, worth running time courses seeing how stable system is | -10 internal signaling pathways, worth running time courses seeing how stable system is | ||
-does system break down if we vary concentrations? | -does system break down if we vary concentrations? |
Revision as of 19:08, 7 July 2006
Minutes for Weekly meeting (7/7)
Indiv. Member Responsibilities: still underway
Freeze tag:
Problems:
-MotB flagellar machinery is intact, not structurally changing bacteria, just the motor (good)
- it bridges into to the cell, shouldn’t cause a quantum increase
Sender cell: all parts grown up, minipreps on all parts. Colonies didn’t grow run another gel, digest it, get it sequenced and ligate the 3 parts together.
-will sequence after first digestion (Brendan)
-designing the primers: Annie and Prof. Wessel
Receiver cell: need to run digest of the two parts (Victoria and Megan)
“Freeze Machine”: need to incubate cells, do minipreps (Jamie and Annie)
Unfreeze: do miniprep tonight (Jason and Azeem)
Modeling Mechanism
-put a gene then a protein with a line connecting it, RBS and primer is an effector of that pathway
Problems: can’t inhibit the rate the promoter outputs
-talks about having a metabox
-website: bio tapestry
What are hopes of model?
-10 internal signaling pathways, worth running time courses seeing how stable system is
-does system break down if we vary concentrations?
-is there a way to do positive control, repressalator
-To check that logical sensible
-want to see if signaling cell will actually stop the receiver cell, if not, can we figure out the strength of the RBS necessary to get the job done
-focus of small steps: once we get the sensor and sender of AHL working we can then test it out to define rate laws (do so by putting GFP at end of sequences-to test the POPs)
Magnetotacticbacteria
-still alive -looked at most concentrated vile, 3 cells in each visual field 200microliters, 50 microliters of food -divided to some extent -mixed up another vile to grow in anerobic bacterial incubator -Hyato requested 4 types of plasmid, that Luciferase expresses much better, email has been sent out -Plamids modified in D5Halpha cells -can electroborate into bacterial cells and the other to conjugate them - before we can do anything we need to get a stable stock of the bacteria -will try plating the bacteria now that we have access to anerobic chamber
Tasks that members have taken on:
-Megan will look at options to synthesize avadin from scratch. Costs ? Practicality ? -end goal to make a standard shuttle vector that can be used
-take origin of replication from plasmids that we are looking for and insert them into the shuttle vector as a contribution to the biobricks registry. Important to make it compatible with most bacteria used in the project (Jason)
-wiki has been updated by Annie and Jamie you can update the particular parts for “the Freeze Tag”
-General overview of Project (Azeem)
Outreach Coordinator: Megan
Industry Liaison: Victoria
Future Planning: Jason, Brendan, John Cumbers
Questions, Thoughts, Concerns?
(1.)can a biobick could be created for the plasmids?
-we should get a hold of avadin part, then optimize codon usage, find restriction sites -look at article with Mag A
(2.)look into buying AHL
(3.)How do we test AHL concentration (it is a lactose analog-a simple carbohydrate)?
-Right now we are using TetR promoter, will that be strong enough? Not that well characterisized. -Brendan suggesting making a biobrick with T4 promoter (wouldn’t be that hard) -Think we need 0.2 nanomoles of AHL to activate the AHL receiver
(4.)LVA: is it made individually? Cell recognizes it as mRNA