Meeting Minutes for July 7, 2006
From 2006.igem.org
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'''What are hopes of model?''' <br> | '''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 <br> |
| - | -does system break down if we vary concentrations? | + | -does system break down if we vary concentrations?<br> |
| - | -is there a way to do positive control, repressalator | + | -is there a way to do positive control, repressalator<br> |
| - | -To check that logical sensible | + | -To check that logical sensible<br> |
| - | -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 | + | -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<br> |
| - | -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) | + | -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)<br> |
| - | '''Magnetotacticbacteria''' | + | '''Magnetotacticbacteria'''<br> |
| - | -still alive | + | -still alive<br> |
| - | -looked at most concentrated vile, 3 cells in each visual field 200microliters, 50 microliters of food | + | -looked at most concentrated vile, 3 cells in each visual field 200microliters, 50 microliters of food<br> |
| - | -divided to some extent | + | -divided to some extent<br> |
| - | -mixed up another vile to grow in anerobic bacterial incubator | + | -mixed up another vile to grow in anerobic bacterial incubator<br> |
-Hyato requested 4 types of plasmid, that Luciferase expresses much better, email has been sent out | -Hyato requested 4 types of plasmid, that Luciferase expresses much better, email has been sent out | ||
| - | -Plamids modified in D5Halpha cells | + | -Plamids modified in D5Halpha cells<br> |
| - | -can electroborate into bacterial cells and the other to conjugate them | + | -can electroborate into bacterial cells and the other to conjugate them<br> |
| - | - before we can do anything we need to get a stable stock of the bacteria | + | - before we can do anything we need to get a stable stock of the bacteria<br> |
| - | -will try plating the bacteria now that we have access to anerobic chamber | + | -will try plating the bacteria now that we have access to anerobic chamber<br> |
| - | '''Tasks that members have taken on:''' | + | '''Tasks that members have taken on:'''<br> |
| - | -Megan will look at options to synthesize avadin from scratch. Costs ? Practicality ? | + | -Megan will look at options to synthesize avadin from scratch. Costs ? Practicality ?<br> |
| - | -end goal to make a standard shuttle vector that can be used | + | -end goal to make a standard shuttle vector that can be used. <br> |
| - | -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) | + | -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)<br> |
| - | -wiki has been updated by Annie and Jamie | + | '''-wiki has been updated by Annie and Jamie''' |
| - | you can update the particular parts for “the Freeze Tag” | + | '''NB: you can update the particular parts for “the Freeze Tag”''' |
| - | + | '''General overview of Project (Azeem)''' | |
'''Outreach Coordinator: Megan''' | '''Outreach Coordinator: Megan''' | ||
Revision as of 19:11, 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 NB: 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
