Team:Caltech/week6

From 2014.igem.org

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<b>Export Systems</b>
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<ul><li>Did colony PCR on transformed colonies incubated last night and ran a gel on the products.</li>
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    <li>Several lanes showed <a href=""> multiple bands </a> [link to picture of gel], so we did a gradient PCR, varying the annealing step's temperature from 47&deg;C to 55&deg;C., and then ran a gel on the products</li>
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    <li>Liquid cultures of 7 of the 10 picked colonies were prepared for overnight incubation</li>
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<b>lamBCDA & fsrABC Reception Systems</b>
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<b>agrBCDA Reception System and Combinatorial Promoters</b>
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<br>Retested jwAA001 system in triplicates:
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<ul><li> ([IPTG] in &mu;M, [aTC] in ng/mL):(0,0); (5,0); (50,0); (500,0); (0,25); (5,25); (50,25); (500,25); (0,50); (5,50); (50,50); (500,50); (0,100); (5,100); (50,100); (500,100)</li>
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</ul>
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For agrBCDA system, we continued to try to create the pAA009 backbone:
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<ul><li>Redid PCR of pAA009 backbone, adding DMSO to the master mix to unravel any secondary structures. Also both pWW1523 and pWW1521 were used as the template DNA (since they should yield the same product).</li>
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    <li>A gel was run on the product and suggested successful PCRing of the backbone</li>
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Revision as of 06:59, 23 July 2014
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Notebook
Overview

Week 1

Week 2

Week 3

Week 4

Week 5

Week 6

Week 7

Week 8

Week 9

Week 10

Week 11

Week 12

Week Six

Monday, 7/21/14

 Export Systems
3 of our 5 constructs were not properly cloned, so we are going to redo them:
  • PCRed out backbones for pTG002, pTG003, and pTG006 with overhangs
  • PCR product was then DpnI digested and PCR-purified. A gel was run with processed and unprocessed product to verify backbone creation
  • Gibson assembly of pTG002, pTG003, and pTG006 (pTG006 had 2 reactions: 1 with the backbone created last week, since it had been verified to work for cloning pTG005, and another with backbone created today)
  • Assemblies were transformed into JM109, plated on carbenicillin plates, and incubated overnight
lamBCDA & fsrABC Reception Systems
  • 4 cultures of JM109 were transformed, plated on Kan + Cm plates, and incubated overnight at 37°C:
    1. pMB001 and pMB003
    2. pMB002 and pMB003
    3. pMB004 and pMB006
    4. pMB005 and pMB006
agrBCDA Reception System and Combinatorial Promoters
For the agrBCDA System, we troubleshot our problems creating the pAA009/10 vector backbone:
  • Ran a gel of the PCR product created on Friday (pAA009/10 backbone). Results were negative.
  • Tried PCR again with lower annealing temperatures [(what temps?)]. Results were negative again.
For the combinatorial promoters:
  • Set up overnight culture of jwAA001 strain to do more experiments tomorrow

Tuesday, 7/22/14

 Export Systems
  • Did colony PCR on transformed colonies incubated last night and ran a gel on the products.
  • Several lanes showed multiple bands [link to picture of gel], so we did a gradient PCR, varying the annealing step's temperature from 47°C to 55°C., and then ran a gel on the products
  • Liquid cultures of 7 of the 10 picked colonies were prepared for overnight incubation
lamBCDA & fsrABC Reception Systems
agrBCDA Reception System and Combinatorial Promoters
Retested jwAA001 system in triplicates:
  • ([IPTG] in μM, [aTC] in ng/mL):(0,0); (5,0); (50,0); (500,0); (0,25); (5,25); (50,25); (500,25); (0,50); (5,50); (50,50); (500,50); (0,100); (5,100); (50,100); (500,100)
For agrBCDA system, we continued to try to create the pAA009 backbone:
  • Redid PCR of pAA009 backbone, adding DMSO to the master mix to unravel any secondary structures. Also both pWW1523 and pWW1521 were used as the template DNA (since they should yield the same product).
  • A gel was run on the product and suggested successful PCRing of the backbone

Wednesday, 7/23/14

Thursday, 7/24/14

Friday, 7/25/14

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