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Team:Freiburg/Notebook/12 August
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| + | <div id="notebook-page-header"> | ||
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| + | <a href="https://2011.igem.org/Team:Freiburg/Notebook/11_August">Previous entry</a> | ||
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| + | <div id="notebook-title"> | ||
| + | <a href="https://2011.igem.org/Team:Freiburg/Notebook"> 12 August </a> | ||
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| + | <a href="https://2011.igem.org/Team:Freiburg/Notebook/13_August">Next entry</a> | ||
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==Meeting== | ==Meeting== | ||
| - | attendants: <br/> | + | attendants: Jakob, Julia, Manuel, Sandra, Sophie, Theo, Tobias <br/> |
| - | Time: | + | Time: 10:00 - 11:30 |
===<span style="color:green;">green light receptor</span>=== | ===<span style="color:green;">green light receptor</span>=== | ||
already done: | already done: | ||
| - | + | *quick change with CcaR didn't work | |
| + | *colonies for pcyA and ho1 | ||
To-do: | To-do: | ||
| + | *order new primer for the quick change | ||
| + | *cph8: we will use the primer and protocol from the Upsalla team | ||
| + | *test if the colonies are positive | ||
===<span style="color:blue;">blue light receptor</span>=== | ===<span style="color:blue;">blue light receptor</span>=== | ||
| Line 17: | Line 35: | ||
already done: | already done: | ||
| - | + | *PCR to amplifiy the receptor with new primer pair | |
To-do: | To-do: | ||
| + | *check if the PCR worked | ||
===<span style="color:red;">red light receptor</span>=== | ===<span style="color:red;">red light receptor</span>=== | ||
already done: | already done: | ||
| - | |||
To-do: | To-do: | ||
| Line 31: | Line 49: | ||
already done: | already done: | ||
| - | + | *lysis cassette with RBS | |
| + | *colonies for the GFP-PBD | ||
| + | *inducible promotor + PR done | ||
To-do: | To-do: | ||
| - | + | *overnight culture of the GFP-PDB colonies, miniprep, test digest and sequencing | |
===<span style="color:grey;">Precipitator</span>=== | ===<span style="color:grey;">Precipitator</span>=== | ||
already done: | already done: | ||
| - | + | *waiting for the genes | |
To-do: | To-do: | ||
| + | still more waiting to do | ||
| + | |||
| + | ===other stuff=== | ||
| + | *only some teams/people replied to the code we sent around | ||
| + | *Rüdiger will meet Hauke Busch who will help us along with the modelling | ||
| + | *everyone should do a sketch for his iGEM parts and constructs (also a short text to explain the function of every part) | ||
| + | *the skype talk to the Upsalla team was helpful: we exchanged the primer sequences and some further experiences we had with the parts and with iGEM itself | ||
| + | *we still need the official OK that we can collect donation about the crowd funding | ||
| + | *Tobi wants to contact some newspapers | ||
| + | *we want to practice our talk in front of the MPI people and the bioss people, we should get appointments, Sandra wants to ask Miriam from the MPI if we could do the talk on friday 23rd or wednesday 28th | ||
| + | *we still need to update the wiki gallery | ||
| + | |||
<br/> | <br/> | ||
<br/> | <br/> | ||
| + | |||
==<span style="color:green;">green light receptor</span>== | ==<span style="color:green;">green light receptor</span>== | ||
| Line 327: | Line 360: | ||
|} | |} | ||
| + | |||
| + | <br> | ||
==<span style="color:grey;">Precipitator</span>== | ==<span style="color:grey;">Precipitator</span>== | ||
| - | === | + | ===Cloning=== |
| + | |||
| + | '''Investigators: Sophie'''<br/> | ||
| + | continue from experiment: Miniprep (Jakob/Ruediger, 12.8., see lysis cassette)<br/> | ||
| + | project name: inducible promoter for Pbd<br/> | ||
| + | parts: S54 (Eco & Spe)<br/> | ||
| + | GFP-Pbd ε5 (Xba 7 Pst)<br/> | ||
| + | psb1t3 (Eco & Pst)<br/> | ||
| + | stored in: Ruediger's box<br/> | ||
| + | |||
| + | ===Ligation=== | ||
| + | |||
| + | '''Investigators: Sophie'''<br/> | ||
| + | continue from experiment: Cloning (today, me)<br/> | ||
| + | project name: inducible promoter for Pbd<br/> | ||
| + | parts: S54 (Eco & Spe)<br/> | ||
| + | GFP-Pbd ε5 (Xba 7 Pst)<br/> | ||
| + | psb1t3 (Eco & Pst)<br/> | ||
| + | name of ligation product: IPTG+Pbd<br/> | ||
| + | stored in: Ruediger's box | ||
| + | |||
| + | ===Testdigest=== | ||
| - | '''Investigators: Sophie''' | + | '''Investigators: Sophie'''<br/> |
| + | continue from experiment: Ligation (today, me)<br/> | ||
| + | project name: inducible promoter for Pbd<br/> | ||
| + | [[File:Freiburg 12.8.11.jpg]] | ||
| + | PR6 6 and Pr 4 4 were sequenced but PRs were missing again. Inducible promoter seems to be necessary. | ||
{{:Team:Freiburg/Templates/footer}} | {{:Team:Freiburg/Templates/footer}} | ||
Latest revision as of 01:07, 22 September 2011
Contact 
Contents |
Meeting
attendants: Jakob, Julia, Manuel, Sandra, Sophie, Theo, Tobias
Time: 10:00 - 11:30
green light receptor
already done:
- quick change with CcaR didn't work
- colonies for pcyA and ho1
To-do:
- order new primer for the quick change
- cph8: we will use the primer and protocol from the Upsalla team
- test if the colonies are positive
blue light receptor
already done:
- PCR to amplifiy the receptor with new primer pair
To-do:
- check if the PCR worked
red light receptor
already done:
To-do:
Lysis cassette
already done:
- lysis cassette with RBS
- colonies for the GFP-PBD
- inducible promotor + PR done
To-do:
- overnight culture of the GFP-PDB colonies, miniprep, test digest and sequencing
Precipitator
already done:
- waiting for the genes
To-do:
still more waiting to do
other stuff
- only some teams/people replied to the code we sent around
- Rüdiger will meet Hauke Busch who will help us along with the modelling
- everyone should do a sketch for his iGEM parts and constructs (also a short text to explain the function of every part)
- the skype talk to the Upsalla team was helpful: we exchanged the primer sequences and some further experiences we had with the parts and with iGEM itself
- we still need the official OK that we can collect donation about the crowd funding
- Tobi wants to contact some newspapers
- we want to practice our talk in front of the MPI people and the bioss people, we should get appointments, Sandra wants to ask Miriam from the MPI if we could do the talk on friday 23rd or wednesday 28th
- we still need to update the wiki gallery
green light receptor
NAME OF YOUR EXPERIMENT
Investigators:NAME
blue light receptor
Gel of the PCR product: LovTAP
Investigators: Sandra
To confirm the PCR worked this time, we loaded the sample onto a gel. The size of the fragment should be 1000bp. The gel showed a band at 1000bp. We digested the PCR product with DpnI and then purified the DNA with the PCR purification kit to further use the PCR product for 3A-assembly.
3A-assembly of Not-Gate, LovTAP in pSB1T3
Investigators: Sandra
Digestion
Amount of DNA and H20:
| Sample | DNA μl | H20 μl |
| LovTAP | 5 | 33 |
| Not-Gate | 2 | 36 |
| pSB1T3 | 20 | 18 |
Enzymes necessary for digestion:
| LovTAP | Not-Gate | vector | |
| enzyme 1 | EcoRI | XbaI | EcoRI |
| enzyme 2 | NheI | PstI | PstI |
- Incubation at 37°C for 6 hours
- 20 minutes at 80°C
red light receptor
Picking clones of pcyA and ho1
Investigators: Sandra
Picked 2 clones of each plate:
- 1pTd (PR1+pcyA+terminator)
- 2pTd (PR2+pcyA+terminator)
- 1pTb (PR1+pcyA+terminator)
- 2pTb (PR2+pcyA+terminator)
- 1L23 (PR1+ho1+terminator)
- 2L23 (PR2+ho1+terminator)
Incubation over night.
Lysis cassette
Miniprep
Investigators: Jakob, Ruediger, Theo
| Name: Jakob, Ruediger, Theo | Date: 12.08.2011 |
| Continue from Experiment: Transformation, 10.08.2011 | |
| Project Name:
Lysis systeme, plasticbinding, GST-Tag, IPTG inducible promotor, LOV-Tap | |
Documentation:
Why are you doing this experiment? Name the parts which you extract.
- Need the DNA concentration
Describe your results and mistakes and measure the DNA concentration with the Nanodrop and note the results. How did you label your probes and where are they stored?
| Sample ID | Nuclein Acid Conc. ng/µl | | |
| LOV 3A | 81,8 | 1,88 | 2,23 |
| PR4+GFP | 87,1 | 1,85 | 1,93 |
| PR6-1 | 124,7 | 1,89 | 2,19 |
| PR6-2 | 138,1 | 1,88 | 2,14 |
| PR6-3 | 67,2 | 1,94 | 2,09 |
| PR6-4 | 96,5 | 1,85 | 1,58 |
| PR6-5 | 102,7 | 1,94 | 2,14 |
| PR6-6 | 111,5 | 1,88 | 1,99 |
| PR6-7 | 40,1 | 1,99 | 1,94 |
| PR4-1 | 71,3 | 1,90 | 1,79 |
| PR4-2 | 119,6 | 1,83 | 1,69 |
| PR4-3 | 135,4 | 1,84 | 1,83 |
| PR4-4 | 99,2 | 1,86 | 1,85 |
| PR4-5 | 90,9 | 1,84 | 1,67 |
| Lys+RBS-1 | 33,1 | 1,99 | 1,87 |
| Lys+RBS-2 | 43,8 | 1,94 | 1,91 |
| Lys+RBS-3 | 27,7 | 1,98 | 1,82 |
| Lys+RBS-4 | 38,9 | 2,02 | 1,92 |
| Lys+RBS-5 | 31,0 | 2,03 | 1,92 |
| Lys+RBS-6 | 39,9 | 2,00 | 1,84 |
| PGEX6P1-a | 65,9 | 1,94 | 2,02 |
| PGEX6P1-b | 65,3 | 1,90 | 1,98 |
| PGEX6P1-c | 70,6 | 1,95 | 2,05 |
| PGEX6P1-d | 43,6 | 1,82 | 1,40 |
| PGEX6P1-e | 53,9 | 1,87 | 1,75 |
| S54 | 219,6 | 1,87 | 2,21 |
| S54 | 216,4 | 1,88 | 2,21 |
Precipitator
Cloning
Investigators: Sophie
continue from experiment: Miniprep (Jakob/Ruediger, 12.8., see lysis cassette)
project name: inducible promoter for Pbd
parts: S54 (Eco & Spe)
GFP-Pbd ε5 (Xba 7 Pst)
psb1t3 (Eco & Pst)
stored in: Ruediger's box
Ligation
Investigators: Sophie
continue from experiment: Cloning (today, me)
project name: inducible promoter for Pbd
parts: S54 (Eco & Spe)
GFP-Pbd ε5 (Xba 7 Pst)
psb1t3 (Eco & Pst)
name of ligation product: IPTG+Pbd
stored in: Ruediger's box
Testdigest
Investigators: Sophie
continue from experiment: Ligation (today, me)
project name: inducible promoter for Pbd
PR6 6 and Pr 4 4 were sequenced but PRs were missing again. Inducible promoter seems to be necessary.
