IGEM:Groningen/Notebook/iGEM 2011/2011/07/19: Difference between revisions
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== | ==19-7-11== | ||
<br> overnight of PCR of PhybB worked-> purified with roche kit and concentration is about 55 ng/μl according to the nanodrop system. | |||
<br> Digestion, DNA clean up with High Pure PCR purification kit of Roche, ligation, transformation to create transformants <br> <br> with: PBAD-LasR-LVA-DT and PhybB-LasR-LVA-DT | |||
<br> Also, colony PCR of PhybB-cI-LVA-DT | |||
<br> Digestion: | |||
<br> Digestion of insert needs to be done with non fast digest enzymes, since SpeI is not present as fast digest enzyme, so SpeI is <br> used with Tango buffer and so EcoRI also needs to be used in this case as a non fast digest enzyme. | |||
<br> LasR-LVA-DT vector | |||
<br> 2μl vector | |||
<br> 1μl EcoR1 | |||
<br> 1μl XbaI | |||
<br> 3μl Fast digest buffer | |||
<br> 1μl Fast AP | |||
<br> 22μl MQ | |||
<br> | |||
<br> pBAD | |||
<br> 10μl pBAD | |||
<br> 1μl SpeI | |||
<br> 2μl Tango buffer | |||
<br> 7μl MQ | |||
<br> | |||
<br> PhybB | |||
<br> 3μl PhybB | |||
<br> 1μl SpeI | |||
<br> 2μl Tango buffer | |||
<br> 14μl MQ | |||
<br> Incubate the samples at 37°C for 1.5h. | |||
<br> After this, you have to add EcoRI (1μl) and 20/8=2.5 μl Tango buffer. | |||
<br> Incubate another time at 37°C for 1.5h. For more information see: http://www.fermentas.com/en/tools/doubledigest | |||
<br> Do a DNA purification with the PCR purification kit from Roche | |||
<br> Ligation: | |||
<br> | |||
<br> PhybB-LasR-LVA-DT vector | |||
<br> 8.5μl vector | |||
<br> 5.6μl insert | |||
<br> 1μl T4 DNA ligase | |||
<br> 2μl T4 DNA ligase buffer | |||
<br> 2.9μl MQ | |||
<br> | |||
<br> PBAD-LasR-LVA-DT vector | |||
<br> 8.5μl vector | |||
<br> 6.1μl insert | |||
<br> 1μl T4 DNA ligase | |||
<br> 2μl T4 DNA ligase buffer | |||
<br> 2.4μl MQ | |||
<br> | |||
<br> PhybB-cI-LVA-DT vector | |||
<br> 8.5μl vector | |||
<br> 5.6μl insert | |||
<br> 1μl T4 DNA ligase | |||
<br> 2μl T4 DNA ligase buffer | |||
<br> 2.9μl MQ | |||
<br> | |||
<br>Self ligation: | |||
<br> 8.5μl vector | |||
<br> 1μl T4 DNA ligase | |||
<br> 2μl T4 DNA ligase buffer | |||
<br> 8.5μl MQ | |||
<br> | |||
<br> Ligate at room temperature for 30 min. | |||
<br> | |||
<br>Transform as usual (see 12th of July) | |||
<br> | |||
<br> | |||
<br> Colony PCR with samples PhybB-cI-LVA-DT (samples ligation mixtures stored overnight in fridge)was done as followed: | |||
<br> Mastermix scheme: | |||
<br> Taq 10× buffer with NH4SO4 without MgCl2: 58.00μl | |||
<br> dNTPs 10mM each: 11.6μl | |||
<br> MgCl2: 34.8μl | |||
<br> Taq polymerase 5u/μl: 2.90μl | |||
<br> Biobrick vector forward primer 10μM: 11.6μl | |||
<br> Biobrick vector reverse primer 10μM: 11.6μl | |||
<br> MilliQ water: 449.50μl | |||
<br> | |||
<br> PCR conditions: | |||
<br> Preheated lid: 111°C | |||
<br> Denaturation: 94°C for 10 min. | |||
<br> Cycle (33×) | |||
<br> Denaturation: 94°C for 30s. | |||
<br> Annealing: 60°C for 30s. | |||
<br> Extension: 72°C for 2 min. | |||
<br> Final extension: 72°C for 10 min. | |||
<br> Store at 4°C infinite | |||
<br> | |||
<br> PCR products were analysed on a 1% agarose gel with TBE. | |||
<br> PhybB-cI-LVA-DT can be right, is difficult to see, maybe use one colony and tomorrow (with other colony PCR probably, pick <br> some of the old plates of this sample aswell. | |||
<br> | |||
<br> | |||
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19-7-11
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