Team:INSA Toulouse/contenu/lab practice/notebook/protocols/charac recomb

From 2013.igem.org

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  <p class="texte">Note: <i>For Xor1 gate characterization, the in vitro recombination test was performed at different Bxb1 concentrations (100µl and 20µl of Bxb1 extraction solution) and different hours of reactions (2 hours and 5 hours).</i><br></p>
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<tr style="background-color:#20a8da; height:50px; color:#ffffff;" >
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<td style="border-bottom:4px solid #e5e6e6; border-top-left-radius:9px;">Recombinase(s) tested</td>
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<td style="border-bottom:4px solid #e5e6e6; border-top-right-radius:9px;">Buffer</td>
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<td style="border-bottom:4px solid #e5e6e6; border-top-right-radius:9px;">Protein volume (mL)</td>
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<td style="border-bottom:4px solid #e5e6e6; border-top-right-radius:9px;">Plasmid DNA (ng)
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</td>
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<td style="border-bottom:4px solid #e5e6e6; border-top-right-radius:9px;">Incubation Temperature (°C)
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</td>
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<td style="border-bottom:4px solid #e5e6e6; border-top-right-radius:9px;">Incubation Time
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</td>
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</tr>
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<tr>
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<td style="border-right:1px solid #e5e6e6;">Bxb1</td>
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<td style="border-right:1px solid #e5e6e6;">100</td>
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<td style="border-right:1px solid #e5e6e6;">Buffer1</td>
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<td style="border-right:1px solid #e5e6e6;">100</td>
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<td style="border-right:1px solid #e5e6e6;">37</td>
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<td style="border-right:1px solid #e5e6e6;">15min to 5h</td>
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</tr>
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<tr style="border-top:1px solid #e5e6e6">
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">Tp901</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">100</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">Buffer2</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">100</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">37</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">3h to 10h</td>
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</tr>
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<tr style="border-top:1px solid #e5e6e6">
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">Bxb1 & Tp901
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</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">100 each</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">Buffer2</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">220</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">37</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">3h to 10h</td>
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</tr>
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<tr style="border-top:1px solid #e5e6e6">
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">PhiC31</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">100</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">Buffer2</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">100</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">30</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">3h to 10h</td>
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</tr>
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<tr style="border-top:1px solid #e5e6e6">
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">FimE</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">100</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">Buffer1</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">100</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">37</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">3h to 12h</td>
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</tr>
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<tr style="border-top:1px solid #e5e6e6">
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">PhiC31 & FimE</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">100 each</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">Buffer2</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">220</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">30</td>
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<td style="border-right:1px solid #e5e6e6; border-top:1px solid #e5e6e6;">3h to 12h</td>
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</tr>
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</table>
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Revision as of 15:41, 4 October 2013

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Notebook

Protocols

In vitro recombinase characterization protocol



Recombinase overexpression and extraction

  1. Pre-culture overnight of the strain containing recombinase plasmid at 37°C.
  2. Culture at 37°C for 4 hours.
  3. Centrifuge the culture for 3 min at 13000 rpm.
  4. The cell pellets were resuspended in 600µl Rec buffer 1* (for Bxb1 and FimE recombinases) or Rec buffer 2* (for Tp901 and PhiC31 recombinases).
  5. Sonication of the cells for three bursts of 30s.
  6. Centrifugation for 15 min at 13000 rpm, 4°C, the supernatant containing proteins (recombinases) was collected and incubated on ice.


  • Rec buffer 1 : 20 mM Tris, pH 7.5, 10mM EDTA, 25mM NaCl, 10mM Spermidine, 1mM DTT and 0.1g.mol-1 BSA.
  • Rec buffer 2 : 20 mM Tris, pH 7.5, 1mM EDTA, 1M NaCl.
  • Notes : For overexpression of Tp901 and Bxb1 from Dual Controller plasmid of Bonnet, 20 ng/ml of aTc and 1% of arabinose were added to the culture in order to activate the pTetO and the pBAD promoters.


In vitro recombination test Bxb1* recombinase

  1. Recombination reactions were assembled on ice with 100 ml* of Bxb1 recombinase extraction solution and 20 ml of solution containing Rec buffer 1* and 60 ng* the gate plasmid.
  2. Reactions were incubated at 37°C*.
  3. Taking sample (20 µl) for different time from 15 min to 5 hours* and heat inactivated at 75°C for 10min.
  4. Reaction taking samples were transformed into E.coli K12-DH5.1.
  5. Spread out the cells on LB agar plate containing the antibiotic to which the gate plasmid contains the resistance gene.
  6. The plate was incubated overnight at 37°C*.
  7. In order to RFP expressed can detected by human eye, the plate was exposed after in room temperature for 16 hours up to 32 hours.


Recombinase(s) tested Buffer Protein volume (mL) Plasmid DNA (ng) Incubation Temperature (°C) Incubation Time
Bxb1 100 Buffer1 100 37 15min to 5h
Tp901 100 Buffer2 100 37 3h to 10h
Bxb1 & Tp901 100 each Buffer2 220 37 3h to 10h
PhiC31 100 Buffer2 100 30 3h to 10h
FimE 100 Buffer1 100 37 3h to 12h
PhiC31 & FimE 100 each Buffer2 220 30 3h to 12h

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