User:Behzad Damadzadeh/Notebook/PcTF Subcloning in E-coli/2013/09/05

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September 5, 2013

  • QuickChange Site Directed Mutagenesis of V0200 to remove BSMBI cut site in the Hygro resistance sequence
  1. Use 50 ng of dsDNA template (BD002) and 125 ng of each primer.
  2. Template strands are about 7kb for BD002.
  3. Forward primer: 0.15 mg and 32.6 nm, add 326μL dH2O to make 100μM and then diluted to 10μL concentration.
  4. Reverse primer: 0.16mg and 34.1 nm, add 341μL dH2O to make 100μM and then diluted to 10μL concentration.
  5. DNA template (BD002) miniprep concentration: 88ng/μL.
Reagents BD002
Plasmid DNA (50 ng) 0.6 μL
primer 1 (10 μM, 125 ng) 2.7
primer 2 (10 μM, 125 ng) 2.66
10x reaction buffer 5.0
dNTP mix 1.0
dH2O 38.04
Total 50.0
  • No control reaction, I will test the accuracy of the mutagenesis with BSMBI restriction enzyme.
  • Add 1 μl of PfuTurbo DNA polymerase (2.5 U/μl) to the sample reaction
  • Thermal cycling
    • 95°C/ 30 sec
    • [95°C/ 30 sec; 55°C/ 1 min; 68°C/ 7 min (1 min/kb plasmid length)]x18
    • 4°C, ∞
  • DpnI Digest (gets rid of methylated template DNA)
  • Add 1 μL DpnI enzyme to the reaction.
  • Gently and thoroughly mix the reaction, spin down in a microcentrifuge for 1 minute, and immediately incubate at 37°C for 1 hour to digest the parental supercoiled dsDNA


  • Transform 10μL of Dpn I treated DNA ftom the reaction tube to the 50μL aliquot of XL1-Blue supercompetent cells (Comes with the QuikChange Kit) No colony grow
  • Transform 40μL of Dpn I-treated DNA from the reaction tube to the 50μL aliquot of DH5α-T. One colony grow
  • Transform 1μL of control plasmid from the kit to 50μL of XL1-Blue supercompetent cells. 100s colonies grow
  • Do the traditional transformation process: 10minutes on ice, 45 seconds at 42°C, 1 minute on ice, add SOC and incubate 45 minutes at 37°C, Spin down the cells and resuspend the pallet with 100μL LB AMP broth, spread on AMP agar plate and incubate for 18 hours.