Team:Goettingen/week10-3

V07_02

• Experiment:
  We aim to apply directed evolution to reprogram the bacterial chemoreceptor TAR in order to enable the perception of novel substances. A saturated mutagenesis PCR was performed to mutate five individual amino acid residues in the ligand binding site of TAR. The primers that are utilized are the following:
  
  TARR6973Fw:
  gcgcaGGAAAGGTCTCACTGAGTnnNTCAGCGGTAnnNATGATGATGGATTCCTCCAATCAACAAAG
  TARR6973Rv:
  gcgcaGAGTAGGTCTCATCAGGTTAATGCGCGTTTGCAG
  TARY149F150T154Fw:
  gcgcaGGAAAGGTCTCAGGAGCTnnNnnNGCTCAGCCAnnNCAGGGAATGCAAAATGCAATGGGCGAAG
  TARY149F150T154Rv:
  gcgcaGAGTAGGTCTCACTCCAGTATTGCCATAATCTAGGTAATC
  
  We firstly did a test PCR with both primer pairs to verify the mutagenesis PCR protocol and conditions. As a template we use the vector pSB1C3_TAR_QC_18C isolated from E. coli DH10B since this promoter is the strongest among the promoter constructs we use. After the amplification we have multiple linear vectors that contain every possible mutation.

• Observations and results:
  According to the agarose gel the PCR worked well. A band of the expected size of 3769 bp was observed for both reactions.

V07_03

• Experiment:
  The saturated mutagenesis PCR was set up in a 50 µL batch according to the established protocol V07_02).

• Observations and results:
  The corresponding gel showed bands at the expected size.

V07_04

• Experiment:
  The clean-up was performed using peqGOLD Cycle-Pure Kit (PeqLab) following the user manual. We modified the protocol by using columns from the peqGOLD Plasmid Miniprep Kit (PeqLab) because these can bind a higher amount of DNA (30 µg/column). Thus, we lose fewer DNA material in the cleaning steps. 50 µL of elution buffer was used.

• Observations and results:
  The corresponding gel showed a band at the expected size.

• Experiment:
  The digestion was performed with a total volume of 50 µL according to protocol.

• Experiment:
  The clean-up was performed using peqGOLD Cycle-Pure Kit (PeqLab) modified by using columns from the peqGOLD Plasmid Miniprep Kit (PeqLab) with a EB volume of 50 µL.

• Observations and results:
  The corresponding gel showed a band at the expected size.

• Experiment:
  The ligation was set up in a 100 µL batch according to protocol. Incubation over night at 16 °C.

V07_05

• Experiment:
  

• Observations and results: