Smolke:Protocols/Yeast Colony PCR

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Colony PCR from yeast, either to check inserts etc. or for sequencing.

Travis' Version


  • Lyticase (from Sigma)
  • TE
  • PCR buffers, primers, polymerase, etc.


The basic idea is breaking the cells with lyticase and heat, then doing PCR.

  1. Dilute stock of lyticase to 50 U/mL in TE.
  2. Aliquot lyticase in 50uL quantities
  3. Pick colonies (I use a pipette tip) and add to lyticase aliquots, pipette up and down or agitate to break up colony
  4. Incubate at 37°C for 30 min
  5. Incubate at 95°C for 10 min
  6. Use as template for PCR - I use 5uL of the cells in a 50uL PCR reaction


  • I use this protocol to PCR off the chromosome for sequencing... I clean up the rxn with a Zymoclean kit afterwards.
  • The amount of yeast doesn't seem to matter much. I get success with very small colonies or with loads of cells.

Josh's Version


  • 20 mM NaOH
  • PCR materials


  1. Aliquot 20uL NaOH into PCR tubes
  2. Pick colonies (I use pipet tips) into the NaOH
  3. Incubate at 95C for ~45 minutes
  4. Centrifuge at max speed for 10 minutes (helps to use plastic inserts in the microfuge)
  5. Use 1uL of supernatant as template in a (10uL) PCR.