Team:Northwestern/Protocols
From 2014.igem.org
Protocols
Note: dephosphorylation with Antarctic phophatase done after digestion. Can use CutSmart for dephosphorylation.
harvesting protocol
Purpose: Generate crude extract from E. coli cell pellets using sonication
- Obtain cell pellets from -80 freezer and fully submerge them in ice. Let your samples thaw between 1 to 2 hours. In the meantime, make S30 buffer minus DTT.
- Once your samples are ready, add fresh DTT to your S30 buffer. Add 0.8 mL of S30 buffer/g of rEcoli pellet or 1 mL of S30 buffer/g of BL21(DE3)* pellet.
- Vortex samples using 15 sec bursts followed by at least a 30 sec cool down in ice in between each burst. Typically, 10 to 15 vortex bursts are required to fully resuspend your pellets in S30 buffer.
- Once your samples are fully resuspended, let them rest for at least 5 min to allow for the level of cell/buffer mixture to rise. In the meantime, prepare your ice/water bath in a baked glass beaker.
- Once the level of your cell/buffer mixture has stopped rising, feel free to combine samples if necessary for your experiments.
- Using your P1000 pipette, aliquot out 2 x 700 µL of cell/buffer mixture to a new prechilled and labeled 1.5 mL microfuge tube. You may make multiple samples if you have enough material.
- Typically, 4 g of cells produces about three 1.4 mL samples
- Prep the sonicator by taking off the yellow probe tip protector and cleaning the probe with 70% ethanol followed by nanopure water. Dry using a Kim Wipe.
- Turn on the machine and set the amplitude to 50% and the timing of the pulses to 45 sec on, 59 sec off. The cycle should be repeated 3 times with your samples in the ice water bath and should produce about 942 J total.
- Keep the probe ~¾ into your sample and be sure to swirl your sample around using your hand to ensure maximum lysis efficiency. Note, this step requires some technique and may take a few tries to perfect.