Endy:Victor3 plate reader/Calibrating the GFP-separated label
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It would be desirable to be able to relate the relative fluorescent measurements that we obtain from the plate reader to actual molecule numbers per cell. This would facilitate comparison of results from the plate reader with measurements from other machines. You can read more about standardizing GFP measurements here. This page describes the process to calibrate GFP counts using the GFP-separated label on the Endy lab plate reader to GFP concentration.
We chose to calibrate the GFP counts from experimental samples to a concentration of purified GFP in the well of a 96-well plate. It is not possible to do this calibration directly, as the quantum efficiency of purified GFP in solution may be different from GFP in vivo. The approach we took was to first calibrate GFP from experimental samples to the GFP counts of lysed samples from the same original culture. Next, we measured a standard curve relating the concentration of purified GFP in non-fluorescent cell lysate to GFP counts. These two sets of calibration data can then be combined to produce a calibration from GFP counts for experimental samples to GFP concentration.
Materials & Methods
As a gold standard, we obtained a purified sample of GFP from Jennifer Braff and the Sauer Lab (all of which should be folded due to the purification process). The concentration of GFP in the sample had been measured using a nanodrop and was ~120μM. Jennifer Braff had diluted the GFP into pH 5 H2O water. Since we needed the GFP to be correctly folded we needed to dilute the concentrated stock into a neutral pH buffer. I believe we used TE(check).
- F2620-pSB3k3 in MG1655 grown in supplemented M9 media overnight and diluted back 1/500. Once the cell reach an OD of around 0.7 we induce 5ml of the culture. Every 10 mins we induced another 5ml of the culture. After 60mins we had cells that had been induced for 60mins, 50mins, 40mins etc resulting in varying amounts of GFP per cell. The ODs of all the cultures were similar after the 60 mins. These samples were then lysed according to the method below. Uninduced cells from the same master culture were used to dilute the purified GFP.
We looked into a few different ways of lysing the cells without denaturing too much of the GFP. On the recommendation of Sean Moore, we settled on B-Per II sold by Pierce as it seemed to be a quick and easy protocol that was sufficiently gentle to not denature the protein overly. Sean Moore had good experience with B-Per II and gave us a modified protocol based on the manufacturers protocol. We made some small modifications to that protocol to get reproducible results in our hands.
- We started with E. coli grown in supplemented M9 media at an OD of 0.86.
- Incubate samples on ice for 10mins.
- Centrifuge all samples at room temp. for 6mins at 9000rpm using a tabletop centrifuge.
- Remove supernatant.
- Resuspend the sample pellet in Tris (10mM, 100mM NaCl, pH 8).
- Repeat steps 3 and 4.
- Resuspend cells in 50μl B-Per II.
- Add 1 unit Benzonase per 1ml of culture.
- Let sit for ~1min or longer.
This should lead to >90% lysis.