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Revision as of 23:27, 25 October 2007

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Wet Lab: Protocols: Packaging experiments

Aims

• Determine an optimum packaging technique for the experiments, that minimises the evaporation of the reaction mixture.
• Determine a suitable sampling technique which disrupts the reaction to a very minimum
• The techniques that will be tested are:
  1. Plate with multiple layer of packaging tape - minimise evaporation
  2. Plate in which samples are pipetted, in single layer tape- see effect of pipetting on reaction
  3. Samples in PCR tubes with heated lid in a PCR machine - minimise evaporation but pipetting done
  4. Control - samples in 96 well plates with singl tape layer and no piptting

<to be redone!!>

Equipments

• Fluorometer + PC
• 37°C incubator
• A PCR machine at 37°C
• 4 Fluorometer plates (black)
• Gilson pipettes p200 p20 p10
• Eppendorf and PCR Tubes
• Clear sticky tape
• Foil

Reagents

• Commercial S30 E.coli extract. Including:
  • 175µl Amino Acid Mixture Minus Methionine, 1mM
  • 175µl Amino Acid Mixture Minus Leucine, 1mM
  • 450µl S30 Extract, Circular (3 × 150µl)
  • 750µl S30 Premix Without Amino Acids
• DNA pTet-GFP from midiprep
• Nuclease Free water
• GFP solution

Protocols

1. First collect all equipment and reagents and ensure that the fluorometer and that the PC connected has a data collection protocol installed.
2. Place each of the 96 well plates together with their plate mates in their respective incubators so as to heat them up to the appropriate temperature before the experiments start.
3. For the next step of the go to the biochemistry level 5 and remove:
   • A.A's from kits
   • 2xPremix tubes (60ul each)
   • 2xS30 tubes (45ul each)
4. For Each packaging and sampling tachnique Carry out the following Procedure
5. Commercial E.coli Cell Extract: First prepare a complete amino acid mixture for both extract solutions: Add the 10μl volume of two amino acid minus mixtures into an labeled eppendorf to give a volume of 20μl. Each amino acid minus mixture is missing one type of amino acid, and so by combining two solutions we are complementing each solution for the missing amino acid. Place eppendorf in a rack on bench.
6. Commercial E.coli Cell Extract:Take an eppendorf tube and add 20µl of the E.coli complete amino acid mixture. Then add 80µl of S30 Premix Without Amino Acid. Then add 60µl of S30 Extract Circular. Place the eppendorf tube in a rack on the bench.
7. Vortex the tubes to mix thoroughly and place the tubes of E.coli commercial extract in each incubator for ten minutes.
8. Separate 80μl of midipreped DNA plasmid into an eppendorf tube and place them in their respective incubators as well.
9. Separate 20ul of midipreped DNA of empty vector into separate tubes.

Loading Plate

1. Follow the schematic for the plate and begin by loading the in vitro expression system into the correct wells. Before loading in the samples vortex the tubes for a few seconds to mix the solution.
2. Tap down the top of the lid to bring down any solution to bottom of the well.
3. Remove lid off the 96 well plate and place in the fluorometer. Create a file name insert temp under: D:\IGEM\INSERT DATE\ID. Export the data here. Each file should be named as the following:
   • construct-temp-time-date
4. This measurement will give a back ground fluorescence measurement and can be used as our time zero data.
5. Then to begin the reaction add 20μl of purified DNA sample to each well indicated on the schematic. Be careful not to add to wells that DO NOT NEED DNA.
   1. Place the plate in the fluorometer to measure its initial fluorescent reading.
6. After the measurement, place the sticky tape across the plate, and put the plate in the 10oC water bath.
7. Start on the next plate, and repeat procedures 2-6.
8. Place the plate in the 20oC water bath.
9. Repeat the above procedures and place the third plate in the 37oC incubator.
10. Before placing them in the water bath, wrap aluminium foil around them to prevent photobleaching.
11. Stagger the start of all the plates by around 5 minutes
12. Measure the temperature every 30 minutes for each temperature and repeat for 6 hours.