Difference between revisions of "Chassis/Cell-Free Systems/Commercial E.coli S30/Expression Lifespan"

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||[https://parts.igem.org/wiki/index.php/Chassis/Cell-Free_Systems <font face=georgia color=#cc0033 size=4>Cell-Free Systems</font>]
 
||[https://parts.igem.org/wiki/index.php/Chassis/Cell-Free_Systems <font face=georgia color=#cc0033 size=4>Cell-Free Systems</font>]
 
||[https://parts.igem.org/wiki/index.php/Chassis/Cell-Free_Systems/Commercial_E.coli_S30 <font face=georgia color=#000066 size=4>Chassis description</font>]
 
||[https://parts.igem.org/wiki/index.php/Chassis/Cell-Free_Systems/Commercial_E.coli_S30 <font face=georgia color=#000066 size=4>Chassis description</font>]
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||[https://parts.igem.org/wiki/index.php/Chassis/Cell-Free_Systems/Commercial_E.coli_S30/Optimum_Temp <font face=georgia color=#000066 size=4>Optimum temperature</font>]
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||[https://parts.igem.org/wiki/index.php/Chassis/Cell-Free_Systems/Commercial_E.coli_S30/Optimum_Temp <font face=georgia color=#000066 size=4>Temperature dependence</font>]
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||[https://parts.igem.org/wiki/index.php/Chassis/Cell-Free_Systems/Commercial_E.coli_S30/Peak_Time <font face=georgia color=#000066 size=4>Peak time</font>]
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||[https://parts.igem.org/wiki/index.php/Chassis/Cell-Free_Systems/Commercial_E.coli_S30/Optimum_DNA <font face=georgia color=#000066 size=4>DNA quantity dependence</font>]
 
||[https://parts.igem.org/wiki/index.php/Chassis/Cell-Free_Systems/Commercial_E.coli_S30/Product_Stability <font face=georgia color=#000066 size=4>Product stability</font>]
 
||[https://parts.igem.org/wiki/index.php/Chassis/Cell-Free_Systems/Commercial_E.coli_S30/Product_Stability <font face=georgia color=#000066 size=4>Product stability</font>]
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||[https://parts.igem.org/wiki/index.php/Chassis/Cell-Free_Systems/Commercial_E.coli_S30/Expression_Capacity <font face=georgia color=#000066 size=4>Expression capacity</font>]
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||[https://parts.igem.org/wiki/index.php/Chassis/Cell-Free_Systems/Commercial_E.coli_S30/Peak_Time <font face=georgia color=#000066 size=4>Peak time</font>]
 
||[https://parts.igem.org/wiki/index.php/Chassis/Cell-Free_Systems/Commercial_E.coli_S30/Expression_Lifespan <font face=georgia color=#000066 size=4>Expression lifespan</font>]
 
||[https://parts.igem.org/wiki/index.php/Chassis/Cell-Free_Systems/Commercial_E.coli_S30/Expression_Lifespan <font face=georgia color=#000066 size=4>Expression lifespan</font>]
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||[https://parts.igem.org/wiki/index.php/Chassis/Cell-Free_Systems/Commercial_E.coli_S30/Expression_Capacity <font face=georgia color=#000066 size=4>Expression capacity</font>]
 
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==Expression Lifespan==
 
==Expression Lifespan==
−
[[Image:S30_Peak_Time.JPG|thumb|800px|center|'''Graph 2. Graph of rate of GFP synthesis (mol per min) against time (minutes) at 4oC (dark blue), 15oC (pink), 20oC (yellow) and 30oC (light blue).''' The simple constitutive gene expression device [https://parts.igem.org/wiki/index.php/Part:BBa_I13522 BBa_I13522] has been used. Each of the four coloured lines show average measurements based on three replicates of the experiment. This graph is derived from Graph 1, with addition data from our GFP calibration curve. Please visit our [http://openwetware.org/wiki/IGEM:IMPERIAL/2007/Wet_Lab/Protocols/CBD2.2 OpenWetWare] for the detailed protocol and raw data of the experiment.]]
+
[[Image:S30_Expression_Lifespan.JPG|thumb|800px|center|'''Graph 5. Graph of rate of GFPmut3b synthesis (pmol per min) against time (minutes) at 8oC (dark blue), 15oC (pink), 20oC (yellow) and 30oC (light blue).''' The simple constitutive gene expression device [https://parts.igem.org/wiki/index.php/Part:BBa_I13522 BBa_I13522] has been used. Each of the four coloured lines show average measurements based on three replicates of the experiment. The error bars represent the standard deviation of the measurements.]]
 +
 
 +
==Experimental protocol==
 +
 
 +
===Aim===
 +
*To determine the expression lifespan of the commercial ''E. coli'' S30 chassis.
 +
*This is done by measuring the fluorescence of the expression system over a 6 hour period, for a range of temperatures from 8oC to 30oC. (8oC is the hypothesized minimum temperature where the system stops working.)
 +
 
 +
===Equipment===
 +
*Water Baths at in cold room at 8&deg;C/15&deg;C and in the open at  25&deg;C/30&deg;C
 +
*Fluorometer + PC
 +
*4 Fluorometer plates (black)
 +
*Sticky seal tape
 +
*Gilson pipettes p1000 p200 p20 p10
 +
*Eppendorf Tubes
 +
*Stopwatch
 +
 
 +
===Reagents===
 +
*Commercial S30 E.coli extract. Including:
 +
**175µl Amino Acid Mixture Minus Cysteine, 1mM
 +
**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 maxiprep
 +
*Nuclease Free water
 +
*GFP solution
 +
 
 +
===Preparation===
 +
#First collect all equipment and reagents and ensure that the fluorometer and that the PC connected has a data collection protocol installed.
 +
#Place each of the 96 well plates in their respective incubators so as to heat them up to the appropriate temperature before the experiments start.
 +
#''Commercial E.coli Cell Extract'': Add 240ul of cell extract + 320ul of premix + 40ul of amino acid mix minus cys + 40ul amino acid mix minus leu to an eppendorf tube, labelled A.
 +
 
 +
===Plate loading===
 +
#Add 60ul of water to all the outermost wells of the 96 well plate to minimise evaporation of the samples.
 +
#Add 40ul of cell extract preparation from A to each of 4 wells each on the plate. (The 4 wells should be placed towards the middle of the plate.)
 +
#Add 2ug of DNA each to 3 of the wells to make up to 60ul in each well.
 +
#In the last well, add 20ul of nuclease free water to the cell extract preparation.
 +
#Place the plate in the fluorometer to measure its initial fluorescent reading.
 +
#After the measurement, place the sticky tape across the plate, and put the plate in the 8oC water bath.
 +
#Start on the next plate, and repeat procedures 2-6.
 +
#Place the plate in the 15oC water bath.
 +
#Repeat the same procedures for the remaining two plates, except that before placing them in the water bath, wrap aluminium foil around them to prevent photobleaching. (This is because the water baths 25oC and 30oC will be out in the open and exposed to light.)
 +
#Stagger the start of all the plates by around 5 minutes, and measure the temperature every 30 minutes for each temperature.
 +
#Continue for 6 hours
 +
#Using the [http://2007.igem.org/Imperial/Wet_Lab/Results/Res1.3 GFPmut3b calibration curve], plot a graph of rate of GFPmut3b synthesis against time for all 4 plates.
 +
 
 +
==Results==
 +
Our raw data and data analysis can be found here: [[Image:S30_Data.xls]]

Latest revision as of 21:28, 25 October 2007

Commercial E. coli S30

Cell-Free Systems Chassis description Temperature dependence DNA quantity dependence Product stability Peak time Expression lifespan Expression capacity

Expression Lifespan

Graph 5. Graph of rate of GFPmut3b synthesis (pmol per min) against time (minutes) at 8oC (dark blue), 15oC (pink), 20oC (yellow) and 30oC (light blue). The simple constitutive gene expression device BBa_I13522 has been used. Each of the four coloured lines show average measurements based on three replicates of the experiment. The error bars represent the standard deviation of the measurements.

Experimental protocol

Aim

  • To determine the expression lifespan of the commercial E. coli S30 chassis.
  • This is done by measuring the fluorescence of the expression system over a 6 hour period, for a range of temperatures from 8oC to 30oC. (8oC is the hypothesized minimum temperature where the system stops working.)

Equipment

  • Water Baths at in cold room at 8°C/15°C and in the open at 25°C/30°C
  • Fluorometer + PC
  • 4 Fluorometer plates (black)
  • Sticky seal tape
  • Gilson pipettes p1000 p200 p20 p10
  • Eppendorf Tubes
  • Stopwatch

Reagents

  • Commercial S30 E.coli extract. Including:
    • 175µl Amino Acid Mixture Minus Cysteine, 1mM
    • 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 maxiprep
  • Nuclease Free water
  • GFP solution

Preparation

  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 in their respective incubators so as to heat them up to the appropriate temperature before the experiments start.
  3. Commercial E.coli Cell Extract: Add 240ul of cell extract + 320ul of premix + 40ul of amino acid mix minus cys + 40ul amino acid mix minus leu to an eppendorf tube, labelled A.

Plate loading

  1. Add 60ul of water to all the outermost wells of the 96 well plate to minimise evaporation of the samples.
  2. Add 40ul of cell extract preparation from A to each of 4 wells each on the plate. (The 4 wells should be placed towards the middle of the plate.)
  3. Add 2ug of DNA each to 3 of the wells to make up to 60ul in each well.
  4. In the last well, add 20ul of nuclease free water to the cell extract preparation.
  5. 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 8oC water bath.
  7. Start on the next plate, and repeat procedures 2-6.
  8. Place the plate in the 15oC water bath.
  9. Repeat the same procedures for the remaining two plates, except that before placing them in the water bath, wrap aluminium foil around them to prevent photobleaching. (This is because the water baths 25oC and 30oC will be out in the open and exposed to light.)
  10. Stagger the start of all the plates by around 5 minutes, and measure the temperature every 30 minutes for each temperature.
  11. Continue for 6 hours
  12. Using the [http://2007.igem.org/Imperial/Wet_Lab/Results/Res1.3 GFPmut3b calibration curve], plot a graph of rate of GFPmut3b synthesis against time for all 4 plates.

Results

Our raw data and data analysis can be found here: File:S30 Data.xls