Team:Imperial College/Constitutive

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{{Imperial/StartPage2}}
{{Imperial/StartPage2}}
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=Characterization of Constitutive Expression=
 
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Status: Feedback wanted
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{{Imperial/Box1|Characterization of Constitutive Expression|
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===Aims===
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======Aims======
*To characterise the constitutive promoter and RBS combinations. This protocol is concerned with characterisation of the steady-state expression of GFPmut3b under the control of the 4 different promoter-RBS combinations. We will be measuring the fluorescence and O.D.<sub>600</sub> of the cultures and normalizing our data to the units of '''''rate of molecules of GFPmut3b synthesised per cell per min/sec'''''.
*To characterise the constitutive promoter and RBS combinations. This protocol is concerned with characterisation of the steady-state expression of GFPmut3b under the control of the 4 different promoter-RBS combinations. We will be measuring the fluorescence and O.D.<sub>600</sub> of the cultures and normalizing our data to the units of '''''rate of molecules of GFPmut3b synthesised per cell per min/sec'''''.
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<br>
 
*In addition, from comparison of the rate of expression we should be able to determine the relative strength of the RBS.
*In addition, from comparison of the rate of expression we should be able to determine the relative strength of the RBS.
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<br>
 
*With the data on the characterisation of the promoter-RBS combinations, we will be able to make an informed decision on which combination we should use for our future test constructs.  
*With the data on the characterisation of the promoter-RBS combinations, we will be able to make an informed decision on which combination we should use for our future test constructs.  
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<br>
 
*The protocol below describes what is needed for one combination of promoter and RBS, we will need to carry this out for all the combinations.
*The protocol below describes what is needed for one combination of promoter and RBS, we will need to carry this out for all the combinations.
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<br>
 
*Normally we are only concerned with the steady state expression of a constitutive promoter. However, the conditions under which we measure this could change, for example what media the ''B.subtilis'' is grown in. In addition, we may wish to see how the strength of expression changes during the growth of the ''B.subtilis''. This could be achieved by measuring the change in fluorescence between the different growth phases.
*Normally we are only concerned with the steady state expression of a constitutive promoter. However, the conditions under which we measure this could change, for example what media the ''B.subtilis'' is grown in. In addition, we may wish to see how the strength of expression changes during the growth of the ''B.subtilis''. This could be achieved by measuring the change in fluorescence between the different growth phases.
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======Equipment======
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===Equipment===
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*Fluorometer + PC  
*Fluorometer + PC  
*Pipette gun
*Pipette gun
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*Spectrometer
*Spectrometer
*Shaking incubator
*Shaking incubator
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======Reagents and Materials======
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===Reagents and Materials===
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*1 x 96 well Fluorometer Plate (See through bottom)  
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*1 x 96 Fluorometer Plate (See through bottom)  
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*Sticky plate lid
*Sticky plate lid
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*Curvettes
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*Cuvettes
*4x20ml of Autoclaved LB media in a 200ml flask Containing suitable antibiotics
*4x20ml of Autoclaved LB media in a 200ml flask Containing suitable antibiotics
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======Protocol======
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===Protocol===
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'''Day 1'''<br>
'''Day 1'''<br>
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#Collect 10ml of LB media (containing suitable antibiotics) into a 100ml flask. Inoculate the media with a single colony from a ''B.subtilis'' plate (transformed with correct construct) and grow overnight at 37<sup>o</sup>.<br>
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#Collect 10ml of LB media (containing suitable antibiotics) into a 100ml flask. Inoculate the media with a single colony from a ''B.subtilis'' plate (transformed with correct construct) and grow overnight at 37<sup>o</sup>C.<br>
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Erika says:
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Work out how many cultures you are going to need (nine by the looks of things below!) and do the above nine times...
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J-We can start with just one overnight culture then make inncolulate 3 x fresh media in the morning. The reason for 9 is that for each of the cultures we make on day 2, we pipette 3 aliquots from it. This helps us to average for any pipetting errors when the plate is loaded, whereas the different cultures help to give independent repeats for the experiements.
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'''Day 2'''<br>
'''Day 2'''<br>
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#Collect 3 x 200ml flasks containing 20ml of LB media (containing suitable antibiotics) and remove 1ml of the media and pipette into a blank curvette (this is to make the LB blank). Remove 1ml of the overnight culture and measure the O.D.<sub>600</sub>
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#Collect 3 x 200ml flasks containing 20ml of LB media (containing suitable antibiotics) and remove 1ml of the media and pipette into a blank cuvette (this is to make the LB blank). Remove 1ml of the overnight culture and measure the O.D.<sub>600</sub>
#Dilute the overnight culture 1 in 10 (2ml per culture) in 3 x 20ml of fresh LB media containing suitable antibiotics . Mix thoroughly and remove 1ml of the culture and measure the OD<sub>600</sub>. Place into a shaking incubator and grow until reaches the exponential phase of growth, the time for this should be determined previously when we do the growth curve but always checked by removing 1ml of each culture and measuring the OD<sub>600</sub> using LB media as a blank.
#Dilute the overnight culture 1 in 10 (2ml per culture) in 3 x 20ml of fresh LB media containing suitable antibiotics . Mix thoroughly and remove 1ml of the culture and measure the OD<sub>600</sub>. Place into a shaking incubator and grow until reaches the exponential phase of growth, the time for this should be determined previously when we do the growth curve but always checked by removing 1ml of each culture and measuring the OD<sub>600</sub> using LB media as a blank.
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#Once the correct OD<sub>600</sub> has been reached then pipette 9x200μl of the ''B.subtilis'' into a 96 well plate following the plate schematic (in total want 3 repeats for each of the 3 cultures). In addition pipette 200μl of 3xLB media into the 96 well plate. Once the plate has been loaded then carefully place sticky tape onto the top of the plate.
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#Once the correct OD<sub>600</sub> has been reached then pipette 9x200μl of the ''B. subtilis'' into a 96 well plate following the plate schematic (in total want 3 repeats for each of the 3 cultures). In addition pipette 200μl of 3xLB media into the 96 well plate. Once the plate has been loaded then carefully place sticky tape onto the top of the plate.
#Place into the plate reader and open the protocol for ''characterisation of constitutive promoters''  and run protocol.
#Place into the plate reader and open the protocol for ''characterisation of constitutive promoters''  and run protocol.
#This needs to be set up to measure the O.D.<sub>600</sub> and fluorescence (488nm excitation filter and 525nm emission filter) every 10 minutes for an hour (What do we think of these data collection settings).
#This needs to be set up to measure the O.D.<sub>600</sub> and fluorescence (488nm excitation filter and 525nm emission filter) every 10 minutes for an hour (What do we think of these data collection settings).
#Once data is collected dispose of the 96 well plate into the autoclaved rubbish bins (white).
#Once data is collected dispose of the 96 well plate into the autoclaved rubbish bins (white).
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Erika says: Can we not innoculate and put straight into the plate reader? Why do we have to wait until exponential phase?
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{{Imperial/EndPage|Protocols|Protocols}}
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J-Yeah we can put it in straight away and see what happens. My only concern is that I do not know how happy the bacteria will grow in the plate. The population is small but the available media is limited. Clearly this needs to be determined.
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Can the plate reader measure OD? That ''would'' be handy.
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-Yes we measure the O.D.<sub>600</sub>
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{{Imperial/EndPage|Protocols|}}
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Latest revision as of 17:43, 28 October 2008


Characterization of Constitutive Expression
Aims
  • To characterise the constitutive promoter and RBS combinations. This protocol is concerned with characterisation of the steady-state expression of GFPmut3b under the control of the 4 different promoter-RBS combinations. We will be measuring the fluorescence and O.D.600 of the cultures and normalizing our data to the units of rate of molecules of GFPmut3b synthesised per cell per min/sec.
  • In addition, from comparison of the rate of expression we should be able to determine the relative strength of the RBS.
  • With the data on the characterisation of the promoter-RBS combinations, we will be able to make an informed decision on which combination we should use for our future test constructs.
  • The protocol below describes what is needed for one combination of promoter and RBS, we will need to carry this out for all the combinations.
  • Normally we are only concerned with the steady state expression of a constitutive promoter. However, the conditions under which we measure this could change, for example what media the B.subtilis is grown in. In addition, we may wish to see how the strength of expression changes during the growth of the B.subtilis. This could be achieved by measuring the change in fluorescence between the different growth phases.
Equipment
  • Fluorometer + PC
  • Pipette gun
  • Gilson p20,p200,p1000
  • Spectrometer
  • Shaking incubator
Reagents and Materials
  • 1 x 96 well Fluorometer Plate (See through bottom)
  • Sticky plate lid
  • Cuvettes
  • 4x20ml of Autoclaved LB media in a 200ml flask Containing suitable antibiotics
Protocol

Day 1

  1. Collect 10ml of LB media (containing suitable antibiotics) into a 100ml flask. Inoculate the media with a single colony from a B.subtilis plate (transformed with correct construct) and grow overnight at 37oC.

Day 2

  1. Collect 3 x 200ml flasks containing 20ml of LB media (containing suitable antibiotics) and remove 1ml of the media and pipette into a blank cuvette (this is to make the LB blank). Remove 1ml of the overnight culture and measure the O.D.600
  2. Dilute the overnight culture 1 in 10 (2ml per culture) in 3 x 20ml of fresh LB media containing suitable antibiotics . Mix thoroughly and remove 1ml of the culture and measure the OD600. Place into a shaking incubator and grow until reaches the exponential phase of growth, the time for this should be determined previously when we do the growth curve but always checked by removing 1ml of each culture and measuring the OD600 using LB media as a blank.
  3. Once the correct OD600 has been reached then pipette 9x200μl of the B. subtilis into a 96 well plate following the plate schematic (in total want 3 repeats for each of the 3 cultures). In addition pipette 200μl of 3xLB media into the 96 well plate. Once the plate has been loaded then carefully place sticky tape onto the top of the plate.
  4. Place into the plate reader and open the protocol for characterisation of constitutive promoters and run protocol.
  5. This needs to be set up to measure the O.D.600 and fluorescence (488nm excitation filter and 525nm emission filter) every 10 minutes for an hour (What do we think of these data collection settings).
  6. Once data is collected dispose of the 96 well plate into the autoclaved rubbish bins (white).


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