Tokyo/IPTG assay

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__NOTOC__
__NOTOC__
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<br>[[Tokyo/Works|Works top]]  0.[[Tokyo/Works/Hybrid promoter|Hybrid promoter]]  1.[[Tokyo/Works/Formulation |Formulation]]  '''2.[[Tokyo/Works/Assay |Assay1]]'''  3.[[Tokyo/Works/Simulation |Simulation]]  4.[[Tokyo/Works/Assay2 |Assay2]]  5.[[Tokyo/Works/Future works |Future works]]
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<br>[[Tokyo/Works|Works top]]&nbsp;&nbsp;&nbsp;0.[[Tokyo/Works/Hybrid promoter|Hybrid promoter]]&nbsp;&nbsp;&nbsp;1.[[Tokyo/Works/Formulation |Formulation]]&nbsp;&nbsp;&nbsp;'''2.[[Tokyo/Works/Assay |Assay1]]'''&nbsp;&nbsp;&nbsp;3.[[Tokyo/Works/Simulation |Simulation]]&nbsp;&nbsp;&nbsp;4.[[Tokyo/Works/Assay2 |Assay2]]&nbsp;&nbsp;&nbsp;5.[[Tokyo/Works/Future works |Future works]]
<br><br>
<br><br>
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[[Tokyo/Hill function fitting |Purpose of this assay]]  [[Tokyo/AHL assay|1.AHL assay]]  [[Tokyo/IPTG assay|2.IPTG assay]]  [[Tokyo/Preliminary assays |Preliminary assays]]
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[[Tokyo/Hill function fitting |Objective of this assay]]&nbsp;&nbsp;&nbsp;[[Tokyo/AHL assay|Effect of AHL]]&nbsp;&nbsp;&nbsp;[[Tokyo/IPTG assay|Effect of LacI-IPTG]]  [[Tokyo/Preliminary assays |Preliminary assays]]
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== IPTG assay ==
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== LacI-IPTG assay ==
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===Purpose: ===
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===Objective: ===
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<br>To determine the order of the concentration of IPTG necessary for the activation of our lux-lac hybrid promoter in the LacI producing pTrc99A cells.
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<br>By testing how LacI represses lux-lac hybrid promoter, parameters(n3,K3) should be decided. In order to adjust effective concentration of LacI, IPTG was added.  
<br> The order of the concentration is used for more detailed assay with narrower range of the IPTG concentration.
<br> The order of the concentration is used for more detailed assay with narrower range of the IPTG concentration.
===Samples: ===
===Samples: ===
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in DH5 alpha
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<br>A4 pcI([http://partsregistry.org/Part:BBa_I751103 BBa_I751103]) into pTrc99A cell (LacI producing cell)
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<br>A4 ΔP([http://partsregistry.org/Part:BBa_I751100 BBa_I751100]) into pTrc99A cell (LacI producing cell)
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<br>A4 ΔP + Lux-lac hybrid promter ([http://partsregistry.org/Part:BBa_I751101 BBa_I751101]) into pBR322 cell (LacI non-producing cell)
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<br>A4 ΔP + Lux-lac hybrid promter ([http://partsregistry.org/Part:BBa_I751101 BBa_I751101]) into pTrc99A cell (LacI producing cell)
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<br>A4 placQI in pTrc99A
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A LacI-source plasmid, pTrc99A, can be substituted with other pBR-derivatives, such as pET plasmids.
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<br>A4 ΔP in pTrc99A
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<br>Lux-lac hybrid promter + A4 in pBR322
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<br>Lux-lac hybrid promter + A4 in pTrc99A
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===Procedure: ===
===Procedure: ===
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<br>prepare overnight culture for each sample
<br>prepare overnight culture for each sample
<br>make fresh culture  
<br>make fresh culture  
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<br>take 3 ul of the overinight culture into 3 ml of LB (Amp and/or Kan) in Falcon tubes.  
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<br>take 3 ul of the overnight culture into 3 ml of LB (Amp and/or Kan) in Falcon tubes.  
<br>incubate for 2 to 3 hours until the observed OD is around 0.5  
<br>incubate for 2 to 3 hours until the observed OD is around 0.5  
<br>add AHL & IPTG solution  
<br>add AHL & IPTG solution  
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<br>[IPTG]final (in 3 ml LB culture) = 1000, 100, 10, 1, 0.1, 0.01, and 0 mM  
<br>[IPTG]final (in 3 ml LB culture) = 1000, 100, 10, 1, 0.1, 0.01, and 0 mM  
<br>incubate for 2 to 3 hours  
<br>incubate for 2 to 3 hours  
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<br>apply 150 ul of samples into 96-well plaste
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<br>apply 150 ul of samples into 96-well plate
<br>FLA measurement
<br>FLA measurement
===Result & Conclusion: ===
===Result & Conclusion: ===
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[[Image:hill IPTG.JPG|thumb|200px| '''Fig.2: '''IPTG assay graph]]
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[[Image:hill IPTG.JPG|thumb|200px| '''Fig.2: '''Fluorescence intensity as a function of the concentration of IPTG was determined. ]]
As the concentration of IPTG increases, GFP fluorescence increased, indicating that the hybrid promoter in the LacI expressing cell became increasingly strengthened by decreasing repression by LacI. The activation graph in Fig. 2, the characteristics of the hybrid promoter expressed in Hill function is determined.
As the concentration of IPTG increases, GFP fluorescence increased, indicating that the hybrid promoter in the LacI expressing cell became increasingly strengthened by decreasing repression by LacI. The activation graph in Fig. 2, the characteristics of the hybrid promoter expressed in Hill function is determined.
<br>'''n3 = 2.47 (-)'''
<br>'''n3 = 2.47 (-)'''
<br>'''K3 = 0.295 (μM)'''
<br>'''K3 = 0.295 (μM)'''

Latest revision as of 05:09, 27 October 2007


Works top   0.Hybrid promoter   1.Formulation   2.Assay1   3.Simulation   4.Assay2   5.Future works

Objective of this assay   Effect of AHL   Effect of LacI-IPTG  Preliminary assays


LacI-IPTG assay

Objective:


By testing how LacI represses lux-lac hybrid promoter, parameters(n3,K3) should be decided. In order to adjust effective concentration of LacI, IPTG was added.
The order of the concentration is used for more detailed assay with narrower range of the IPTG concentration.

Samples:

in DH5 alpha
A4 pcI([http://partsregistry.org/Part:BBa_I751103 BBa_I751103]) into pTrc99A cell (LacI producing cell)
A4 ΔP([http://partsregistry.org/Part:BBa_I751100 BBa_I751100]) into pTrc99A cell (LacI producing cell)
A4 ΔP + Lux-lac hybrid promter ([http://partsregistry.org/Part:BBa_I751101 BBa_I751101]) into pBR322 cell (LacI non-producing cell)
A4 ΔP + Lux-lac hybrid promter ([http://partsregistry.org/Part:BBa_I751101 BBa_I751101]) into pTrc99A cell (LacI producing cell)

A LacI-source plasmid, pTrc99A, can be substituted with other pBR-derivatives, such as pET plasmids.

Procedure:

Fig.1: As more IPTG is exogenously (externally) added, the fluorescence becomes more intense in the presence of AHL.


prepare overnight culture for each sample
make fresh culture
take 3 ul of the overnight culture into 3 ml of LB (Amp and/or Kan) in Falcon tubes.
incubate for 2 to 3 hours until the observed OD is around 0.5
add AHL & IPTG solution
[AHL]final (in 3 ml LB culture) = 10 nM
[IPTG]final (in 3 ml LB culture) = 1000, 100, 10, 1, 0.1, 0.01, and 0 mM
incubate for 2 to 3 hours
apply 150 ul of samples into 96-well plate
FLA measurement

Result & Conclusion:

Fig.2: Fluorescence intensity as a function of the concentration of IPTG was determined.

As the concentration of IPTG increases, GFP fluorescence increased, indicating that the hybrid promoter in the LacI expressing cell became increasingly strengthened by decreasing repression by LacI. The activation graph in Fig. 2, the characteristics of the hybrid promoter expressed in Hill function is determined.


n3 = 2.47 (-)
K3 = 0.295 (μM)