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<div id="contents_menu"> | <div id="contents_menu"> | ||
<h3 class="link"><a href="#introduction">1. Introduction</a></h3> | <h3 class="link"><a href="#introduction">1. Introduction</a></h3> | ||
− | <h3 class="link"><a href="#summary">2. Summary of the | + | <h3 class="link"><a href="#summary">2. Summary of the experiment</a></h3> |
<h3 class="link"><a href="#results">3. Results</a></h3> | <h3 class="link"><a href="#results">3. Results</a></h3> | ||
<h3 class="link"><a href="#discussion">4. Discussion</a></h3> | <h3 class="link"><a href="#discussion">4. Discussion</a></h3> | ||
− | <h3 class="link"><a href="#methods">5. Materials and | + | <h3 class="link"><a href="#methods">5. Materials and methods</a></h3> |
<h3 class="link"><a href="#construction"><font size="2.7"> 5-1. Construction</font></a></h3> | <h3 class="link"><a href="#construction"><font size="2.7"> 5-1. Construction</font></a></h3> | ||
− | <h3 class="link"><a href="#protocol"><font size="2.7"> 5-2. Assay | + | <h3 class="link"><a href="#protocol"><font size="2.7"> 5-2. Assay protocol</font></a></h3> |
<h3 class="link"><a href="#reference">6. Reference</a></h3> | <h3 class="link"><a href="#reference">6. Reference</a></h3> | ||
</div><!-- /contents_menu --> | </div><!-- /contents_menu --> | ||
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</div><!-- /_header --> | </div><!-- /_header --> | ||
<div id="introduction_contents" class="container_contents"> | <div id="introduction_contents" class="container_contents"> | ||
− | <p class="normal_text">“Magic Mirror on the wall, who is the fairest one of all?” | + | <p class="normal_text">“Magic Mirror on the wall, who is the fairest one of all?” |
− | + | Snow White begins with the scene where Magic Mirror replies that “Snow White is the fairest one.” If Magic Mirror did not reply as above, Snow White would not begin. | |
+ | </p> | ||
<p class="normal_text">We analyzed the cold inducible promoter (Pcold: <a href="http://parts.igem.org/Part:BBa_K1949000">BBa_K1949000</a>) as a starter of Snow White and found that expression from Pcold was induced at 18°C compared to 37°C.</p> | <p class="normal_text">We analyzed the cold inducible promoter (Pcold: <a href="http://parts.igem.org/Part:BBa_K1949000">BBa_K1949000</a>) as a starter of Snow White and found that expression from Pcold was induced at 18°C compared to 37°C.</p> | ||
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<div id="summary" class="container"> | <div id="summary" class="container"> | ||
<div id="id_header" class="container_header"> | <div id="id_header" class="container_header"> | ||
− | <h2><span>2. Summary of the | + | <h2><span>2. Summary of the experiment</span></h2> |
</div><!-- /_header --> | </div><!-- /_header --> | ||
<div id="summary_contents" class="container_contents"> | <div id="summary_contents" class="container_contents"> | ||
− | <p class="normal_text">The purpose of this experiment is to characterize temperature dependence of Pcold by comparing the expression level of a reporter gene, | + | <p class="normal_text">The purpose of this experiment is to characterize temperature-dependence of Pcold by comparing the expression level of a reporter gene, gfp, at 18°C with that at 37°C. We prepared three transformants shown below.<br> |
− | + | <p class="normal_text">A. Pcold ‐ <span style="font-style : italic">gfp</span> (pSB1C3)<br> | |
− | + | ||
− | + | <div align="center"><img src="https://static.igem.org/mediawiki/2016/0/0b/Fig.3-4-1-2-1.png"height="150"><br></div> | |
+ | <div align="center"><p class="caption" style="font-size: 16px; text-align: center;"><span style="font-weight: bold;">Fig. 3-4-1-2-1 </span>Pcon ‐ <i>gfp</i> (pSB1C3)</p></div> | ||
+ | |||
+ | <p class="normal_text">B. Positive Cntrol : Pcon ‐ <span style="font-style : italic">rbs ‐ gfp</span> (pSB1C3)<br> | ||
+ | |||
+ | <div align="center"><img src="https://static.igem.org/mediawiki/2016/b/bf/Fig.3-4-1-2-2.png"height="150"><br></div> | ||
+ | <div align="center"><p class="caption" style="font-size: 16px; text-align: center;"><span style="font-weight: bold;">Fig. 3-4-1-2-2 </span>Pcon ‐ <i>rbs ‐ gfp</i> (pSB1C3)</p></div> | ||
+ | |||
+ | <p class="normal_text">C. Negative Control : empty vector (pSB1C3) | ||
+ | |||
+ | <div align="center"><img src="https://static.igem.org/mediawiki/2016/9/9c/Fig.3-4-1-2-3.png"height="150"><br></div> | ||
+ | <div align="center"><p class="caption" style="font-size: 16px; text-align: center;"><span style="font-weight: bold;">Fig. 3-4-1-2-3 </span>empty vector (pSB1C3)</p></div> | ||
+ | |||
</p> | </p> | ||
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<div id="results_contents" class="container_contents"> | <div id="results_contents" class="container_contents"> | ||
<p class="normal_text">RFU of GFP / Turbidity of each sample is measured at 18°C and 37°C. The results are shown below.</p> | <p class="normal_text">RFU of GFP / Turbidity of each sample is measured at 18°C and 37°C. The results are shown below.</p> | ||
− | <div align="center"><img src=" | + | <div align="center"><img src="https://static.igem.org/mediawiki/2016/9/9e/Fig.3-4-1-3-1.png"height="300"><br></div> |
− | <div align="center"><p class="caption" style="font-size: 16px; text-align: center;"><span style="font-weight: bold;">Fig. 3-4-1- </span> | + | <div align="center"><p class="caption" style="font-size: 16px; text-align: center;"><span style="font-weight: bold;">Fig. 3-4-1-3-1 </span>Pcold is a cold inducible promoter</p></div> |
− | <p class="normal_text">These graphs show RFU of GFP / Turbidity per cells | + | <div align="center"><img src="https://static.igem.org/mediawiki/2016/archive/4/4c/20161019082614%21Fig.3-4-1-3-2.png"height="300"><br></div> |
− | + | <div align="center"><p class="caption" style="font-size: 16px; text-align: center;"><span style="font-weight: bold;">Fig. 3-4-1-3-2 </span>Activity of Pcon</p></div> | |
− | + | ||
− | + | <p class="normal_text">These graphs show RFU of GFP / Turbidity per cells at indicated time points after the temperature down-shift. The error bar represents the standard deviation from the triplicated data which are derived from three independent colonies, respectively.<br> | |
− | + | RFU of GFP / Turbidity of GFP induced by the promoter was calculated by subtracting RFU of GFP / Turbidity of negative control at each temperature from the fluorescence intensities of Pcold ‐<span style="font-style : italic"> gfp</span> and Pcon ‐<span style="font-style : italic">rbs ‐ gfp</span>. The proportion of RFU of GFP / Turbidity at 18°C to RFU of GFP / Turbidity at 37°C about each sample was calculated.</p> | |
+ | <p class="normal_text">Concerning Pcold, it was found that RFU of GFP / Turbidity at 18°C was about eight times as much as that at 37°C. On the other hand, concerning Pcon, RFU of GFP / Turbidity at 18°C was about twice as much as RFU of GFP / Turbidity at 37°C. It is concluded that Pcold is a cold inducible promoter compared with Pcon of which expression is caused constantly.</p> | ||
</div><!-- /results_contents --> | </div><!-- /results_contents --> | ||
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<div id="discussion_contents" class="container_contents"> | <div id="discussion_contents" class="container_contents"> | ||
<p class="normal_text"> | <p class="normal_text"> | ||
− | Snow White project attempts to | + | Snow White project attempts to insert a Pcold ‐ <span style="font-style : italic">rhlI</span> plasmid into the Magic Mirror <span style="font-style : italic">coli</span> and to use the Magic Mirror <span style="font-style : italic">coli</span> as a starter of the story. The Magic Mirror <span style="font-style : italic">coli</span> cultured at 37°C hardly produces RhlI protein and C4, which is produced by RhlI. C4 starts to accumulate when Snow White <span style="font-style : italic">coli</span> is cultured at low temperatures like 18°C. In this way, Pcold works as expected when it is introduced into the Magic Mirror <span style="font-style : italic">coli</span>. |
</p> | </p> | ||
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<div id="methods" class="container"> | <div id="methods" class="container"> | ||
<div id="methods_header" class="container_header"> | <div id="methods_header" class="container_header"> | ||
− | <h2><span>5. Materials and | + | <h2><span>5. Materials and methods</span></h2> |
</div><!-- /_header --> | </div><!-- /_header --> | ||
<div id="methods_contents" class="container_contents"> | <div id="methods_contents" class="container_contents"> | ||
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All the sample were BL21(DE3) strain</p> | All the sample were BL21(DE3) strain</p> | ||
<p class="normal_text">-Plasmids<br> | <p class="normal_text">-Plasmids<br> | ||
− | -Pcold | + | -Pcold ‐ <span style="font-style : italic">gfp</span> (pSB1C3)(<a href="http://parts.igem.org/Part:BBa_K1949001">BBa_K1949001</a>)<br> |
− | -Positive Control: Pcon | + | -Positive Control: Pcon ‐ <span style="font-style : italic">rbs ‐ gfp</span> (pSB1C3)<br> |
-Negative Control: empty vector (pSB1C3) | -Negative Control: empty vector (pSB1C3) | ||
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<div id="protocol"> | <div id="protocol"> | ||
<div id="protocol_header"> | <div id="protocol_header"> | ||
− | <h3><span>5-2. Assay | + | <h3><span>5-2. Assay protocol</span></h3> |
</div><!-- /_header --> | </div><!-- /_header --> | ||
<div id="methods_contents"> | <div id="methods_contents"> | ||
<p class="normal_text"><br>1. Prepare overnight cultures for each sample in 3 mL LB medium containing chloramphenicol (34 microg / mL) at 37ºC for 12 h.<br><br> | <p class="normal_text"><br>1. Prepare overnight cultures for each sample in 3 mL LB medium containing chloramphenicol (34 microg / mL) at 37ºC for 12 h.<br><br> | ||
− | 2. Dilute the overnight cultures in 3 mL fresh LB medium containing chloramphenicol (34 microg/mL) so that the turbidity becomes around 0. | + | 2. Dilute the overnight cultures in 3 mL fresh LB medium containing chloramphenicol (34 microg/mL) so that the turbidity becomes around 0.05 in triplicate (fresh culture).<br> <br> |
− | 3. Incubate the triplicated fresh cultures each at 28ºC so that the turbidity reaches 0. | + | 3. Incubate the triplicated fresh cultures each at 28ºC so that the turbidity reaches 0.1 to 0.12<br><br> |
− | 4. Incubate the triplicated fresh cultures each in water and ice bath for | + | 4. Incubate the triplicated fresh cultures each in water and ice bath for 2 min.<br><br> |
5. Incubate the triplicated fresh cultures each at 18ºC, and 37ºC for each sample for 3 h.<br><br> | 5. Incubate the triplicated fresh cultures each at 18ºC, and 37ºC for each sample for 3 h.<br><br> | ||
6. Measure the turbidity and RFU of GFP / Turbidity. | 6. Measure the turbidity and RFU of GFP / Turbidity. | ||
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</div><!-- /reference --> | </div><!-- /reference --> | ||
+ | <div id="next_page" class="container"> | ||
+ | <div id="next_page_contents" class="container_contents"> | ||
+ | <p class="normal_text">Jump to <a href="https://2016.igem.org/Team:Tokyo_Tech/Promoter_Assay/Pheat">Pheat assay</a> page.</p> | ||
+ | </div><!-- /next_page_contents --> | ||
+ | </div><!-- /next_page --> | ||
+ | </div><!-- /main_contents --> | ||
</body> | </body> | ||
</html> | </html> |
Latest revision as of 12:20, 6 November 2016
2-4-1 Pcold assay
Contents
1. Introduction
“Magic Mirror on the wall, who is the fairest one of all?” Snow White begins with the scene where Magic Mirror replies that “Snow White is the fairest one.” If Magic Mirror did not reply as above, Snow White would not begin.
We analyzed the cold inducible promoter (Pcold: BBa_K1949000) as a starter of Snow White and found that expression from Pcold was induced at 18°C compared to 37°C.
2. Summary of the experiment
The purpose of this experiment is to characterize temperature-dependence of Pcold by comparing the expression level of a reporter gene, gfp, at 18°C with that at 37°C. We prepared three transformants shown below.
A. Pcold ‐ gfp (pSB1C3)
B. Positive Cntrol : Pcon ‐ rbs ‐ gfp (pSB1C3)
C. Negative Control : empty vector (pSB1C3)
3. Results
RFU of GFP / Turbidity of each sample is measured at 18°C and 37°C. The results are shown below.
These graphs show RFU of GFP / Turbidity per cells at indicated time points after the temperature down-shift. The error bar represents the standard deviation from the triplicated data which are derived from three independent colonies, respectively.
RFU of GFP / Turbidity of GFP induced by the promoter was calculated by subtracting RFU of GFP / Turbidity of negative control at each temperature from the fluorescence intensities of Pcold ‐ gfp and Pcon ‐rbs ‐ gfp. The proportion of RFU of GFP / Turbidity at 18°C to RFU of GFP / Turbidity at 37°C about each sample was calculated.
Concerning Pcold, it was found that RFU of GFP / Turbidity at 18°C was about eight times as much as that at 37°C. On the other hand, concerning Pcon, RFU of GFP / Turbidity at 18°C was about twice as much as RFU of GFP / Turbidity at 37°C. It is concluded that Pcold is a cold inducible promoter compared with Pcon of which expression is caused constantly.
4. Discussion
Snow White project attempts to insert a Pcold ‐ rhlI plasmid into the Magic Mirror coli and to use the Magic Mirror coli as a starter of the story. The Magic Mirror coli cultured at 37°C hardly produces RhlI protein and C4, which is produced by RhlI. C4 starts to accumulate when Snow White coli is cultured at low temperatures like 18°C. In this way, Pcold works as expected when it is introduced into the Magic Mirror coli.
5. Materials and methods
5-1. Construction
-Strain
All the sample were BL21(DE3) strain
-Plasmids
-Pcold ‐ gfp (pSB1C3)(BBa_K1949001)
-Positive Control: Pcon ‐ rbs ‐ gfp (pSB1C3)
-Negative Control: empty vector (pSB1C3)
5-2. Assay protocol
1. Prepare overnight cultures for each sample in 3 mL LB medium containing chloramphenicol (34 microg / mL) at 37ºC for 12 h.
2. Dilute the overnight cultures in 3 mL fresh LB medium containing chloramphenicol (34 microg/mL) so that the turbidity becomes around 0.05 in triplicate (fresh culture).
3. Incubate the triplicated fresh cultures each at 28ºC so that the turbidity reaches 0.1 to 0.12
4. Incubate the triplicated fresh cultures each in water and ice bath for 2 min.
5. Incubate the triplicated fresh cultures each at 18ºC, and 37ºC for each sample for 3 h.
6. Measure the turbidity and RFU of GFP / Turbidity.
6. Reference
[1] Nakashima N and Tamura T. Cell-free protein synthesis using cell extract of Pseudomonas fluorescence and CspA promoter. Biochemical and Biophysical Research Communications. Biochem Biophys Res Commun. 2004 Jun 25;319(2):671-6.
Jump to Pheat assay page.