Team:Tokyo Tech/DataPage.htm

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Modeling
Modeling
<ul>
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<li><a href="https://2011.igem.org/Team:Tokyo_Tech/Modeling/Urea-cooler/urea-cooler">Urea Coolers</li>
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More
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<li><a href="https://2011.igem.org/Team:Tokyo_Tech/Safety">Safety</a></li>
<li><a href="https://2011.igem.org/Team:Tokyo_Tech/Safety">Safety</a></li>
<li><a href="https://2011.igem.org/Team:Tokyo_Tech/Attribution_and_Contributions.htm">Attribution and Contributions</a></li>
<li><a href="https://2011.igem.org/Team:Tokyo_Tech/Attribution_and_Contributions.htm">Attribution and Contributions</a></li>
<li><a href="https://2011.igem.org/Team:Tokyo_Tech/notebook">NoteBook</a></li>
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<h2 id="system">1. How our system Works</h2>
<h2 id="system">1. How our system Works</h2>
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<img src="https://static.igem.org/mediawiki/2011/7/71/Allinone.png" alt="allinone"  width="800px"　/>
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<img src="https://static.igem.org/mediawiki/2011/2/20/Allinone1.png" alt="allinone"  width="800px"　/>
<h2 id="new_parts">2. Data For Our Favorite New Parts</h2>
<h2 id="new_parts">2. Data For Our Favorite New Parts</h2>
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<li>     
<li>     
<a href="http://partsregistry.org/Part:BBa_K649001">BBa_K649001</a>
<a href="http://partsregistry.org/Part:BBa_K649001">BBa_K649001</a>
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-- GFP regulated by 3OC12-HSL and LasR,  BBa_K649001:<br />
+
-- <b>GFP regulated by 3OC12-HSL and LasR</b><br />
in the presence of 3OC12-HSL, lasI promoter can be induced to express a marker gene(<span class="gene">gfp</span>).
in the presence of 3OC12-HSL, lasI promoter can be induced to express a marker gene(<span class="gene">gfp</span>).
</li>
</li>
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<li>
<li>
<a href="http://partsregistry.org/Part:BBa_K649202">BBa_K649202</a>
<a href="http://partsregistry.org/Part:BBa_K649202">BBa_K649202</a>
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-- PlacIQ-lox71-rbs-rfp-TT-lox66-rbs-gfp-TT, BBa_K649202:<br />
+
-- <b>PlacIQ-<i>lox71</i>-rbs-<span class="gene">rfp</span>-<i>lox66</i>-rbs-<span class="gene">gfp</span></b><br />
-
in the presence of Cre, a marker gene (<span class="gene">rfp</span>) between lox71 and lox66 is knockout, and a marker gene (<span class="gene">gfp</span>) is expressed.
+
in the presence of Cre, a marker gene (<span class="gene">rfp</span>) between <i>lox71</i> and <i>lox66</i> is knockout, and a marker gene (<span class="gene">gfp</span>) is expressed.
</li>
</li>
<li>
<li>
<a href="http://partsregistry.org/Part:BBa_K649301">BBa_K649301</a>
<a href="http://partsregistry.org/Part:BBa_K649301">BBa_K649301</a>
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-- Ptrc-rbs-rocF, BBa_K649301:<br />
+
-- <b>Ptrc-rbs-<span class="gene">rocF</span></b><br />
because arginase is constitutively expressed, the expression level of urea in <span class="name">E. coli</span> transformed with BBa_K649301 was higher than geneless <span class="name">E. coli</span>.
because arginase is constitutively expressed, the expression level of urea in <span class="name">E. coli</span> transformed with BBa_K649301 was higher than geneless <span class="name">E. coli</span>.
</li>
</li>
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<li>
<li>
<a href="http://partsregistry.org/Part:BBa_J64010:Experience">BBa_J64010:Experience</a>
<a href="http://partsregistry.org/Part:BBa_J64010:Experience">BBa_J64010:Experience</a>
-
-- lasI promoter, BBa_J64010 (Voigt Lab, 2007):<br />
+
-- <b>lasI promoter</b>, BBa_J64010 (Voigt Lab, 2007)<br />
-
fluorescence intensity of PlasI (BBa_J64010) -gfp did not change before and after 3OC12-HSL induction.
+
fluorescence intensity of PlasI (BBa_J64010) -<span class="gene">gfp</span> did not change before and after 3OC12-HSL induction.
</li>  
</li>  
<li>
<li>
<a href="http://partsregistry.org/Part:BBa_I751101:Experience">BBa_I751101:Experience</a>
<a href="http://partsregistry.org/Part:BBa_I751101:Experience">BBa_I751101:Experience</a>
-
-- J540140 dPr + hybrid promoter (Plux-lac), BBa_I751101 (Tokyo Tech, 2007):<br />
+
-- <b>J540140 dPr + hybrid promoter (Plux-lac)</b>, BBa_I751101 (Tokyo Tech, 2007)<br />
fluorescence intensity of BBa_I751101 was increased by both 3OC6-HSL induction and IPTG induction.
fluorescence intensity of BBa_I751101 was increased by both 3OC6-HSL induction and IPTG induction.
</li>
</li>
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<li>
<li>
<a href="http://partsregistry.org/Part:BBa_K117002:Experience">BBa_K117002:Experience</a>
<a href="http://partsregistry.org/Part:BBa_K117002:Experience">BBa_K117002:Experience</a>
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-- LsrA promoter (indirectly activated by AI-2), BBa_K117002 (NTU-Singapore, 2008):<br />
+
-- <b>LsrA promoter (indirectly activated by AI-2)</b>, BBa_K117002 (NTU-Singapore, 2008)<br />
-
in the absence of LsrR, fluorescence intensity of PlsrA (BBa_K117002) -- gfp was lower than that of promoterless negative control.
+
in the absence of LsrR, fluorescence intensity of PlsrA (BBa_K117002) -<span class="gene">gfp</span> was lower than that of promoterless negative control.
</li>
</li>
</ul>
</ul>
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<ul>
<ul>
<li>
<li>
-
<a href="http://partsregistry.org/Part:BBa_K649104">Main Page</a>
+
<a href="http://partsregistry.org/Part:BBa_K649104">BBa_K649104</a>
-
-- PlsrA-rbs-gfp, BBa_K649104:<br />
+
-- <b>PlsrA-rbs-<span class="gene">gfp</span></b><br />
-
in the absence of LsrR, fluorescence intensity of BBa_K649104 was much higher than promoterless-gfp (negative control).
+
in the absence of LsrR, fluorescence intensity of BBa_K649104 was much higher than promoterless-<span class="gene">gfp</span> (negative control).
</li>
</li>
<li>  
<li>  
-
<a href="http://partsregistry.org/Part:BBa_K649105">Main Page</a>
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<a href="http://partsregistry.org/Part:BBa_K649105">BBa_K649105</a>
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-- PlsrA-rbs-gfp-TT-PlsrR-rbs-lsrR, BBa_K649105:<br />
+
-- <b>PlsrA-rbs-<span class="gene">gfp</span>-TT-PlsrR-rbs-<span class="gene">lsrR</span></b><br />
PlsrA (BBa_K649100) was repressed by LsrR and fluorescence intensity of BBa-K649105 decreased 3-fold.
PlsrA (BBa_K649100) was repressed by LsrR and fluorescence intensity of BBa-K649105 decreased 3-fold.
</li>
</li>
<li>
<li>
-
<a href="http://partsregistry.org/Part:BBa_K649200">Main Page</a>
+
<a href="http://partsregistry.org/Part:BBa_K649200">BBa_K649200</a>
-
-- PlacIQ-lox2272-rbs-gfp-lox2272, BBa_K649200:<br />
+
-- <b>PlacIQ-<i>lox2272</i>-rbs-<span class="gene">gfp</span>-<i>lox2272</i></b><br />
-
in the presence of Cre, a marker gene (<span class="gene">gfp</span>) between two lox2272 is knockout, and fluorescence intensity was decreased.
+
in the presence of Cre, the sequence between two <i>lox2272</i> is knockout.
</li>
</li>
-
 
<li>
<li>
-
<a href="http://partsregistry.org/Part:BBa_K649201">Main Page</a>
+
<a href="http://partsregistry.org/Part:BBa_K649201">BBa_K649201</a>
-
-- PlacIQ-lox2272-rbs-rfp-TT-lox2272-rbs-gfp, BBa_K649201:<br />
+
-- <b>PlacIQ-<i>lox2272</i>-rbs-<span class="gene">rfp</span>-<i>lox2272</i>-rbs-<span class="gene">gfp</span></b><br />
-
in the presence of Cre, a marker gene (<span class="gene">rfp</span>) between two lox2272 is knockout, and a marker gene (<span class="gene">gfp</span>) is expressed.
+
in the presence of Cre, a marker gene (<span class="gene">rfp</span>) between two <i>lox2272</i> is knockout, and a marker gene (<span class="gene">gfp</span>) is expressed.
 +
</li>
 +
                <li>
 +
<a href="http://partsregistry.org/Part:BBa_K649303">BBa_K649303</a>
 +
-- <b>PlacIQ-rbs-<i>ispS</i></b><br />
 +
we confirmed that <span class="name">E. coli</span> introduced <i>ispS</i> produced isoprene, by means of using electron-ionization Gas Chromatography-Mass Spectrometry equipment.
 +
</li>
 +
                <li>
 +
<a href="http://partsregistry.org/Part:BBa_K649401">BBa_K649401</a>
 +
-- <b>Arg box</b><br />
 +
because Arg Box is the arginine operator which the arginine repressor can bind to, the expression level of urea in <span class="name">E. coli</span> transformed with BBa_K649401 was higher than mock <span class="name">E. coli</span>.
</li>
</li>
-
 
<li>
<li>
-
<a href="http://partsregistry.org/Part:BBa_K649402">Main Page</a>
+
<a href="http://partsregistry.org/Part:BBa_K649402">BBa_K649402</a>
-
-- Ptrc-RBS-rocF-Arg box, BBa_K649402:<br />
+
-- <b>Ptrc-rbs-<span class="gene">rocF</span>-Arg box</b><br />
-
because Arg Box is the arginine operator capable of binding the arginine repressor, the expression level of urea in <span class="name">E. coli</span> transformed with  
+
because we transformed <span class="name">E. coli</span> with BBa_K649402 on low copy plasmid, Arg box did not replicated adequately and we could not confirm whether Arg box was working or not.
-
BBa_K649402 was higher than geneless <span class="name">E. coli</span>.
+
</li>
</li>
 +
             
</ul>
</ul>

Latest revision as of 13:15, 28 October 2011

Tokyo Tech 2011

Data page

This page shows a list of all the parts that we have made or used in the project. Click on the link for each part to see more details about that part on the Registry of Standard Biological Parts. For a brief overview of our main results, please have a look at our Main Results page.

1. How our system Works

allinone

2. Data For Our Favorite New Parts

  • BBa_K649001 -- GFP regulated by 3OC12-HSL and LasR
    in the presence of 3OC12-HSL, lasI promoter can be induced to express a marker gene(gfp).
  • BBa_K649202 -- PlacIQ-lox71-rbs-rfp-lox66-rbs-gfp
    in the presence of Cre, a marker gene (rfp) between lox71 and lox66 is knockout, and a marker gene (gfp) is expressed.
  • BBa_K649301 -- Ptrc-rbs-rocF
    because arginase is constitutively expressed, the expression level of urea in E. coli transformed with BBa_K649301 was higher than geneless E. coli.

3. Data For Pre-existing Parts

  • BBa_J64010:Experience -- lasI promoter, BBa_J64010 (Voigt Lab, 2007)
    fluorescence intensity of PlasI (BBa_J64010) -gfp did not change before and after 3OC12-HSL induction.
  • BBa_I751101:Experience -- J540140 dPr + hybrid promoter (Plux-lac), BBa_I751101 (Tokyo Tech, 2007)
    fluorescence intensity of BBa_I751101 was increased by both 3OC6-HSL induction and IPTG induction.
  • BBa_K117002:Experience -- LsrA promoter (indirectly activated by AI-2), BBa_K117002 (NTU-Singapore, 2008)
    in the absence of LsrR, fluorescence intensity of PlsrA (BBa_K117002) -gfp was lower than that of promoterless negative control.

4. We’ve Also Characterized the Following Parts

  • BBa_K649104 -- PlsrA-rbs-gfp
    in the absence of LsrR, fluorescence intensity of BBa_K649104 was much higher than promoterless-gfp (negative control).
  • BBa_K649105 -- PlsrA-rbs-gfp-TT-PlsrR-rbs-lsrR
    PlsrA (BBa_K649100) was repressed by LsrR and fluorescence intensity of BBa-K649105 decreased 3-fold.
  • BBa_K649200 -- PlacIQ-lox2272-rbs-gfp-lox2272
    in the presence of Cre, the sequence between two lox2272 is knockout.
  • BBa_K649201 -- PlacIQ-lox2272-rbs-rfp-lox2272-rbs-gfp
    in the presence of Cre, a marker gene (rfp) between two lox2272 is knockout, and a marker gene (gfp) is expressed.
  • BBa_K649303 -- PlacIQ-rbs-ispS
    we confirmed that E. coli introduced ispS produced isoprene, by means of using electron-ionization Gas Chromatography-Mass Spectrometry equipment.
  • BBa_K649401 -- Arg box
    because Arg Box is the arginine operator which the arginine repressor can bind to, the expression level of urea in E. coli transformed with BBa_K649401 was higher than mock E. coli.
  • BBa_K649402 -- Ptrc-rbs-rocF-Arg box
    because we transformed E. coli with BBa_K649402 on low copy plasmid, Arg box did not replicated adequately and we could not confirm whether Arg box was working or not.

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