Team:Tokyo Tech

From 2013.igem.org

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<h1>Abstract</h1>
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Abstract
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Tokyo_tech2013 did experiment class for high school students and enquete to public people as human practice. Then, we noticed that to be easier to understand synthetic biology for general people, we need to prepare an interesting story. So, we thought it, <b>life of ninja</b>.
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<div align="right"><a href="">(go to Human Practice page)</a></div>
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<a href=""><img src="titech2013_home_human-practice-experiment.png" width="200"></a><br>
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<h4>[Fig1. Human Practice experiment]<br>
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We did experiment class for high school students.
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<div align="right"><a href="">(see more)</a></div>
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<a href=""><img src="titech2013_home_human-practice-enquete.png" width="200"></a><br>
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<h4>[Fig2. Human Practice enquete]<br>
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We did enqute in May festibal at University of Tokyo.
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<div align="right"><a href="">(see more)</a></div>
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Ninja is a Japan’s ancient warrior. Usually Ninja disguises himself as an ordinary <b>civilian</b> in public. Once he detects <b>Samurai</b> who is the assassination target, he immediately gets ready for battle. He defeats Samurai with <b>shuriken</b>, throwing knives.
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<iframe width="400" height="300" src="" frameborder="1" allowfullscreen>Coming soon...</iframe>
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In our project, <i>E. ninja</i> heads the cast. <i>E. civilian</i> and <i>E. samurai</i> produce their own signal molecules. Depending on the received signal, <i>E. ninja</i> changes two states: <b>“mimic state”</b> and <b>“attack state”</b>. We aim to design the circuit that contains a bi-stable state and a signal dependent switching part.
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<div align="right"><a href="">(go to Story page)</a></div>
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However, in the case that uses both of signal molecules together, these signals induce a <b>crosstalk</b>. This crosstalk causes wrong state changing. To realize accurate switching, by network engineering, we have circumvented the crosstalk.
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<div align="right"><a href="">(go to State Changing page)</a></div>
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<a href=""><img src="titech2013_home_crosstalk-assay.png" width="200"></a><br>
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<h4>[Fig3. Crosstalk assay]<br>
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This graph shows that Plux/tet hybrid promoter can suppress the crosstalk.
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<div align="right"><a href="">(see more)</a></div>
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<a href=""><img src="titech2013_home_M13phage-plaque.png" width="200"></a><br>
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<h4>[Fig4. M13 phage plaque]<br>
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We confirmed inducible M13 release by plaque assay.
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<div align="right"><a href="">(see more)</a></div>
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<i>E. ninja</i> releases <b>M13 phage</b> as shuriken, when <i>E. ninja</i> is on attack state and receiving <i>E. samurai</i> signal. M13 phage infects <i>E. samurai</i> and causes their suicide.
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<div align="right"><a href="">(go to Shuriken page)</a></div>
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We have also made second-life of ninja. After ninja retires his ninja job, he starts <b>farming</b> in the village. We aim to create farmer <i>E. coli</i>, which can synthesize plant hormone depending on soil environment.
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<div align="right"><a href="">(go to Farming page)</a></div>
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<a href=""><img src="titech2013_home_plant-bioassay.png" width="200"></a><br>
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<h4>[Fig5. Bioassay of plant]<br>
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We learned methods for quantitative analysis for cytokinin, a plant hormone, through bioassay of cucumber seed sprouts.
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<div align="right"><a href="">(see more)</a></div>
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<i>‘Mutant Ninja.coli’</i>
 
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In our project, we propose to create <i>E. coli</i> that mimic some of the qualities of Japan’s ancient ‘ninja’ warrior-spies.
 
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A ninja must receive and pass on correct information at all times. A mistake will be fatal. We have created a circuit that avoids crosstalk between two signals in cell-cell communication, and we are also looking into applications for it.
 
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Ninjas are also known for their ‘shuriken’ throwing knives. Our <i>E. coli</i> ninja has a similar weapon, an M13 phage which it releases to infect other <i>E. coli</i>, injecting plasmid DNA into them.
 
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Finally, ninja must harmonize with the natural environment, so their relationship to it is very important. Plant hormones help plants to grow efficiently, and we are attempting to construct a circuit that synthesizes two plant hormones depending on the soil environment. 
 
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<a href="http://www.cosmobio.co.jp/index_e.asp"><img src="titech2013_home_sponsor_Cosmobio.png" height="150"></a>
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<a href="http://lne.st/en/%E6%9C%80%E5%85%88%E7%AB%AF%E7%A7%91%E5%AD%A6%E3%81%AE%E3%83%AA%E3%83%90%E3%83%8D%E3%82%B9/"><img src="titech2013_home_sponsor_LeaveaNest.png" height="60"></a>
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Tokyo Tech Foundation Enterprise<br>
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Aizawa Foundation<br>
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Mr. Isao Ono<br>
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Mr. Fumio Hombo</div></h2>
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Revision as of 12:20, 23 September 2013

Abstract

Tokyo_tech2013 did experiment class for high school students and enquete to public people as human practice. Then, we noticed that to be easier to understand synthetic biology for general people, we need to prepare an interesting story. So, we thought it, life of ninja.


[Fig1. Human Practice experiment]
We did experiment class for high school students.


[Fig2. Human Practice enquete]
We did enqute in May festibal at University of Tokyo.

Ninja is a Japan’s ancient warrior. Usually Ninja disguises himself as an ordinary civilian in public. Once he detects Samurai who is the assassination target, he immediately gets ready for battle. He defeats Samurai with shuriken, throwing knives.

In our project, E. ninja heads the cast. E. civilian and E. samurai produce their own signal molecules. Depending on the received signal, E. ninja changes two states: “mimic state” and “attack state”. We aim to design the circuit that contains a bi-stable state and a signal dependent switching part.

However, in the case that uses both of signal molecules together, these signals induce a crosstalk. This crosstalk causes wrong state changing. To realize accurate switching, by network engineering, we have circumvented the crosstalk.


[Fig3. Crosstalk assay]
This graph shows that Plux/tet hybrid promoter can suppress the crosstalk.


[Fig4. M13 phage plaque]
We confirmed inducible M13 release by plaque assay.

E. ninja releases M13 phage as shuriken, when E. ninja is on attack state and receiving E. samurai signal. M13 phage infects E. samurai and causes their suicide.

We have also made second-life of ninja. After ninja retires his ninja job, he starts farming in the village. We aim to create farmer E. coli, which can synthesize plant hormone depending on soil environment.


[Fig5. Bioassay of plant]
We learned methods for quantitative analysis for cytokinin, a plant hormone, through bioassay of cucumber seed sprouts.


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