Team:Tokyo Tech

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<p>For iGEM 2010 teams are asked to detail how they approached any issues of biological safety associated with their projects. Specifically, teams should consider the following four questions:</p>
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<p>Q1. Would any of your project ideas raise safety issues in terms of researcher safety, public safety or environmental safety ?</p>
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<p>A1. For review of our applications by a local biosafety group, researcher safety, public safety and environmental safety are evaluated.<br />
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.name
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In this meaning, our answer is all YES.</p>
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{
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<p>Q2. Do any of the new BioBrick parts (or devices) that you made this year raise any safety issues? If yes,</p>
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font-style: italic;
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<p>A2.No. Our parts are of safety level one and two. We used genes which are analyzed in peer-reviewed papers.</p>
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}
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<p>Q3. Is there a local biosafety group, committee, or review board at your institution?</p>
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<p>A3. Yes</p>
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<p>If yes, what does your local biosafety group think about your project?</p>
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<p>The biosafety committee of our organization accepted our applications. They think our project is legal.</p>
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<p>Q4. Do you have any other ideas how to deal with safety issues that could be useful for future iGEM competitions? How could parts, devices and systems be made even safer through biosafety engineering</p>
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<p>A4.Put document number of a review sheet from the local biosafety group.</p>
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<li><a href="https://2011.igem.org/Team:Tokyo_Tech/Projects/making-rain/index.htm">Make it Rain</a></li>
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<li><a href="https://2011.igem.org/Team:Tokyo_Tech/Projects/Urea-cooler/index.htm">Urea Coolers</a></li>
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<li><a href="#Overall"> Overview: Cool down with our RPS Game</a></li>
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<li><a href="#RPS"> Rock-Paper-Scissors (RPS) Game</a></li>
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<li><a href="#rain"> Make it rain</a></li>
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<li><a href="#urea"> Urea Coolers</a></li>
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<li><a href="#manabi"> Human Practice</a></li>
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<h1> iGEM Tokyo Tech 2011 Team </h1>
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<!-- *** End of the alert box *** -->
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<h2 id="Overall"> Overview: Cool down in summer with our Rock-Paper-Scissors Game</h2>
 +
<img src="https://static.igem.org/mediawiki/2011/2/24/Happy-rps.png" width="408px" alt="Project Overview" style="float:right;" />
 +
<p>
 +
When summer comes it brings vacations, so students have plenty time to have fun.
 +
But summer means hot weather! In light of these circumstances,
 +
we designed a game that can be played between<span class="name"> E.coli</span> and humans.
 +
The winner of the game can get refreshing prizes!
 +
Dear students and judges, let us introduce you to the first human-bacteria Rock-Paper-Scissors game!
 +
Win and get a rain shower and a &ldquo;urea cooler&rdquo;!
 +
</p>
 +
 +
<h2 id="RPS"> Rock-Paper-Scissors (RPS) Game </h2>
 +
<img src="https://static.igem.org/mediawiki/2011/1/10/TokyoTech_home_fig2.png" alt="RPS" width="480px" class="fig" />
 +
<p>
 +
So, how to play RPS with a handless bacteria?
 +
Instead of hands, we use different signaling molecules corresponding
 +
either to rock, paper or scissors.
 +
In our set of six signaling molecules, humans use IPTG,
 +
aTc and salicylate, and <span class="name">E. coli</span> uses
 +
3OC6-HSL, 3OC12-HSL and AI-2. In each case,
 +
these signaling molecules correspond to rock, paper and scissors respectively.
 +
</p>
 +
 +
<p>
 +
The next step is to design a way to know who wins the RPS game.
 +
That is when the<span class="name"> E. coli</span> judge team comes in!
 +
Each judge has an AND-gate promoter which produces a single output
 +
based on two inputs, human side and<span class="name"> E.coli</span>
 +
side signaling molecules. Since we want the output to be visible,
 +
we use either GFP, RFP or CFP to indicate whether humans win,
 +
lose or it is a tie, respectively.
 +
</p>
 +
 +
<p>
 +
Lastly, we need to make sure <span  class="name">E. coli</span> follows
 +
the rules of the game by synthetizing only one signaling molecule
 +
every time it plays. Importantly, we have to design the opponent
 +
<span class="name">E. coli</span> to be able to choose its signal
 +
randomly for a fair game, because <span class="name">E. coli</span>
 +
will continue to lose if it always produces the same signaling
 +
molecule. In a view of these needs, we designed three randomizers that
 +
satisfy the conditions for the game:Single Colony Isolation, Survival
 +
of One Strain and Conditional Knockout.
 +
<a href="https://2011.igem.org/Team:Tokyo_Tech/Projects/RPS-game/index.htm">(see more...)</a>
 +
</p>
 +
 +
<h2 id="rain"> Make it Rain </h2>
 +
<img src="https://static.igem.org/mediawiki/2011/7/7b/TokyoTech_home_fig3.png" alt="Raining" width="480px" class="fig" />
 +
<p>
 +
Playing RPS with <span class="name">E. coli</span> during summer was fun, but,
 +
even if humans won, joy did not last long since we soon returned to
 +
complaining about the hot weather. As a prize for humans who win in our RPS game,
 +
we designed an <span class="name">E. coli</span> that can make it rain,
 +
making the hot summer more fun and refreshing (let alone applications in agriculture).
 +
To make it rain, we constructed an isoprene synthetizing <span class="name">E. coli</span>.
 +
Photo-oxidized isoprene acts as a condensation nucleus(Leonardo Silva Santos <i>et al</i>.,2006),
 +
which might cause rain, even in very low concentrations.
 +
<a href="https://2011.igem.org/Team:Tokyo_Tech/Projects/making-rain/index.htm">(see more...)</a>
 +
</p>
 +
 +
<h2 id="urea"> Urea Coolers </h2>
 +
<img src="https://static.igem.org/mediawiki/2011/e/ef/Home-urea.png" alt="Urea cooler" width="480px" class="fig" />
 +
<p>
 +
Coolers can be made by adding urea to water, since dissolving urea in water
 +
is an endothermic reaction (-57.8 cal/g). We can make <span class="name">E.coli</span>
 +
synthetize urea just by introducing a gene encoding arginase!
 +
</p>
 +
<p>
 +
To analyze how we obtain even more urea from our <span class="name">E. coli</span>,
 +
we used elementary flux analysis (Schuste <i>et al.</i>, 2000) to identify
 +
 +
metabolic routes that are both stoichiometrically and thermodynamically
 +
feasible for a group of enzymes. Making use of it we can tell which
 +
 +
                substrates and pathways are the best for obtaining
 +
               
 +
                more urea.<a href="https://2011.igem.org/Team:Tokyo_Tech/Projects/Urea-cooler/index.htm">(see more...)</a>
 +
</p>
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{|align="justify"
+
<h2 id="manabi"> Human Practice </h2>
-
|You can write a background of your team here. Give us a background of your team, the members, etc. Or tell us more about something of your choosing.
+
<img src="https://static.igem.org/mediawiki/2011/2/25/Creating_Perception_1.png" alt="Creating Perception" width="480px" class="fig" />
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|[[Image:Tokyo_Tech_logo.png|200px|right|frame]]
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<p>
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|-
+
We love Synthetic Biology, and to share our passion with other people,
-
|
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we did educational activities as part of our human practices.  
-
''Tell us more about your project.  Give us background. Use this as the abstract of your project. Be descriptive but concise (1-2 paragraphs)''
+
We would like to spread the word about what is made and aimed by synthetic  
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|[[Image:Tokyo_Tech_team.png|right|frame|Your team picture]]
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biology and iGEM. To do so, we created the &ldquo;iGEM Card Game&rdquo; and several  
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|-
+
                posters. We also measured our impact through a survey.
-
|
+
<a href="https://2011.igem.org/Team:Tokyo_Tech/HumanPractice.htm">(see more...)</a>
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|align="center"|[[Team:Tokyo_Tech | Team Example]]
+
</p>
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|}
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<!--- The Mission, Experiments --->
+
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!align="center"|[[Team:Tokyo_Tech|Home]]
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<a onclick="scrollTo(0,0);return false;" onfocus="this.blur();" style="color:#FFFFFF;">Return to Page Top</a>
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!align="center"|[[Team:Tokyo_Tech/Team|Team]]
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!align="center"|[https://igem.org/Team.cgi?year=2011&team_name=Tokyo_Tech Official Team Profile]
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!align="center"|[[Team:Tokyo_Tech/Project|Project]]
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!align="center"|[[Team:Tokyo_Tech/Modeling|Modeling]]
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!align="center"|[[Team:Tokyo_Tech/Notebook|Notebook]]
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!align="center"|[[Team:Tokyo_Tech/Safety|Safety]]
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!align="center"|[[Team:Tokyo_Tech/Attributions|Attributions]]
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Latest revision as of 16:44, 28 October 2011


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iGEM Tokyo Tech 2011 Team

Overview: Cool down in summer with our Rock-Paper-Scissors Game

Project Overview

When summer comes it brings vacations, so students have plenty time to have fun. But summer means hot weather! In light of these circumstances, we designed a game that can be played between E.coli and humans. The winner of the game can get refreshing prizes! Dear students and judges, let us introduce you to the first human-bacteria Rock-Paper-Scissors game! Win and get a rain shower and a “urea cooler”!

Rock-Paper-Scissors (RPS) Game

RPS

So, how to play RPS with a handless bacteria? Instead of hands, we use different signaling molecules corresponding either to rock, paper or scissors. In our set of six signaling molecules, humans use IPTG, aTc and salicylate, and E. coli uses 3OC6-HSL, 3OC12-HSL and AI-2. In each case, these signaling molecules correspond to rock, paper and scissors respectively.

The next step is to design a way to know who wins the RPS game. That is when the E. coli judge team comes in! Each judge has an AND-gate promoter which produces a single output based on two inputs, human side and E.coli side signaling molecules. Since we want the output to be visible, we use either GFP, RFP or CFP to indicate whether humans win, lose or it is a tie, respectively.

Lastly, we need to make sure E. coli follows the rules of the game by synthetizing only one signaling molecule every time it plays. Importantly, we have to design the opponent E. coli to be able to choose its signal randomly for a fair game, because E. coli will continue to lose if it always produces the same signaling molecule. In a view of these needs, we designed three randomizers that satisfy the conditions for the game:Single Colony Isolation, Survival of One Strain and Conditional Knockout. (see more...)

Make it Rain

Raining

Playing RPS with E. coli during summer was fun, but, even if humans won, joy did not last long since we soon returned to complaining about the hot weather. As a prize for humans who win in our RPS game, we designed an E. coli that can make it rain, making the hot summer more fun and refreshing (let alone applications in agriculture). To make it rain, we constructed an isoprene synthetizing E. coli. Photo-oxidized isoprene acts as a condensation nucleus(Leonardo Silva Santos et al.,2006), which might cause rain, even in very low concentrations. (see more...)

Urea Coolers

Urea cooler

Coolers can be made by adding urea to water, since dissolving urea in water is an endothermic reaction (-57.8 cal/g). We can make E.coli synthetize urea just by introducing a gene encoding arginase!

To analyze how we obtain even more urea from our E. coli, we used elementary flux analysis (Schuste et al., 2000) to identify metabolic routes that are both stoichiometrically and thermodynamically feasible for a group of enzymes. Making use of it we can tell which substrates and pathways are the best for obtaining more urea.(see more...)

Human Practice

Creating Perception

We love Synthetic Biology, and to share our passion with other people, we did educational activities as part of our human practices. We would like to spread the word about what is made and aimed by synthetic biology and iGEM. To do so, we created the “iGEM Card Game” and several posters. We also measured our impact through a survey. (see more...)

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