Difference between revisions of "Team:TokyoTech/Medal"

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               <th rowspan="4">Bronze</th>
 
               <th rowspan="4">Bronze</th>
 
               <td class="prize_element_td">Register and attend</td>
 
               <td class="prize_element_td">Register and attend</td>
−
               <td><p class="normal_text">We registered for iGEM, had a great summer, and attended the Giant Jamboree.</p></td>
+
               <td><p style="font-size: 16px">We registered for iGEM, had a great summer, and attended the Giant Jamboree.</p></td>
 
             </tr>
 
             </tr>
 
             <tr>
 
             <tr>
 
               <td class="prize_element_td">Deliverables</td>
 
               <td class="prize_element_td">Deliverables</td>
−
               <td><p class="normal_text">We met all deliverables on the Requirements page.</p></td>
+
               <td><p style="font-size: 16px">We met all deliverables on the Requirements page.</p></td>
 
             </tr>
 
             </tr>
 
             <tr>
 
             <tr>
 
               <td class="prize_element_td">Attribution</td>
 
               <td class="prize_element_td">Attribution</td>
−
               <td><p class="normal_text">We created a page on our team wiki with clear <a href="https://2016.igem.org/Team:Tokyo_Tech/Attributions">attribution</a> of each aspect of our project.</p></td>
+
               <td><p style="font-size: 16px">We created an <a href="https://2017.igem.org/Team:TokyoTech/Attributions">"Attributions"</a> page on our team wiki with clear attribution of each aspect in our project. (Click <a href="https://2017.igem.org/Team:TokyoTech/Attributions">here</a>)</p></td>
 
             </tr>
 
             </tr>
 
             <tr>
 
             <tr>
−
               <td class="prize_element_td">Part</td>
+
               <td class="prize_element_td">Characterization / Contribution</td>
−
               <td><p class="normal_text">We documented 5 new BioBrick Parts (<a href="http://parts.igem.org/Part:BBa_K1949100">BBa_K1949100</a>, <a href="http://parts.igem.org/Part:BBa_K1949101">BBa_K1949101</a>, <a href="http://parts.igem.org/Part:BBa_K1949102">BBa_K1949102</a>, <a href="http://parts.igem.org/Part:BBa_K1949000">BBa_K1949000</a>, <a href="http://parts.igem.org/Part:BBa_K1949001">BBa_K1949001</a>) central to our project and submitted them to the iGEM Registry . <br />
+
               <td><p style="font-size: 16px">We participated in the <a href="https://2017.igem.org/Team:TokyoTech/Interlab">Interlab Measurement Study</a>. (Click <a href="https://2017.igem.org/Team:TokyoTech/Interlab">here</a> to read more.)
−
                <a href="https://2016.igem.org/Team:Tokyo_Tech/Parts">Read more</a></p></td>
+
              <p style="font-size: 16px">
 +
              We also improved the characterization of an existing BioBrick Part and entered this information on that part's Main Page in the Registry.
 +
              </p>
 +
              </td>
 
             </tr>
 
             </tr>
 
             <!-- /Bronze -->
 
             <!-- /Bronze -->
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               <th rowspan="3">Silver</th>
 
               <th rowspan="3">Silver</th>
 
               <td class="prize_element_td">Validated Part</td>
 
               <td class="prize_element_td">Validated Part</td>
−
               <td><p class="normal_text">We experimentally validated and documented 4 new BioBrick Parts/Devices (<a href="http://parts.igem.org/Part:BBa_K1949050">BBa_K1949050</a>, <a href="http://parts.igem.org/Part:BBa_K1949052">BBa_K1949052</a>, <a href="http://parts.igem.org/Part:BBa_K1949030">BBa_K1949030</a>, <a href="http://parts.igem.org/Part:BBa_K1949032">BBa_K1949032</a>) of our own design and construction that work as expected.<br />
+
               <td><p style="font-size: 16px">We experimentally validated and documented new BioBrick Parts/Devices (<a href="http://parts.igem.org/Part:"></a>, <a href="http://parts.igem.org/Part:"></a>, <a href="http://parts.igem.org/"></a>, <a href="http://parts.igem.org/"></a>) of our own design and construction that work as expected.<br /></p></td>
−
                <a href="https://2016.igem.org/Team:Tokyo_Tech/Parts">Read more</a></p></td>
+
 
             </tr>
 
             </tr>
 +
 
             <tr>
 
             <tr>
 
               <td class="prize_element_td">Collaboration</td>
 
               <td class="prize_element_td">Collaboration</td>
−
               <td><p class="normal_text">We helped team <a href="https://2016.igem.org/Team:Tokyo_Tech/Collaborations#collaboration_kait">KAIT_Japan</a> model their system and <a href="https://2016.igem.org/Team:Tokyo_Tech/Collaborations#asij">taught a new high school team ASIJ</a> about modeling.<br />
+
               <td><p style="font-size: 16px">We helped <a href="https://2017.igem.org/Team:Tokyo_Tech/Collaborations#ionis">Team IONIS-Paris</a> with offering a BioBrick part, mentored Team ASIJ Tokyo</a> about the modeling and qualitative analysis and held a practice session with KAIT Japan at Boston University.<br />
−
                <a href="https://2016.igem.org/Team:Tokyo_Tech/Collaborations">Read more</a></p></td>
+
              (Click <a href="https://2017.igem.org/Team:TokyoTech/Collaborations">here</a> to read more.)</p></td>
 
             </tr>
 
             </tr>
 +
 
             <tr>
 
             <tr>
 
               <td class="prize_element_td">Human Practices</td>
 
               <td class="prize_element_td">Human Practices</td>
−
               <td><p class="normal_text">We considered our project from three aspects: <a href="https://2016.igem.org/Team:Tokyo_Tech/Human_Practices#education">education</a>, <a href="https://2016.igem.org/Team:Tokyo_Tech/Human_Practices#ethics"> ethics</a>, and <a href="https://2016.igem.org/Team:Tokyo_Tech/Human_Practices#economy">economy</a>. To achieve this, we have done various outreach activities: School-visits, creating videos and a card game, hosting a symposium of bioethics, developing our original ethics code, and creating devices of protein production control. We also designed some genetic circuits which recreate other versions of Sow White. Through these activities, we could communicate with the public and improve our project from their feedback.<br />
+
               <td><p style="font-size: 16px">We organized a symposium for middle school and high school students, held a workshop at high school to raise the awareness of young generation, attended summer school to learn about the relation between synthetic biology and social epidemiology.<br />
−
                <a href="#human_practice">Read more</a>
+
              (Click <a href="https://2017.igem.org/Team:TokyoTech/HP">here</a> to read more.)
 
               </p></td>
 
               </p></td>
 
             </tr>
 
             </tr>
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               <th rowspan="3">Gold</th>
 
               <th rowspan="3">Gold</th>
 
               <td class="prize_element_td">Integrated Human Practices</td>
 
               <td class="prize_element_td">Integrated Human Practices</td>
−
               <td><p class="normal_text">We held many activities in respect to our three aspects: education, ethics and economy. For example, we gave lessons to the students at 6 different high schools (269 students in total) and held a symposium. In addition, we applied the advice and ideas we got from the students and experts into our project. As a result, our Wet lab and Dry lab integrated to make <a href="https://2016.igem.org/Team:Tokyo_Tech/Model#abstract">"ACADwarfs,"</a> as well as figure out the concept of<a href="https://2016.igem.org/Team:Tokyo_Tech/Toxin_Assay/mazEF_System_Assay#Queen"> "TA system ～the Queen's Caprice～."</a>  <br />
+
               <td><p style="font-size: 16px">By integrating with our Human Practices and the results from our wet lab experiments and modeling, iGEM2017 Team TokyoTech have executed our project with improved design in accordance with comments from general public, and have strengthened the public engagement of a two-way dialogue between our team and the public through this summer.<br />
−
                 <a href="https://2016.igem.org/Team:Tokyo_Tech/HP/Gold">Read more</a></p></td>
+
                 (Click <a href="https://2017.igem.org/Team:TokyoTech/HP/Gold_Integrated">here</a>to read more.)</p></td>
 
             </tr>
 
             </tr>
 +
 
             <tr>
 
             <tr>
 
               <td class="prize_element_td">Improvement / Characterization</td>
 
               <td class="prize_element_td">Improvement / Characterization</td>
−
               <td><p class="normal_text">We correctly improved a BioBrick Parts (<a href="http://parts.igem.org/Part:BBa_R0071">BBa_R0071</a>) and characterized 6 BioBrick Parts/Device (<a href="http://parts.igem.org/Part:BBa_C0071">BBa_C0071</a>, <a href="http://parts.igem.org/Part:BBa_C0171">BBa_C0171</a>, <a href="http://parts.igem.org/Part:BBa_K1529300">BBa_K1529300</a>, <a href="http://parts.igem.org/Part:BBa_K1529310">Bba_K1529310</a>, <a href="http://parts.igem.org/Part:BBa_K1096002">BBa_K1096002</a>, <a href="http://parts.igem.org/Part:BBa_K1096001">BBa_K1096001</a>)<br />
+
               <td><p style="font-size: 16px">We correctly improved a BioBrick Parts (<a href="http://parts.igem.org/Part:"></a>) and characterized 6BioBrick Parts/Device (<a href="http://parts.igem.org/"></a>, <a href="http://parts.igem.org/Part:"></a>, <a href="http://parts.igem.org/Part:"></a>, <a href="http://parts.igem.org/Part:"></a>, <a href="http://parts.igem.org/Part:"></a>, <a href="http://parts.igem.org/Part:"></a>)<br />
−
                <a href="https://2016.igem.org/Team:Tokyo_Tech/Description">Read more</a></p></td>
+
              (Click <a href="https://2017.igem.org/Team:TokyoTech/Parts">here</a></p> to read more.)</td>
 
             </tr>
 
             </tr>
 +
 +
            <tr>
 +
              <td class="prize_element_td">Model your project</td>
 +
              <td><p style="font-size: 16px">We simulated the whole co-culture system and it turned out the improvement of <span style="font-style: italic;">traI</span> is necessary. We improved the gene using point mutation and after reflecting a new parameter in the simulation, we observed that the population of <span style="font-style: italic;">E. coli</span> is controlled.<br />
 +
                (Click <a href="https://2017.igem.org/Team:TokyoTech/Model">here</a>
 +
              </p> to read more.)</td>
 +
            </tr>
 +
 
             <tr>
 
             <tr>
−
               <td class="prize_element_td">Proof of concept</td>
+
               <td class="prize_element_td">Demonstrate</td>
−
               <td><p class="normal_text">We demonstrated 4 <a href="#proof">functional proof of concept</a> of our project: <a href="https://2016.igem.org/Team:Tokyo_Tech/Proof#Pcold">New cold inducible promoter</a>, <a href="https://2016.igem.org/Team:Tokyo_Tech/Proof#Rhl">Rhl system assay</a>, <a href="https://2016.igem.org/Team:Tokyo_Tech/Proof#TA">TA system</a>, <a href="https://2016.igem.org/Team:Tokyo_Tech/Proof#AmiE">Degradation of C12 by AmiE</a>. <br />
+
               <td><p style="font-size: 16px"><br />
−
                <a href="#proof">Read more</a>
+
                (Click <a href="https://2017.igem.org/Team:TokyoTech/Demonstrate">here</a>
 +
              </p> to read more.)
 
               </p></td>
 
               </p></td>
 
             </tr>
 
             </tr>
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     <hr style="width:50px;border:5px solid red" class="w3-round">
 
     <hr style="width:50px;border:5px solid red" class="w3-round">
  
−
     <p style="font-family: Poppins;font-size: 16px">これまでのiGEMでは細菌同士の情報処理は盛んに行われてきた。今年我々はヒト細胞という細菌より複雑で、増殖速度などが細菌と大きく異なる細胞を対象にした。さらに両者を共培養することで、増殖速度や物質生産速度が大きく異なる細胞集団同士の情報処理に挑戦した。複雑系において重要な要素を選び出してモデルを抽象化し、シミュレーションした。結果、大腸菌数をヒト細胞によって制御し得ることや、共存可能なヒト細胞数と細菌数の関係を明らかにした。私たちはヒト細胞と大腸菌を共存させた新しい生命システムの構築（engineering）に成功した。これはiGEMの新たな一歩になると考えている。</p>
+
     <p style="font-size: 16px; text-indent: 1em">In iGEM history, many teams including Tokyo_Tech tried information processing between bacteria. This year we tried to establish an artificial inter-kingdom communication between human cell and bacteria then enable their co-culture. We call this new artificial human-bacteria co-culture living system “Coli sapiens.” Many factors like growth rate of human cells and bacterial cells are quite different and it is difficult to consider the all parameters to the model. In complex systems, only essential parameters were selected and an abstract model was designed.</p>
 +
    <p style="font-size: 16px; text-indent: 1em">To evaluate this model, drylab comprehensively simulated the property of the system using data from the experiments. As a result, our simulation contributed to the suggestion of part improvement to wetlab. This part improvement increased the feasibility of the model and it indicated that concentration of E. coli could be controlled by human cells and the condition for co-culture. Thus, we succeeded in engineering a new living system of co-existence between human cells and E. coli. This could be a progress for iGEM.</p>
  
 
   </div>
 
   </div>
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     <h1 class="w3-xxxlarge w3-text-red" style="padding-bottom: 10px;padding-top: 10px"><b>Proof of Concept</b></h1><!-- 小見出し -->
 
     <h1 class="w3-xxxlarge w3-text-red" style="padding-bottom: 10px;padding-top: 10px"><b>Proof of Concept</b></h1><!-- 小見出し -->
 
     <hr style="width:50px;border:5px solid red" class="w3-round">
 
     <hr style="width:50px;border:5px solid red" class="w3-round">
−
     <p style="font-family: Poppins;font-size: 16px">今回用いた2つの融合シグナル伝達系によって、ヒト細胞と大腸菌のシグナル伝達を可能にした。これによって、細菌とほ乳類という界を超えたコミュニケーションが可能になり、iGEMの新しいstandardになると考えられる。</p>
+
     <p style="font-family: Poppins;font-size: 16px">If we can establish a co-culture system, we can find a way to achieve population balance to sustain the co-existence and apply for the medical field like a cancer treatment. In addition, since human and bacteria have originally co-existed, the establishment of a co-culture system will contribute to the development of organism closer to life.</p>
 
</div>
 
</div>
  
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</body>
 
</body>
 
</html>
 
</html>
−
 
−
<!-- 1. Medal Criteria
 
−
 
−
Bronze
 
−
-Register and attend
 
−
We registered for iGEM, had a great summer, and attended the Giant Jamboree.
 
−
-Deliverables
 
−
We met all deliverables on the Requirements page.
 
−
-Attribution
 
−
We created a page on our team wiki with clear attribution of each aspect of our project.
 
−
-Characterization/Contribution
 
−
インターラボやりました。(リンク貼る)
 
−
 
−
Silver
 
−
-Validated Part/Validated Contribution
 
−
We experimentally validated and documented 6 new BioBrick Parts/Devices (BBa_K2505001, BBa_K2505010, BBa_K2505005, BBa_K2505030, BBa_K2505031, BBa_K2505032) of our own design and construction that work as expected.
 
−
-Collaboration
 
−
We offered our BioBrick Part we had designed and constructed (BBa_K1949001) to IONIS.
 
−
-Human Practices
 
−
シンポジウム開催、出前授業
 
−
 
−
Gold
 
−
-Integrated Human Practices
 
−
がん治療への応用
 
−
　我々は当初細菌とヒト細胞の共培養技術の開発により、腸内細菌叢の解明などにつなげたいと考えていた。しかし五月祭において、もっと医療応用といった社会貢献への応用もできるのではないかと指摘を受けた。そこで私たちは細菌を用いた治療について調べ、細菌を用いたDDSが近年研究されていることを知った。我々が今回開発した共培養技術を、細菌によるがん治療能を永続させるために、細菌を体内に駐在させる技術への応用につながると考えた。それに伴い、使用する細胞も当初は腸管上皮細胞(C2BBe1)を予定していたが、細菌を駐留させることに適した内皮細胞(EA.hy926)に変更した。
 
−
 
−
We chose iP for growth inhibition signal
 
−
　ヒト細胞が分泌する大腸菌細胞抑制シグナルとして、最初はAHLを考えていたが、ヒト細胞は原料不足のためAHLを合成することはできないため不適であることがわかった。そこで、サイトカインなどヒトが本来合成可能なシグナル物質を使うことを考えた。しかし、慶応大学のキム先生との話し合いで、ヒト細胞のnativeなシグナル物質を使用すると、ヒト細胞自身にも影響が出るのではないかと指摘された。そこで細菌でもヒト由来でもない植物由来の物質である植物ホルモンのサイトカイニン(イソペンテニルアデニン, iP)を使うことにした。
 
−
 
−
-Improved a previous part
 
−
We correctly improved a BioBrick Part(<a href=”http://parts.igem.org/wiki/index.php?title=Part:BBa_K553001”> BBa_K553001</a>)
 
−
We improved traI by introducing a single point mutation. 合成量がnnn倍になった。
 
−
 
−
-Model our project
 
−
Assayで得られた、traIの遺伝子を導入した大腸菌のC８合成量やヒト細胞のiP合成量をもとに、全体をシミュレーションした。その結果、大腸菌のC8合成量が少なく、ヒト細胞が大腸菌の増殖を抑制できないことが判明した。そこで、C8合成酵素遺伝子に変異を入れ、そのC8合成量をnnn倍にすることに成功した。それによって再度全体をシミュレーションしたところ、ヒト細胞によって大腸菌数を制御し、大腸菌の増殖を振動させられることがわかった。これより、大腸菌とヒト細胞で共存関係を築きうることがわかった。
 
−
 
−
-Demonstrate our work
 
−
　我々が構築した共培養技術を、将来的にガン治療などに応用したいと考えている。人体に細菌を導入し、かつ定着させるとなると正常細胞に悪影響を及ぼす可能性も考えられる。しかし、私たちの共培養技術では、細菌の過剰増殖を抑えることができるので、リアルコンディションでも使用可能と考えられる。
 
−
-->
 

Revision as of 22:46, 29 October 2017

<!DOCTYPE html> Coli Sapiens

iGEM Tokyo Tech

Achievements

Medal Criteria

Bronze Register and attend

We registered for iGEM, had a great summer, and attended the Giant Jamboree.
Deliverables

We met all deliverables on the Requirements page.
Attribution

We created an "Attributions" page on our team wiki with clear attribution of each aspect in our project. (Click here)
Characterization / Contribution

We participated in the Interlab Measurement Study. (Click here to read more.)

We also improved the characterization of an existing BioBrick Part and entered this information on that part's Main Page in the Registry.

Silver Validated Part

We experimentally validated and documented new BioBrick Parts/Devices (, , , ) of our own design and construction that work as expected.
Collaboration

We helped Team IONIS-Paris with offering a BioBrick part, mentored Team ASIJ Tokyo about the modeling and qualitative analysis and held a practice session with KAIT Japan at Boston University.
(Click here to read more.)
Human Practices

We organized a symposium for middle school and high school students, held a workshop at high school to raise the awareness of young generation, attended summer school to learn about the relation between synthetic biology and social epidemiology.
(Click here to read more.)

Gold Integrated Human Practices

By integrating with our Human Practices and the results from our wet lab experiments and modeling, iGEM2017 Team TokyoTech have executed our project with improved design in accordance with comments from general public, and have strengthened the public engagement of a two-way dialogue between our team and the public through this summer.
(Click hereto read more.)
Improvement / Characterization

We correctly improved a BioBrick Parts () and characterized 6BioBrick Parts/Device (, , , , , )
(Click here

to read more.)
Model your project

We simulated the whole co-culture system and it turned out the improvement of traI is necessary. We improved the gene using point mutation and after reflecting a new parameter in the simulation, we observed that the population of E. coli is controlled.
(Click here

to read more.)
Demonstrate


(Click here

to read more.)

Best Information Processing

In iGEM history, many teams including Tokyo_Tech tried information processing between bacteria. This year we tried to establish an artificial inter-kingdom communication between human cell and bacteria then enable their co-culture. We call this new artificial human-bacteria co-culture living system “Coli sapiens.” Many factors like growth rate of human cells and bacterial cells are quite different and it is difficult to consider the all parameters to the model. In complex systems, only essential parameters were selected and an abstract model was designed.

To evaluate this model, drylab comprehensively simulated the property of the system using data from the experiments. As a result, our simulation contributed to the suggestion of part improvement to wetlab. This part improvement increased the feasibility of the model and it indicated that concentration of E. coli could be controlled by human cells and the condition for co-culture. Thus, we succeeded in engineering a new living system of co-existence between human cells and E. coli. This could be a progress for iGEM.

Proof of Concept

If we can establish a co-culture system, we can find a way to achieve population balance to sustain the co-existence and apply for the medical field like a cancer treatment. In addition, since human and bacteria have originally co-existed, the establishment of a co-culture system will contribute to the development of organism closer to life.

Hajime Fujita: All Rights Reserved