Team:Tokyo Tech
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<div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Human_Practice#1._Introduction">(go to Human Practice page)</a></div></p></h2> | <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Human_Practice#1._Introduction">(go to Human Practice page)</a></div></p></h2> | ||
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- | <a href="https://2013.igem.org/Team:Tokyo_Tech/Human_Practice# | + | <a href="https://2013.igem.org/Team:Tokyo_Tech/Human_Practice#Human_Practice_1:_Experiment_Workshop"><img src="https://static.igem.org/mediawiki/2013/0/06/Titech2013_home_Fig1_human_experiment.jpg" width="300"></a><br> |
<h4>[Fig. 1-1-1. Experiment workshop for human practice]<br> | <h4>[Fig. 1-1-1. Experiment workshop for human practice]<br> | ||
We assisted with an experiment workshop for high school students. | We assisted with an experiment workshop for high school students. | ||
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- | <a href="https://2013.igem.org/Team:Tokyo_Tech/Human_Practice# | + | <a href="https://2013.igem.org/Team:Tokyo_Tech/Human_Practice#4._Human_Practice_2:_Poster_session_at_the_University_of_Tokyo"><img src="https://static.igem.org/mediawiki/2013/2/2d/Titech2013_home_Fig2_human_mayfes.jpg" width="300"></a><br> |
<h4>[Fig. 1-1-2. Poster session for human practice]<br> | <h4>[Fig. 1-1-2. Poster session for human practice]<br> | ||
We participated in a poster session and collected questionnaires from public people. | We participated in a poster session and collected questionnaires from public people. | ||
- | <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Human_Practice# | + | <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Human_Practice#4._Human_Practice_2:_Poster_session_at_the_University_of_Tokyo">(see more)</a></div> |
</h4> | </h4> | ||
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<td colspan=3 align="center"> | <td colspan=3 align="center"> | ||
- | <a href="https://2013.igem.org/Team:Tokyo_Tech/Project/Ninja_State_Switching"><img src="https://static.igem.org/mediawiki/2013/6/6c/Titech2013_home_Fig4_genetic_circuit.png" width="800" height="400"></a><br> | + | <a href="https://2013.igem.org/Team:Tokyo_Tech/Project/Ninja_State_Switching#1._Introduction"><img src="https://static.igem.org/mediawiki/2013/6/6c/Titech2013_home_Fig4_genetic_circuit.png" width="800" height="400"></a><br> |
<h4>[Fig. 1-1-3. Our designed circuit for circumvention of the crosstalk]<br> | <h4>[Fig. 1-1-3. Our designed circuit for circumvention of the crosstalk]<br> | ||
We designed the circumvention of the crosstalk by network engineering. | We designed the circumvention of the crosstalk by network engineering. | ||
- | <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Project/Ninja_State_Switching">(see more)</a></div> | + | <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Project/Ninja_State_Switching#1._Introduction">(see more)</a></div> |
</h4> | </h4> | ||
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<h3><font size="6">P</font>roject Overview</h3> | <h3><font size="6">P</font>roject Overview</h3> | ||
<h2><p>In our programing of artificial genetic circuit, <i>E. ninja</i> heads the cast. In response to <i>E. civilian</i> signal or <i>E. samurai</i> signal, <i>E. ninja</i> changes its state: “Mimic state” or “Attack state”. The circuit of <i>E. ninja</i> contains a bi-stable switch part and a signal dependent switching part. We decided to use C6-AHL and C12-AHL as the signals. The crosstalk between these two signals is well known as a significant problem in synthetic biology. To realize an accurate switching, by network engineering, we designed the circumvention of the crosstalk that occurs in bacterial cell-cell communication system (Fig. 1-1-3). | <h2><p>In our programing of artificial genetic circuit, <i>E. ninja</i> heads the cast. In response to <i>E. civilian</i> signal or <i>E. samurai</i> signal, <i>E. ninja</i> changes its state: “Mimic state” or “Attack state”. The circuit of <i>E. ninja</i> contains a bi-stable switch part and a signal dependent switching part. We decided to use C6-AHL and C12-AHL as the signals. The crosstalk between these two signals is well known as a significant problem in synthetic biology. To realize an accurate switching, by network engineering, we designed the circumvention of the crosstalk that occurs in bacterial cell-cell communication system (Fig. 1-1-3). | ||
- | <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Project/Ninja_State_Switching">(go to State Changing page)</a></div> | + | <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Project/Ninja_State_Switching#1._Introduction">(go to State Changing page)</a></div> |
</p></h2> | </p></h2> | ||
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<td rowspan=2> | <td rowspan=2> | ||
- | <div align="center"><a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/Crosstalk_Circumvention_Assay"><img src="https://static.igem.org/mediawiki/2013/6/6f/Titech2013_home_Fig3_crosstalk_assay.png" width="120" height="200" style="border: #E7E5F0 2px"></a></div><br> | + | <div align="center"><a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/Crosstalk_Circumvention_Assay#1._Introduction"><img src="https://static.igem.org/mediawiki/2013/6/6f/Titech2013_home_Fig3_crosstalk_assay.png" width="120" height="200" style="border: #E7E5F0 2px"></a></div><br> |
<h4>[Fig. 1-1-4. Result of our wet experiment for the circumvention of the crosstalk]<br>The level of GFP expression in cells where TetR is active is clearly lower than when TetR is inhibited. Even with activated LasR, <i>lux/tet</i> hybrid promoter is repressed by TetR precisely. This result suggest our | <h4>[Fig. 1-1-4. Result of our wet experiment for the circumvention of the crosstalk]<br>The level of GFP expression in cells where TetR is active is clearly lower than when TetR is inhibited. Even with activated LasR, <i>lux/tet</i> hybrid promoter is repressed by TetR precisely. This result suggest our | ||
- | network will circumvent the crosstalk by the activated LasR. <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/Crosstalk_Circumvention_Assay">(see more)</a></div> | + | network will circumvent the crosstalk by the activated LasR. <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/Crosstalk_Circumvention_Assay#1._Introduction">(see more)</a></div> |
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Our wet experiment results showed that the combination of <i>lux/tet</i> hybrid promoter and TetR protein circumvented the crosstalk by preventing the LasR protein from acting on LuxR-binding sequences (Fig. 1-1-4). Our mathematical model based on these results showed the circumvention of the crosstalk in the whole circuit (Fig. 1-1-5). | Our wet experiment results showed that the combination of <i>lux/tet</i> hybrid promoter and TetR protein circumvented the crosstalk by preventing the LasR protein from acting on LuxR-binding sequences (Fig. 1-1-4). Our mathematical model based on these results showed the circumvention of the crosstalk in the whole circuit (Fig. 1-1-5). | ||
- | <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Modeling/Crosstalk_Circumvention">(go to Modeling page)</a></div> | + | <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Modeling/Crosstalk_Circumvention#1._Introduction">(go to Modeling page)</a></div> |
</p></h2> | </p></h2> | ||
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<td colspan=3> | <td colspan=3> | ||
- | <div align="center"><a href="https://2013.igem.org/Team:Tokyo_Tech/Modeling/Crosstalk_Circumvention"><img src="https://static.igem.org/mediawiki/2013/4/48/Titech2013_home_Fig5_ninja_modeling.png" width="700"></a></div><br> | + | <div align="center"><a href="https://2013.igem.org/Team:Tokyo_Tech/Modeling/Crosstalk_Circumvention#1._Introduction"><img src="https://static.igem.org/mediawiki/2013/4/48/Titech2013_home_Fig5_ninja_modeling.png" width="700"></a></div><br> |
<h4>[Fig. 1-1-5. Our mathematical model for the circuit of <i>E. ninja</i>]<br> | <h4>[Fig. 1-1-5. Our mathematical model for the circuit of <i>E. ninja</i>]<br> | ||
The solid/dotted lines stand for the case with/without the crosstalk circumvention. The expression of LacI is repressed through the crosstalk circumvention. | The solid/dotted lines stand for the case with/without the crosstalk circumvention. The expression of LacI is repressed through the crosstalk circumvention. | ||
- | <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Modeling/Crosstalk_Circumvention">(see more)</a></div> | + | <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Modeling/Crosstalk_Circumvention#1._Introduction">(see more)</a></div> |
</h4> | </h4> | ||
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- | <a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/pSB-M13_Plasmid_Assay"><img src="https://static.igem.org/mediawiki/2013/1/14/Titech2013_home_Fig6_M13_shuriken.png" width="240"></a><br> | + | <a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/pSB-M13_Plasmid_Assay#1._Introduction"><img src="https://static.igem.org/mediawiki/2013/1/14/Titech2013_home_Fig6_M13_shuriken.png" width="240"></a><br> |
- | <h4>[Fig. 1-1-6. Our new part for inducible phage release]<br>We designed a new part for inducible phage release. Any promoter is allowed to be inserted upstream of <i>g2p</i> to regulate phage release.<div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/pSB-M13_Plasmid_Assay">(see more)</a></div> | + | <h4>[Fig. 1-1-6. Our new part for inducible phage release]<br>We designed a new part for inducible phage release. Any promoter is allowed to be inserted upstream of <i>g2p</i> to regulate phage release.<div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/pSB-M13_Plasmid_Assay#1._Introduction">(see more)</a></div> |
</h4> | </h4> | ||
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- | <a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/Inducible_Plaque_Forming_Assay"><img src="https://static.igem.org/mediawiki/2013/1/1e/Titech2013_M13_Plux_Fig_3-4-4-A.jpg" width="220"></a><br> | + | <a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/Inducible_Plaque_Forming_Assay#1._Introduction"><img src="https://static.igem.org/mediawiki/2013/1/1e/Titech2013_M13_Plux_Fig_3-4-4-A.jpg" width="220"></a><br> |
- | <h4>[Fig. 1-1-7. Distribution of plaques and analysis]<br><div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/Inducible_Plaque_Forming_Assay">(see more)</a></div> | + | <h4>[Fig. 1-1-7. Distribution of plaques and analysis]<br><div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/Inducible_Plaque_Forming_Assay#1._Introduction">(see more)</a></div> |
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<h2><p> | <h2><p> | ||
In addition, <i>E. ninja</i> releases M13 phage, which corresponds to shuriken, when it receives <i>E. samurai</i> signal. The inducible phage release will open new routes in synthetic biology by achieving programmed DNA messaging (Fig. 1-1-6). | In addition, <i>E. ninja</i> releases M13 phage, which corresponds to shuriken, when it receives <i>E. samurai</i> signal. The inducible phage release will open new routes in synthetic biology by achieving programmed DNA messaging (Fig. 1-1-6). | ||
- | <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Project/M13_Shuriken">(go to Shuriken page)</a></div> | + | <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Project/M13_Shuriken#1._Abstract">(go to Shuriken page)</a></div> |
</p></h2> | </p></h2> | ||
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<h2><p> | <h2><p> | ||
In the second-life story, <i>E. ninja</i> starts farming in a peaceful village. He can increase plant growth by synthesizing several plant hormones depending on the soil environment. We constructed an improved phosphate sensor (<i>phoA</i> promoter, BBa_K1139201). Also, we learned methods for quantitative analysis of cytokinin, a plant hormone, through a bioassay of cucumber seed sprouts. Towards further consideration of farming with microbes, we have also continued the human practice investigation through some interviews with science foundations and organizations (Fig. 1-1-8). | In the second-life story, <i>E. ninja</i> starts farming in a peaceful village. He can increase plant growth by synthesizing several plant hormones depending on the soil environment. We constructed an improved phosphate sensor (<i>phoA</i> promoter, BBa_K1139201). Also, we learned methods for quantitative analysis of cytokinin, a plant hormone, through a bioassay of cucumber seed sprouts. Towards further consideration of farming with microbes, we have also continued the human practice investigation through some interviews with science foundations and organizations (Fig. 1-1-8). | ||
- | <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Project/Farming">(go to Farming page)</a></div> | + | <div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Project/Farming#1._Abstract">(go to Farming page)</a></div> |
</p></h2> | </p></h2> | ||
<br><br><br><br><br><br><br><h3><font size="6">F</font>uture Works</h3> | <br><br><br><br><br><br><br><h3><font size="6">F</font>uture Works</h3> | ||
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- | <a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/Quantitative_Analysis_of_Cytokinin"><img src="https://static.igem.org/mediawiki/2013/8/8a/Titech2013_home_Fig_1-1-7_cucumber.png" width="300"></a><br> | + | <a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/Quantitative_Analysis_of_Cytokinin#1._Quantitative_analysis_of_cytokinins_using_cucumber_cotyledons"><img src="https://static.igem.org/mediawiki/2013/8/8a/Titech2013_home_Fig_1-1-7_cucumber.png" width="300"></a><br> |
- | <h4>[Fig. 1-1-8. Our bioassay of cucumber seed sprouts]<br>We cultivated the sprouts in standard cytokinin sample solutions and then measured the weight of the sprouts and the concentration of chlorophyll.<div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/Quantitative_Analysis_of_Cytokinin">(see more)</a></div> | + | <h4>[Fig. 1-1-8. Our bioassay of cucumber seed sprouts]<br>We cultivated the sprouts in standard cytokinin sample solutions and then measured the weight of the sprouts and the concentration of chlorophyll.<div align="right"><a href="https://2013.igem.org/Team:Tokyo_Tech/Experiment/Quantitative_Analysis_of_Cytokinin#1._Quantitative_analysis_of_cytokinins_using_cucumber_cotyledons">(see more)</a></div> |
</h4> | </h4> | ||
</td> | </td> |
Revision as of 13:16, 27 September 2013
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