Team:Peking S/001

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<a class="B1" a href="https://2010.igem.org/Team:Peking/Project/Biosensor">Biosensor<img src="https://static.igem.org/mediawiki/2010/1/1b/Sensorintro.png"/></a>
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<a class="B2" a href="https://2010.igem.org/Team:Peking/Project/Bioabsorbent">Bioabsorbent<img src="https://static.igem.org/mediawiki/2010/8/84/Absorbentintro.png"/></a>
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<a class="B3" a href="https://2010.igem.org/Team:Peking/Project/Application">Application<img src="https://static.igem.org/mediawiki/2010/b/b6/Applicationintro.png"/></a>
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<div id="leftpic"><img src="https://static.igem.org/mediawiki/2010/4/49/Teampic.jpg" width=90px /></div>
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<p>Always a  Harry potter fan.
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One to three</p>
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<p><span style="float:right"><a href="/Team:Tsinghua/team" >More...</a></span></p>
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<div id="leftpic"><img src="https://static.igem.org/mediawiki/2010/5/5e/TSModule2m.PNG" width=90px/>'E Col Transporter'
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Overview
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This project is destined to generate several E. Coli strains which will cooperate with each other to move forth and back and transport any desired protein along a gradient. Module composition: binding, releasing, transition, movement
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Binding
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SH3 domain has high affinity for proline-rich peptides. The small size and high affinity are ideal for our carrier design. In our experiment, we used a short peptide with a Kd of 3.67μM (Y. Jacquot, et al., 2007) as the binding motif and planned to transport protein substrates with this peptide sequence.
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This part comprises expression of three proteins, namely, OmpA-SH3 protein, which functions as the binding vehicle, OmpA-mCherry protein, which functions as the positive control, Proline-rich containing mCherry protein, which functions as the binding substrate.
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==Parts==
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<p>&nbsp;&nbsp;&nbsp;&nbsp;Our team submitted a library of thoroughly characterized and standardized parts. Therefore contributing an alternative set of tools towards heavy metal detection and decontamination in the iGEM context. What's more, as our MerR-family-derivated engineering method could be applicable in nearly all cases of heavy metal, our parts and corresponding documents provide a expansible method for heavy metal bioreporter and bioabsorbent construction.</p>
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&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; <html><a href="https://2010.igem.org/Team:Peking/Parts"><font size=4>learn more</font></a></p></html>
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Releasing
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It’s difficult to release the substrate from strong binding, and hence protease is called into play. HIV-protease is readily available and its high efficiency, low molecular weight and high specificity constitutes fine candidate. We only need to add the substrate sequence between OmpA and SH3 sequence and the protease will cut off the binding cassette. In order to segregate the action, we’ll generate a single bacteria strain expressing the protease.
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==Team==
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Transition
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We need to shift between two states, the binding state and the releasing state. This molecular device is well-known for its lag in phase change, which is well adapted for our application. The lag during the phase transition is appropriate for movement and transport.
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<p>&nbsp;&nbsp;&nbsp;&nbsp;Eighteen students and four instructors are working on our project during this summer. We split up into several subgroups whose focus and results you can follow on the Notebook or Project pages. If you want to know more about the subgroups and the people involved, meet us on our Team page.</p>
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Movement
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Kinase system is well utilized in E. Coli movement control. We’ll again use LVA tagged kinase to drive E. Coli towards the target.</div><p>
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==Modeling==
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&nbsp;&nbsp;&nbsp;&nbsp;We adopt the process of Reverse Engineering which in our work means to enumerate all possible network topologies and analysis whether they fit the objection function or not, thus getting the right topology and the proper range of parameters for the designation of our project.<br>
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&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<a href="https://2010.igem.org/Team:Peking/Modeling"><font size=4>learn more</font></a>
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==Human Practice==
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<html><a href="https://2010.igem.org/Team:Peking/Humanpractice"><img src="https://static.igem.org/mediawiki/2010/8/84/FrontpageHP.jpg" width=350 height=127 alt="Biosafety"  align="right"></a>
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&nbsp;&nbsp;&nbsp;&nbsp;DNA recombination, Fragment synthesis, Bio-security... these are words that could hardly be ignored when doing researches of synthetic biology, which promises a great many improvements to our understanding of this world. The potential bio-security risk, however, is just around corner. <br>
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&nbsp;&nbsp;&nbsp;&nbsp; This summer, we did a thorough research on this topic, aiming at proactively finding out the current situation in China, and raising the awareness of researchers on such issues.<br>
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&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<a href="https://2010.igem.org/Team:Peking/Humanpractice"><font size=4>learn more</font></a>
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<p><span style="float:right"><a href="/Team:Tsinghua/project" >More...</a></span></p>
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<h1><IMG SRC="https://static.igem.org/mediawiki/2010/d/d8/TSSLogo.png" width=40px">Parts</h1>
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<div id="leftpic"><img src="http://biobricks.org/img/750px-BBFoundation_shadow.png" width=90px /></div><p>We built a host of parts during our project. The idea is that after every small step, we store our sequence as a biobrick part.</p><p> This strategy marks our progress and facilitates future use of these sequences.</p>
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<p><span style="float:right"><a href="/Team:Tsinghua/parts" >More...</a></span></p>
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==Gallery==
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<p>&nbsp;&nbsp;&nbsp;&nbsp;It's an unforgettable summer, during which we spared no effort to fight for our dreams and the honour of Peking iGEM team. Photos recorded every footprint of everyone. Join us together!</p>
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<div id="leftpic"><img src="http://www.htys.org/images/logo1.jpg" width=90px /></div><p>
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Our experiments are carefully recorded on a daily basis. Through the series of records, we can see our joys and sorrows.</p><p>Besides, we made the records for the purpose that our experiments can be repeated one day by someone else, thus contributing to the exploration of the unknown.</p>
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<img src="https://static.igem.org/mediawiki/2010/2/2d/PKU_IGEM20102.gif" width="100px" alt="the whole team" >&nbsp;
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<p><span style="float:right"><a href="/Team:Tsinghua/experiments" >More...</a></span></p>
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&nbsp;<img src="https://static.igem.org/mediawiki/2010/2/2f/%E5%9B%BE%E5%83%8F0201.jpg" width="100px" alt="Balloon on the experiment table" width="50px" >&nbsp;&nbsp;<img src="https://static.igem.org/mediawiki/2010/0/03/Rats.gif" width="100px" alt="Team's mascot~" >&nbsp;&nbsp;<img src="https://static.igem.org/mediawiki/2010/4/46/Assembled.jpg" width="100px" alt="Our lab">&nbsp;&nbsp;<img src="https://static.igem.org/mediawiki/2010/8/88/P_large_oReI_3ff9000598fc2d11.jpg" width="115px" alt="Ao Liu & Ying Shen's birthday party">&nbsp;&nbsp;<img src="https://static.igem.org/mediawiki/2010/1/1c/P_large_MA7H_33dd00001e802d0b.jpg" width="230px" alt="Weekly Meeting"></a> &nbsp;&nbsp;<img src="https://static.igem.org/mediawiki/2010/a/ab/Pkupuzzle521.jpg" width="100px" alt="Team's pyjama~"></a></html>
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<font size=5>Count Down</font><br><br>
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<h1><IMG SRC="https://static.igem.org/mediawiki/2010/d/d8/TSSLogo.png" width="40px">Support</h1>
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<div id="leftpic"><img src="https://static.igem.org/mediawiki/2010/9/9c/Humanpic.JPG" width=90px /></div><p>Our project is supported by School of Life Sciences, Department of Physics, Academy of Arts and Designs in Tsinghua.</p><P>
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Besides, we cited from a series of references.</p>
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<p>The whole project is the work of Tsinghua iGEM Team comprising of 11 undergraduates.
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During the process, we shared the duty but every one has distinct focuses. The project was mainly designed by Yunxiao Zhang. Majority of the molecular cloning is done by Pan Deng, Guanqiao Li, Liyuan Zhu, and Xiao Shi. As for the protein purification and verification of our parts, Li Li, Yu Zhao and Chen Chen did most of the lab work.
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<font size=5>Vistors From...</font><br><br>
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<a href="http://www3.clustrmaps.com/counter/maps.php?url=https://2010.igem.org/Team:Peking"  target="_blank" id="clustrMapsLink"><img src="http://www3.clustrmaps.com/counter/index2.php?url=https://2010.igem.org/Team:Peking" width="208px" style="border:0px;" alt="Locations of visitors to this page" title="Locations of visitors to this page" id="clustrMapsImg" onerror="this.onerror=null; this.src='http://www2.clustrmaps.com/images/clustrmaps-back-soon.jpg'; document.getElementById('clustrMapsLink').href='http://www2.clustrmaps.com';" />
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Our advisor Xiaozhi Fu kindly provided the guidance for using the equipment and chemicals in the lab while our director Dr. Guoqiang Chen helped us draft the flowchart of this project.</p>
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<p><span style="float:right"><a href="/Team:Tsinghua/support" >More...</a></span></p>
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<h1><IMG SRC="https://static.igem.org/mediawiki/2010/d/d8/TSSLogo.png" width="40px">Human Practice</h1>
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<div id="leftpic"><img src="https://static.igem.org/mediawiki/2010/f/fd/Humanity.jpg" width=90px /></div><p>We put safety as our first priority and made a detailed safety brochure. </p>
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<p>We also devoted efforts to publicize synthetic biology and to cooperate with other teams. The teams in China held a summer meetup to discuss our progress and share our resources. We also held a lecture introducing iGEM and our project in Tsinghua Univeristy. To get further support, we sought the cooperation of iGEM Team at Macquire, Australia.</p>
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<p><span style="float:right"><a href="/Team:Tsinghua/HumanPractice" >More...</a></span></p>
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Revision as of 11:59, 17 July 2011

Team:Peking/BannerHidden Team:Peking/Test Team:Peking/boxesII Team:Peking/boxes


Team

Always a Harry potter fan. One to three

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Project

'E Col Transporter' Overview This project is destined to generate several E. Coli strains which will cooperate with each other to move forth and back and transport any desired protein along a gradient. Module composition: binding, releasing, transition, movement Binding SH3 domain has high affinity for proline-rich peptides. The small size and high affinity are ideal for our carrier design. In our experiment, we used a short peptide with a Kd of 3.67μM (Y. Jacquot, et al., 2007) as the binding motif and planned to transport protein substrates with this peptide sequence. This part comprises expression of three proteins, namely, OmpA-SH3 protein, which functions as the binding vehicle, OmpA-mCherry protein, which functions as the positive control, Proline-rich containing mCherry protein, which functions as the binding substrate. Releasing It’s difficult to release the substrate from strong binding, and hence protease is called into play. HIV-protease is readily available and its high efficiency, low molecular weight and high specificity constitutes fine candidate. We only need to add the substrate sequence between OmpA and SH3 sequence and the protease will cut off the binding cassette. In order to segregate the action, we’ll generate a single bacteria strain expressing the protease. Transition We need to shift between two states, the binding state and the releasing state. This molecular device is well-known for its lag in phase change, which is well adapted for our application. The lag during the phase transition is appropriate for movement and transport. Movement Kinase system is well utilized in E. Coli movement control. We’ll again use LVA tagged kinase to drive E. Coli towards the target.
























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Parts

We built a host of parts during our project. The idea is that after every small step, we store our sequence as a biobrick part.

This strategy marks our progress and facilitates future use of these sequences.

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Experiment

Our experiments are carefully recorded on a daily basis. Through the series of records, we can see our joys and sorrows.

Besides, we made the records for the purpose that our experiments can be repeated one day by someone else, thus contributing to the exploration of the unknown.

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Support

Our project is supported by School of Life Sciences, Department of Physics, Academy of Arts and Designs in Tsinghua.

Besides, we cited from a series of references.

The whole project is the work of Tsinghua iGEM Team comprising of 11 undergraduates. During the process, we shared the duty but every one has distinct focuses. The project was mainly designed by Yunxiao Zhang. Majority of the molecular cloning is done by Pan Deng, Guanqiao Li, Liyuan Zhu, and Xiao Shi. As for the protein purification and verification of our parts, Li Li, Yu Zhao and Chen Chen did most of the lab work. Our advisor Xiaozhi Fu kindly provided the guidance for using the equipment and chemicals in the lab while our director Dr. Guoqiang Chen helped us draft the flowchart of this project.

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Human Practice

We put safety as our first priority and made a detailed safety brochure.

We also devoted efforts to publicize synthetic biology and to cooperate with other teams. The teams in China held a summer meetup to discuss our progress and share our resources. We also held a lecture introducing iGEM and our project in Tsinghua Univeristy. To get further support, we sought the cooperation of iGEM Team at Macquire, Australia.

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