Team:OUC-China

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<h1>Our climb will be steep<br/>吾将上下而求索！</h1>
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<h2>Description of our project</h2>
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<li> <a href="#">Index</a> </li>
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<h3>Introduction: motivation and background</h3>
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<li> <a href="https://2012.igem.org/Team:OUC-China/Project/Overview">Project</a> </li>
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<p>This year, our projects focus on biological methods for warning and countermeasure against water bloom and red tide. As we know, this ecological disaster, due to nutrient overload and followed by oxygen deprivation, tortured many countries and caused gigantic economic loss and ecological disruption. We propose that to prevent it happen, a precise sensor for alarming the arrival of water bloom and an effective actuator to solve it are needed. So our projects can be summarized as two parts: The first goal is to develop a synthetic system which can sense the outer signal and have a precise decision-making about to what degree will there be a water bloom. We will facilitate a fine-tuned ratio sensor sensing the ratio of nitrogen and phosphorus to achieve this.<br/>
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<li> <a href="https://2012.igem.org/Team:OUC-China/Modeling/Overview">Modeling</a> </li>
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The second goal is to construct an actuator with ‘portable’ gas vesicles which enable our engineered microbes to float on the water surface.<br/>
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<li> <a href="https://2012.igem.org/Team:OUC-China/HumanPractice/Overview">Human Practice</a> </li>
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The third goal is to provide our actuator with several functions making it a versatile cleaner to contain the water bloom.<br/></p>
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<li> <a href="https://2012.igem.org/Team:OUC-China/Team/members">Team</a> </li>
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<h3>What trigger water bloom?</h3>
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<p>The well-recognized culprit of water bloom is overload of nutrient (eutrophication).Take the Baltic Sea as example, dumping from sewage-treatment plants, farming and industry has poured about 20 million tons of nitrogen and 2 million tons of phosphorus into the Baltic over the past 50 years, which give rise to long-lasting algal blooms. The net effect is an excess of phosphorous, which fuels nitrogen-fixing cyanobacteria and triggers algal blooms as the essential condition. Another crucial factor is an excess of nitrogen which can amplify the effect and enhance overgrowth of the cyanobacteria and alga. And many research indicate that many a particular ratio of this two element, relatively stable, coincide with the water bloom. It suggests that a ratio sensor to alarm for water bloom is reliable.<br/></p>
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<h3>What is a ratio sensor?</h3>
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<li> <a href="https://2012.igem.org/Team:OUC-China/labnote">Note</a> </li>
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<p>As we have mentioned, a ratio sensor could be an indicator for the arrival of water bloom. But only when we make a fine-tuned ratio sensor which can sense the two different signals(nitrogen&phosphorus) precisely, account the ratio accurately and perform a remarkable reporting signal, can we assure that it is a fine-tuned and reliable alarm.<br/>
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a) We will facilitate phoB promoter and NtrB promoter for sensing phosphorus and nitrogen respectively.<br/>
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b) Ratio accounting is implemented with an artificial system of RNA –mediated regulation. <br/>
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c) We choose GFP as the reporter to show our result.<br/></p>
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<h3>What is gas vesicle?</h3>
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<p>To facilitate our E.coli to float on the water surface, we should equip our engineered E.coli with portable generators of gas vesicles. The gas vesicle is a hollow structure made of protein. It usually has the form of a cylindrical tube closed by conical end caps. Gas vesicles provide aquatic microbes with buoyancy so that they can control their vertical migration. It could have been a great tool to hold our engineered E.coli on the water surface, as the previous teams had shown us. However, due to the horrible length of its coding genes and the heavy burden it brought about to its host, the practical application remain difficult and uncertain. Our team determines to break through the task by fine-tuning the expression pattern of gvpA and gvpC which test the most economical way to provide buoyancy.<br/></p>
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<h3>How can our actuator curb the water bloom?</h3>
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<p>So if the two projects above go well, we will focus on constructing a versatile warrior which can stifle the water bloom in the cradle. We may take advantage of some genetic parts to absorb and fix the nutrients , release toxins restricted to the toxic cyanobacteria and alga and even facilitate the mechanism of vertical thereby bring the nutrients to the deeper area.</br></p>
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<h2 >Overview</h2>
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<p>Red tide detector:
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Facilitate small RNA as information processing media;
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<br/>
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and gas vesicle as a novel output actuator...
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<br/>
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Response to the overloading phosphate or nitrate when they exceeds warning limit...<br/>
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</p>
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<a href="https://2012.igem.org/Team:OUC-China/Project/Overview" class="da-link">Read more</a>
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<div class="da-img"><img src="https://static.igem.org/mediawiki/2012/1/19/Ouc-final.png" alt="overview" /></div>
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</div>
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<div class="da-slide">
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<h2>Sensor</h2>
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<p>The sensors for next-generation detector of red tide!</p>
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<a href="https://2012.igem.org/Team:OUC-China/Project/Sensor/AbstractandBackground" class="da-link">Read more</a>
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<div class="da-img"><img src="https://static.igem.org/mediawiki/2012/3/32/Home-sensor.png" alt="sensor" /></div>
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</div>
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<div class="da-slide">
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<h2>Model-Driven Design</h2>
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<p>
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Get specific directions for ternary system design from simulation...
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</p>
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<a href="https://2012.igem.org/Team:OUC-China/Modeling/Overview" class="da-link">Read more</a>
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<div class="da-img"><img src="https://static.igem.org/mediawiki/2012/2/26/Home-modeling.png" alt="Home-modeling" /></div>
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<div class="da-slide">
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<h2>Making decision through sRNA</h2>
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<p>The sophisticated  'CPU' of our red tide detector...<br/>
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Engineering CPU for your own "synthia"!</p>
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<a href="https://2012.igem.org/Team:OUC-China/Project/DesignMaking/Abstract" class="da-link">Read more</a>
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<div class="da-img"><img src="https://static.igem.org/mediawiki/2012/2/2c/Home-decision-making-device.png" alt="Home-decision-making-device" /></div>
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<div class="da-slide">
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<h2>Floating Device</h2>
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<p>The output actuator of our red tide detector...<br/>
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Gas vesicle as our floating device</p>
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<a href="https://2012.igem.org/Team:OUC-China/Project/GVP/GasandBackground" class="da-link">Read more</a>
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<div class="da-img"><img src="https://static.igem.org/mediawiki/2012/a/a2/Ouc-home-floating-device.png" /></div>
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        </div>
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<h2>Oceanfloat and Oceanfeel<br/><span>——a floating biosensor</span></h2>
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<h3>Our Project</h3>
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<li class="on" id="tab_1" onclick="switchTab(1)"><img src="https://static.igem.org/mediawiki/2012/8/8f/Ouc-home-step1.png" /><span>Part1</span></li>
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<li id="tab_2" onclick="switchTab(2)"><img src="https://static.igem.org/mediawiki/2012/d/de/Ouc-home-step3.png" /><span>Part2</span></li>
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<li id="tab_3" onclick="switchTab(3)"><img src="https://static.igem.org/mediawiki/2012/a/a4/Ouc-home-steplast.png" /><span>Part3</span></li>
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<div class="tuxing"><img src="https://static.igem.org/mediawiki/2012/e/e2/Ouc-hometab_arrow.png" /></div>
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<div class="nr">
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<h1>Sensor</h1>
 +
<p>Our phosphate- and nitrate-sensitive devices are responsible for detection of environmental phosphate and nitrate. Besides that they transform the input signals into "readable information" for decision-making devices.</p>
 +
<p>much work has been done for characterization and modification of nitrate- and phosphate-sensitive promoters. A whole set of design ideas for TCS modifications are also presented for other igemers. Additionally an actuator that can remove the phosphate is recommended.</p>
 +
<p><a href="https://2012.igem.org/Team:OUC-China/Project/Sensor/AbstractandBackground"><strong>learn more</strong></a>
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<li id="tab_con_2">
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<div class="tup"><img src="https://static.igem.org/mediawiki/2012/a/a1/Ouc-home-step3-02.png" /></div>
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<div class="nr">
 +
<h1>Decision-making Device</h1>
 +
<p>Our decision-making device aims at processing the concentration change of nitrate or phosphate into visible buoyancy increase. Comparator recognizes the difference of two inputs quantitatively ,while ratio sensor could senses a particular ratio between two inputs.</p>
 +
<p>Both comparator and ratio sensor facilitate a ternary system consisted of two small RNA and GFP mRNA. The concentration change of external two inducers leads to the transcription rate change of small RNA(alpha s)in this ternary system, the interactions between three RNAs will lead to interesting behaviors of our system like sensing the difference between two inputs quantitatively(Comparator) or the ratio of two inputs(Ratio senor).</p>
 +
<p><a href="https://2012.igem.org/Team:OUC-China/Project/DesignMaking/Abstract"><strong>learn more</strong></a>
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<div class="tup"><img src="https://static.igem.org/mediawiki/2012/f/fa/Ouc-step3-last.png" /></div>
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<div class="nr">
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<h1>Floating Device</h1>
 +
<p>In our project, by transforming the buoyancy device BBa_K737010(designed by ourselves), the gas vesicle cluster from the genome of Planktothrix rubescens into E.Coli, we succeed in making Escherichia.Coli floating on the surface of the water. It can help the cells produce the gas vesicle inside, which could make densities significant stratification in the culture. Not only the gene cluster but the two parts BBa_K737006 and BBa_K737007, which produce the gas vesicle structure protein, can also make the Escherichia.Coli floating. We use the shorter length of the part achieve a better effect than BBa_K190033 and the gas vesicle application prospect.</p>
 +
<p><a href="https://2012.igem.org/Team:OUC-China/Project/GVP/GasandBackground"><strong>learn more</strong></a>
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<div class="hmoverview" id="hmo"></div>
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<div class="hmguide">
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<h3>Human practice</h3>
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<ul>
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<li>
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<a href="https://2012.igem.org/Team:OUC-China/HumanPractice/Communication" title="Meeting and Academic Communication" target="_blank"><img src="https://static.igem.org/mediawiki/2012/d/d7/Ouc-homehp01.jpg" alt="Meeting and Academic Communication" title="Meeting and Academic Communication" /></a>
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<h4><a href="https://2012.igem.org/Team:OUC-China/HumanPractice/Communication" title="Meeting and Academic Communication" target="_blank">Meeting and Academic Communication</a></h4>
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<p>As a new born iGEM team,questions below puzzled us for a very long time. However,Peking Univerisity iGEM team helped us a lot by giving us dire……<span><a href="https://2012.igem.org/Team:OUC-China/HumanPractice/Communication" title="Meeting and Academic Communication" target="_blank">[Learn more]</a></span></p>
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</li>
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<li>
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<a href="https://2012.igem.org/Team:OUC-China/HumanPractice/Camps" title="Camps, Class and Lectures" target="_blank"><img src="https://static.igem.org/mediawiki/2012/a/a5/Ouc-homehp02.jpg" alt="Camps, Class and Lectures" title="Camps, Class and Lectures" /></a>
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<h4><a href="https://2012.igem.org/Team:OUC-China/HumanPractice/Camps" title="Camps, Class and Lectures" target="_blank">Camps, Class and Lectures</a></h4>
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<p>Last year, we held 1st summer camp of life science and technology. Through this camp, most of the participants……<span><a href="https://2012.igem.org/Team:OUC-China/HumanPractice/Camps" title="Camps, Class and Lectures" target="_blank">[Learn more]</a></span></p>
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</li>
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<li>
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<a href="https://2012.igem.org/Team:OUC-China/HumanPractice/SpecialHM" title="Special OUC-China HP" target="_blank"><img src="https://static.igem.org/mediawiki/2012/4/40/Ouc-homehp03.jpg" alt="Special OUC-China HP" title="Special OUC-China HP" /></a>
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<h4><a href="https://2012.igem.org/Team:OUC-China/HumanPractice/SpecialHM" title="Special OUC-China HP" target="_blank">Special OUC-China HP</a></h4>
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<p>Because our project of this focuses on the ratio of N and P and cyanobacteria in the sea water, we consulted professors who study on ecology……<span><a href="https://2012.igem.org/Team:OUC-China/HumanPractice/SpecialHM" title="Special OUC-China HP" target="_blank">[Learn more]</a></span></p>
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Latest revision as of 13:25, 26 October 2012

Overview

Red tide detector: Facilitate small RNA as information processing media;
and gas vesicle as a novel output actuator...
Response to the overloading phosphate or nitrate when they exceeds warning limit...

Read more
overview

Sensor

The sensors for next-generation detector of red tide!

Read more
sensor

Model-Driven Design

Get specific directions for ternary system design from simulation...

Read more
Home-modeling

Making decision through sRNA

The sophisticated 'CPU' of our red tide detector...
Engineering CPU for your own "synthia"!

Read more
Home-decision-making-device

Floating Device

The output actuator of our red tide detector...
Gas vesicle as our floating device

Read more

Oceanfloat and Oceanfeel
——a floating biosensor

Our Project

  • Part1
  • Part2
  • Part3
 

  • Sensor

    Our phosphate- and nitrate-sensitive devices are responsible for detection of environmental phosphate and nitrate. Besides that they transform the input signals into "readable information" for decision-making devices.

    much work has been done for characterization and modification of nitrate- and phosphate-sensitive promoters. A whole set of design ideas for TCS modifications are also presented for other igemers. Additionally an actuator that can remove the phosphate is recommended.

    learn more

     

  • Decision-making Device

    Our decision-making device aims at processing the concentration change of nitrate or phosphate into visible buoyancy increase. Comparator recognizes the difference of two inputs quantitatively ,while ratio sensor could senses a particular ratio between two inputs.

    Both comparator and ratio sensor facilitate a ternary system consisted of two small RNA and GFP mRNA. The concentration change of external two inducers leads to the transcription rate change of small RNA(alpha s)in this ternary system, the interactions between three RNAs will lead to interesting behaviors of our system like sensing the difference between two inputs quantitatively(Comparator) or the ratio of two inputs(Ratio senor).

    learn more

     

  • Floating Device

    In our project, by transforming the buoyancy device BBa_K737010(designed by ourselves), the gas vesicle cluster from the genome of Planktothrix rubescens into E.Coli, we succeed in making Escherichia.Coli floating on the surface of the water. It can help the cells produce the gas vesicle inside, which could make densities significant stratification in the culture. Not only the gene cluster but the two parts BBa_K737006 and BBa_K737007, which produce the gas vesicle structure protein, can also make the Escherichia.Coli floating. We use the shorter length of the part achieve a better effect than BBa_K190033 and the gas vesicle application prospect.

    learn more

     

Human practice


Retrieved from "http://2012.igem.org/Team:OUC-China"