Difference between revisions of "Team:NCKU Tainan/Measurement"

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          <h1 class="wet">Notebook</h1>
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      <h2 id="biobrick">BioBrick</h2>
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        BioBrick Part: BBa_K381001 was first used by team BCCS-Bristol in iGEM 2010. This part that created by Katharine Coyte is a nitrate and nitrite sensitive promoter P<sub>yeaR</sub> with a GFP coding device and strong RBS to create a nitrate-sensitive system which signals through expression of Green Fluorescence Protein. In 2010, the team BCCS-Bristol used it to sense the concentration in soil. Yet, our team think that the potential of K381001 is not only limited in detecting the nitrate concentration in soil. This year, our team, NCKU-TAINAN decided to create a whole new measurement system for sensing the nitrate level in aquaculture water by using this part
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      <h2 id="powder">How dose it work ? Lyophilized E. coli powder ?</h2>
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        The nitrate in water will activate P<sub>yeaR</sub>  promoter and lead to expression of GFP. We realize that liquid broth E. coli doesn’t work well in this system, having to wait for a long-time period to get the value, which is not accepted by fish farmers because a sudden increase of nitrate level will lead to the dead of the whole pool in an instant. Therefore, instead of liquid broth, we choose lyophilized <i>E. coli</i> powder as our platform. When water pumped into the cuvette, activity of lyophilized <i>E. coli</i> recovered and showed corresponding fluorescence intensity along with different nitrate level in merely 20 minutes. Comparing to 4 hours detection time in broth process, the time cost of lyophilized <i>E. coli</i> powder decreases dramatically.
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            Figure 1 . The lyophilized <i>E. coli</i> powder
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      <h2 id="nitrate_sensor">Nitrate Sensor </h2>
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        The BioBrick alone is not enough to create a fully functional measurement system, a sensing device is also one of the key element to perfect the system. After doing some research, we self-assembled a portable GFP sensing device.
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          <img src="/assets/img/measurement-2.png">
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            Figure 2 . Our idea of sensing the GFP expressed by the lyophilized <i>E. coli</i> powder
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      <h2 id="mechanism">The Mechanism </h2>
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        The value of fluorescence is detected by our sensing device and record as voltage form. Cross-matching our data base and modelling results with voltage signal detected by device, we can evaluate the nitrate level in water accurately to 1 ppm interval. In a relatively short time period, 20 minute , our users can know the nitrate level of the pool via our app.
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          <img src="/assets/img/measurement-3.jpg">
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            Figure 3 . The look of our sensing system when sensing the GFP expressed by the lyophilized <i>E. coli</i> powder.
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      <h2 id="advantages">Advantages</h2>
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      <hr>
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        Compare to the spectrophotometer in the lab, our sensing device is smaller, more portable and less energy consumed. In corporate with our data base and modelling result, we can assure the sensitivity of our Nitrate Sensor is accurate.
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Last but not least, due to the portability of the sensing device and storability of the lyophilized E. coli powder, this method has a lot of potential to be commercialized.
  
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        <a onclick="scrollto('#biobrick')" class="list-group-item">BioBrick</a>
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        <a onclick="scrollto('#powder')" class="list-group-item">How dose it work ?</a>
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        <a onclick="scrollto('#nitrate_sensor')" class="list-group-item">Nitrate Sensor</a>
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        <a onclick="scrollto('#mechanism')" class="list-group-item">The Mechanism</a>
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        <a onclick="scrollto('#advantages')" class="list-group-item">Advantages</a>
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<h1>Measurement</h1>
 
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<p>There are a lot of exciting parts in the Registry, but many parts have still not been characterized. Synthetic Biology needs great measurement approaches for characterizing new parts, and efficient new methods for characterizing many parts at once. If you've done something exciting in the area of Measurement, describe it here!</p>
 
 
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<h3>Best Innovation in Measurement Special Prize</h3>
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<p>If you've done excellent work in measurement, you should consider nominating your team for this special prize. Designing great measurement approaches for characterizing new parts or developing and implementing an efficient new method for characterizing thousands of parts are good examples.
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To compete for the <a href="https://2017.igem.org/Judging/Awards">Best Innovation in Measurement prize</a>, please describe your work on this page and also fill out the description on the <a href="https://2017.igem.org/Judging/Judging_Form">judging form</a>.
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You must also delete the message box on the top of this page to be eligible for this prize.
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<h5>Inspiration</h5>
 
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<p>You can look at what other teams did to get some inspiration! <br />
 
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Here are a few examples:</p>
 
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<li><a href="https://2016.igem.org/Team:Stanford-Brown">2016 Stanford-Brown</a></li>
 
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<li><a href="https://2016.igem.org/Team:Genspace">2016 Genspace</a></li>
 
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<li><a href="https://2015.igem.org/Team:William_and_Mary">2015 William and Mary</a></li>
 
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<li><a href="https://2014.igem.org/Team:Aachen">2014 Aachen  </a></li>
 
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Revision as of 10:26, 30 October 2017

Notebook

BioBrick

BioBrick Part: BBa_K381001 was first used by team BCCS-Bristol in iGEM 2010. This part that created by Katharine Coyte is a nitrate and nitrite sensitive promoter PyeaR with a GFP coding device and strong RBS to create a nitrate-sensitive system which signals through expression of Green Fluorescence Protein. In 2010, the team BCCS-Bristol used it to sense the concentration in soil. Yet, our team think that the potential of K381001 is not only limited in detecting the nitrate concentration in soil. This year, our team, NCKU-TAINAN decided to create a whole new measurement system for sensing the nitrate level in aquaculture water by using this part

How dose it work ? Lyophilized E. coli powder ?

The nitrate in water will activate PyeaR promoter and lead to expression of GFP. We realize that liquid broth E. coli doesn’t work well in this system, having to wait for a long-time period to get the value, which is not accepted by fish farmers because a sudden increase of nitrate level will lead to the dead of the whole pool in an instant. Therefore, instead of liquid broth, we choose lyophilized E. coli powder as our platform. When water pumped into the cuvette, activity of lyophilized E. coli recovered and showed corresponding fluorescence intensity along with different nitrate level in merely 20 minutes. Comparing to 4 hours detection time in broth process, the time cost of lyophilized E. coli powder decreases dramatically.

Figure 1 . The lyophilized E. coli powder

Nitrate Sensor

The BioBrick alone is not enough to create a fully functional measurement system, a sensing device is also one of the key element to perfect the system. After doing some research, we self-assembled a portable GFP sensing device.

Figure 2 . Our idea of sensing the GFP expressed by the lyophilized E. coli powder

The Mechanism

The value of fluorescence is detected by our sensing device and record as voltage form. Cross-matching our data base and modelling results with voltage signal detected by device, we can evaluate the nitrate level in water accurately to 1 ppm interval. In a relatively short time period, 20 minute , our users can know the nitrate level of the pool via our app.

Figure 3 . The look of our sensing system when sensing the GFP expressed by the lyophilized E. coli powder.

Advantages

Compare to the spectrophotometer in the lab, our sensing device is smaller, more portable and less energy consumed. In corporate with our data base and modelling result, we can assure the sensitivity of our Nitrate Sensor is accurate. Last but not least, due to the portability of the sensing device and storability of the lyophilized E. coli powder, this method has a lot of potential to be commercialized.