Difference between revisions of "Team:HKUST-Rice/Safety"

 
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{{HKUST-Rice}}
 
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<h1>Nitrate Sensor</h1>
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<hr class= "title">
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<p style="font-size: 400%; padding-left: 600px; color: #3D3D29"> <u> SAFETY </u> </p>
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<p style="font-size: 300%; padding-left: 10px; color: #565656"> SAFE ORGANISM</p>
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        <table id="safety_table" border="2px" align="center">
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<thead>
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        <tr>
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  <th>Species name (including strain)</th>
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  <th>Risk Group</th>
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    <th>Source</th>
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    <th>Risks to human</th>
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    <th>Ways for acquiring it</th>
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    <th>Ways of usage</th>
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<i>E.coli</i> (DH10B)
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Group 1
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#safety_table {
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<a href="http://tools.invitrogen.com/content/sfs/msds/2013/500015_MTR-NALT_EN.pdf">
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http://tools.invitrogen<br>
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.com/content/sfs/msds/2<br>
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013/500015_MTR-NALT_EN.pdf<br></a>
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<td style="padding-left:10px">It may be harmful to people who inhale or swallow. In rare case, such as with susceptible person, it can cause eye and skin irritation.</td>
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<td>As our chassis.</td>
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<i>E.coli</i> (TK2240)
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</head>
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</td>
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<td>
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<div class= "project_superrow">
 +
<div id= "page_title"><h1>SAFETY</h1>
 +
</div></div>
 
 
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<td>
 
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<a href=#></a>
 
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<td> Used in Potassium sensor experiments.</td>
 
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                <tbody style="text-align:center">
 
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<tr>
 
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<td>
 
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<i>E.coli</i> (S17) <br>
 
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</td>
 
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<td>
 
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</td>
 
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<td>
 
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<a href=#></a>
 
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</td>
 
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<td></td>
 
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<td></td>
 
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                <tbody style="text-align:center">
 
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<tr>
 
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<td>
 
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<i>Azotobacter <br>vinelandii</i> (#) <br>
 
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</td>
 
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<td>
 
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</td>
 
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<td>
 
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<a href=#></a>
 
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</td>
 
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<td></td>
 
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<td></td>
 
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<td>Proof-of-concept experiments in application</td>
 
−
 
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                <tbody style="text-align:center">
 
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<tr>
 
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<td>
 
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<i>Rhizobium <br>leguminosarum</i> (#) <br>
 
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</td>
 
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<td>
 
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</td>
 
−
<td>
 
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<a href=#></a>
 
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</td>
 
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<td></td>
 
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<td></td>
 
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<td>Proof-of-concept experiments in application</td>
 
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                </tr></table>
 
−
 
 
 
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<p style="font-size: 300%; padding-left: 10px; color: #565656"> SAFE PROJECT DESIGN</P>  
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<div class="project_content">
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<p style="font-size: 300%; padding-left: 10px; color: #565656"> SAFETY TRAINING COURSES</P>
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<div class="project_row"><br>
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<p style="font-size: 150%; padding-left: 10px; color: #000000">This year's HKUST-Rice team members have received safety training over the summer. Topics that we have learned about in safety training are as following: <br><br>For HKUST:</p>  
+
<br><h1>SAFE ORGANISMS</h1>
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+
−
<ol type= "1">
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<table id="safety_table" border="2px" align="center">
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<li style=" font-size: 150%; padding-left: 100px; color: #000000"> Biological Safety </li>
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<thead>
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<li style=" font-size: 150%; padding-left: 100px; color: #000000"> Chemical Safety I/ Chemical Safety for Laboratory Users</li>
+
<tr>
−
<li style=" font-size: 150%; padding-left: 100px; color: #000000"> Chemical Safety II/ Hazardous Waste Management</li>
+
<th>Species name (including strain)</th>
−
</ol>
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<th>Risk Group</th>
−
<br>
+
<th>Source</th>
−
<p style="font-size: 130%; padding-left: 10px; color: #000000">The link to the laboratory safety training requirements of our institution (The Hong Kong University of Science and Technology, HKUST) can be directed to:  
+
<th>Human Risks</th>
−
<a href="http://www.ab.ust.hk/hseo/training.htm">http://www.ab.ust.hk/hseo/training.htm</a>
+
<th>Aquisition</th>
−
 
+
<th>Use</th>
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<br><br><p style="font-size: 150%; padding-left: 10px; color: #000000"> For RICE University: </p>  
+
</tr>
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+
</thead>
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+
−
<!--<h2>Safety in iGEM</h2>
+
<tbody style="text-align:center">
−
 
+
<tr>
−
<p>Please visit <a href="https://2015.igem.org/Safety">the main Safety page</a> to find this year's safety requirements & deadlines, and to learn about safe & responsible research in iGEM.</p>
+
<td width="5%"><i>E. coli</i> <br>(DH10B)</td>
−
 
+
<td width="5%">Group 1</td>
−
<p>On this page of your wiki, you should write about how you are addressing any safety issues in your project. The wiki is a place where you can <strong>go beyond the questions on the safety forms</strong>, and write about whatever safety topics are most interesting in your project. (You do not need to copy your safety forms onto this wiki page.)</p>
+
<td width="25%">
−
 
+
<a href="http://tools.thermofisher.com/content/sfs/msds/2013/500015_MTR-NALT_EN.pdf" target="_blank">
−
 
+
http://tools.thermofisher.com/content/sfs<br>/msds/2013/500015_MTR-NALT_EN.pdf<br>
−
<h4>Safe Project Design</h4>
+
013/500015_MTR-NALT_EN.pdf<br></a>
−
 
+
</td>
−
<p>Does your project include any safety features? Have you made certain decisions about the design to reduce risks? Write about them here! For example:</p>
+
<td width="35%"">Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases.</td>
−
 
+
<td width="15%">We acquired from Professor King Lau Chow's lab in HKUST </td>
−
<ul>
+
<td width="15%">As a chassis for experiments and cloning
−
<li>Choosing a non-pathogenic chassis</li>
+
−
<li>Choosing parts that will not harm humans / animals / plants</li>
+
<tbody style="text-align:center">
−
<li>Substituting safer materials for dangerous materials in a proof-of-concept experiment</li>
+
<tr>
−
<li>Including an "induced lethality" or "kill-switch" device</li>
+
<td><i>E. coli</i> <br>(TK2240)</td>
−
</ul>
+
<td>Group 1</td>
−
 
+
<td>
−
<h4>Safe Lab Work</h4>
+
National Institute of Health
−
 
+
</td>
−
<p>What safety procedures do you use every day in the lab? Did you perform any unusual experiments, or face any unusual safety issues? Write about them here!</p>
+
<td>Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases.</td>
−
 
+
<td>Laermann, V., Ćudić, E., Kipschull, K., Zimmann, P., & Altendorf, K. (2013). The sensor kinase KdpD of <i>Escherichia coli</i> senses external K<sup>+</sup>. Molecular microbiology, 88(6), 1194-</td>
−
<h4>Safe Shipment</h4>
+
<td>As a chassis for experiments with <i>P<sub>kdpF</sub></i> and its mutant</td>
−
 
+
<tbody style="text-align:center">
−
<p>Did you face any safety problems in sending your DNA parts to the Registry? How did you solve those problems?</p>-->
+
<tr>
−
 
+
<td><i>E. coli</i><br> (BL21 Rosetta)</td>
−
 
+
<td>Group 1</td>
−
</div>
+
<td>
−
</html>
+
National Institute of Health
 +
</td>
 +
<td>Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases.</td>
 +
<td>Acquired from Professor Minjie Zhang's lab in HKUST</td>
 +
<td>For producing crude cell extract for TX-TL cell free system</td>
 +
 +
<tbody style="text-align:center">
 +
<tr>
 +
<td><i>E. coli</i><br> (S17)<br></td>
 +
<td>Group 1</td>
 +
<td>
 +
U.S. Public Health Service Guidelines
 +
</td>
 +
<td>Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases.</td>
 +
<td>Acquired from Silberg Lab in Rice University
 +
</td>
 +
<td><i>E. coli</i> used to conjugate with soil bacteria
 +
</td>
 +
 +
<tbody style="text-align:center">
 +
<tr>
 +
<td><i>E. coli</i><br> (XL-1 EC) <br></td>
 +
<td>Group 1</td>
 +
<td>
 +
U.S. Public Health Service Guidelines
 +
</td>
 +
<td>Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases.</td>
 +
<td>Acquired from Silberg Lab in Rice University
 +
</td>
 +
<td>Standard strain used for cloning</td>
 +
<tbody style="text-align:center">
 +
<tr>
 +
<td><i>E. coli</i><br> (MG1655) <br></td>
 +
<td>Group 1</td>
 +
<td>
 +
U.S. Public Health Service Guidelines
 +
</td>
 +
<td>Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases.</td>
 +
<td>Acquired from Silberg Lab in Rice University
 +
</td>
 +
<td>WT used to conjugate w/ MG1655</td>
 +
<tbody style="text-align:center">
 +
<tr>
 +
<td><i>E. coli</i><br> (NEB 10-beta <br>DH10B derivative) <br></td>
 +
<td>Group 1</td>
 +
<td>
 +
U.S. Public Health Service Guidelines
 +
</td>
 +
<td>Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases.</td>
 +
<td>Acquired from Tabor Lab in Rice University
 +
</td>
 +
<td>Standard strain used for cloning</td>
 +
<tbody style="text-align:center">
 +
<tr>
 +
<td><i>E. coli</i><br> (JW1212-1) <br></td>
 +
<td>Group 1</td>
 +
<td>
 +
U.S. Public Health Service Guidelines
 +
</td>
 +
<td>Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases.</td>
 +
<td>Acquired from Yale CGSC
 +
</td>
 +
<td>As a chassis for experiments related to <i>P<sub>dcuS</sub></i></td>
 +
<tbody style="text-align:center">
 +
<tr>
 +
<td><i>Azotobacter <br>vinelandii</i><br> (ATCC 12837) <br></td>
 +
<td>Group 1</td>
 +
<td>
 +
<a href="http://www.agrian.com/pdfs/HYTa_0-0-0.5_MSDS.pdf" target="_blank">http://www.agrian.<br>com/pdfs/HYTa_0-0-0.5_MSDS.pdf</a>
 +
</td>
 +
<td>May cause eye irritation; discomfort and temporary nausea if swallowed accidentally.</td>
 +
<td>ATCC
 +
</td>
 +
<td>conjugation of <i>E. coli</i> to soil bacteria</td>
 +
 +
<tbody style="text-align:center">
 +
<tr>
 +
<td>
 +
<i>Rhizobium <br>leguminosarum</i><br> (ATCC 10004) <br></td>
 +
<td>Group 1</td>
 +
<td><a href="http://xitebio.ca/pea-&-lentil-inoculant/PeasRhizo-MSDS.pdf" target="_blank">http://xitebio.ca/pea-&-lentil-inoculant/<br>PeasRhizo-MSDS.pdf</a></td>
 +
<td>No known health effects.</td>
 +
<td>ATCC
 +
</td>
 +
<td>conjugation of <i>E. coli</i> to soil bacteria</td>
 +
</tr></table>
 +
</div>
 +
 +
<div class="project_row">
 +
<hr class="para">
 +
<h1>SAFE PROJECT DESIGN</h1>
 +
 +
<p>Biological safety is our priority, especially when our focus are related to the agricultural business. Our team does not want to release and genetically engineered organism into the field, nor to contaminate crop by directly applying the bacteria into the field.
 +
</p>
 +
<h1>Two Approaches Ensuring Biosafety</h1>
 +
<p>Keeping a biological sample quarantined is the key to maintaining biological safety. As a responsible iGEM team, we will not release any of our genetically modified organism outside the laboratory. In our design, we emphasize keeping the biosensors in the laboratory and bringing a soil sample to the laboratory, instead of putting the biosensors to the field for in situ detection of NPK levels.</p><p>
 +
Using a non-living biosensor is another approach that came to mind. This way, even if the sensor is accidentally released into the field, it will not be able to sustain nor to propagate itself. We opt to use a cell-free transcription-translation system (CF TX-TL) system as the chassis of the non-living biosensors.
 +
 +
</p>
 +
</div>
 +
 +
 +
<div class="project_row">
 +
<hr class="para">
 +
<h1>SAFETY TRAINING COURSES</h1>
 +
<p>This year's HKUST-Rice team members have received safety training over the summer. Topics that we have learned about in safety training are as follows:</p>  
 +
<p style=" font-size: 140%; line-height: 140%;">For HKUST:
 +
 +
<br>1. Biological Safety  
 +
<br>2. Chemical Safety I/ Chemical Safety for Laboratory Users
 +
<br>3. Chemical Safety II/ Hazardous Waste Management
 +
 +
<br><br> <i style="text-align: center; font-size: 90%; line-height: 110%;">The link to the laboratory safety training requirements of our institution (The Hong Kong University of Science and Technology, HKUST) can be  
 +
directed to: <a href="http://www.ab.ust.hk/hseo/training.htm" target="_blank">http://www.ab.ust.hk/hseo/training.htm</a></i>
 +
</p>
 +
 +
<p style=" font-size: 140%; line-height: 140%;">For Rice University:
 +
 +
<br>1. General Laboratory Safety
 +
<br>2. Blood Safety and Blood Borne Pathogens
 +
 +
<br><br> <i style="text-align: center; font-size: 90%; line-height: 110%;">The link to the laboratory safety training requirements of our institution (Rice University) can be directed to:  
 +
<a href="http://safety.rice.edu/Training/Safety_Training_Requirements/" target="_blank">http://safety.rice.edu/Training/Safety_Training_Requirements/</a></i>
 +
</p>  
 +
 +
</div>
 +
 +
</div>
 +
</html>
 +
{{HKUST-Rice Directory}}
 +
 +
<!--<h2>Safety in iGEM</h2>
 +
 +
<p>Please visit <a href="https://2015.igem.org/Safety">the main Safety page</a> to find this year's safety requirements & deadlines, and to learn about safe & responsible research in iGEM.</p>
 +
 +
<p>On this page of your wiki, you should write about how you are addressing any safety issues in your project. The wiki is a place where you can <strong>go beyond the questions on the safety forms</strong>, and write about whatever safety topics are most interesting in your project. (You do not need to copy your safety forms onto this wiki page.)</p>
 +
 +
 +
<h4>Safe Project Design</h4>
 +
 +
<p>Does your project include any safety features? Have you made certain decisions about the design to reduce risks? Write about them here! For example:</p>
 +
 +
<ul>
 +
<li>Choosing a non-pathogenic chassis</li>
 +
<li>Choosing parts that will not harm humans / animals / plants</li>
 +
<li>Substituting safer materials for dangerous materials in a proof-of-concept experiment</li>
 +
<li>Including an "induced lethality" or "kill-switch" device</li>
 +
</ul>
 +
 +
<h4>Safe Lab Work</h4>
 +
 +
<p>What safety procedures do you use every day in the lab? Did you perform any unusual experiments, or face any unusual safety issues? Write about them here!</p>
 +
 +
<h4>Safe Shipment</h4>
 +
 +
<p>Did you face any safety problems in sending your DNA parts to the Registry? How did you solve those problems?</p>-->

Latest revision as of 04:41, 18 September 2015

SAFETY



SAFE ORGANISMS

Species name (including strain) Risk Group Source Human Risks Aquisition Use
E. coli
(DH10B)		 Group 1 http://tools.thermofisher.com/content/sfs
/msds/2013/500015_MTR-NALT_EN.pdf
013/500015_MTR-NALT_EN.pdf
 		Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases. We acquired from Professor King Lau Chow's lab in HKUST As a chassis for experiments and cloning
E. coli
(TK2240)		 Group 1 National Institute of Health Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases. Laermann, V., Ćudić, E., Kipschull, K., Zimmann, P., & Altendorf, K. (2013). The sensor kinase KdpD of Escherichia coli senses external K+. Molecular microbiology, 88(6), 1194- As a chassis for experiments with PkdpF and its mutant
E. coli
(BL21 Rosetta)		 Group 1 National Institute of Health Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases. Acquired from Professor Minjie Zhang's lab in HKUST For producing crude cell extract for TX-TL cell free system
E. coli
(S17)
 Group 1 U.S. Public Health Service Guidelines Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases. Acquired from Silberg Lab in Rice University E. coli used to conjugate with soil bacteria
E. coli
(XL-1 EC)
Group 1 U.S. Public Health Service Guidelines Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases. Acquired from Silberg Lab in Rice University Standard strain used for cloning
E. coli
(MG1655)
Group 1 U.S. Public Health Service Guidelines Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases. Acquired from Silberg Lab in Rice University WT used to conjugate w/ MG1655
E. coli
(NEB 10-beta
DH10B derivative)
Group 1 U.S. Public Health Service Guidelines Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases. Acquired from Tabor Lab in Rice University Standard strain used for cloning
E. coli
(JW1212-1)
Group 1 U.S. Public Health Service Guidelines Potentially harmful when inhaled or swallowed. Can cause eye and skin irritation in rare cases. Acquired from Yale CGSC As a chassis for experiments related to PdcuS
Azotobacter
vinelandii
(ATCC 12837)
Group 1 http://www.agrian.
com/pdfs/HYTa_0-0-0.5_MSDS.pdf 		May cause eye irritation; discomfort and temporary nausea if swallowed accidentally. ATCC conjugation of E. coli to soil bacteria
Rhizobium
leguminosarum
(ATCC 10004)
Group 1 http://xitebio.ca/pea-&-lentil-inoculant/
PeasRhizo-MSDS.pdf		 No known health effects. ATCC conjugation of E. coli to soil bacteria

SAFE PROJECT DESIGN

Biological safety is our priority, especially when our focus are related to the agricultural business. Our team does not want to release and genetically engineered organism into the field, nor to contaminate crop by directly applying the bacteria into the field.

Two Approaches Ensuring Biosafety

Keeping a biological sample quarantined is the key to maintaining biological safety. As a responsible iGEM team, we will not release any of our genetically modified organism outside the laboratory. In our design, we emphasize keeping the biosensors in the laboratory and bringing a soil sample to the laboratory, instead of putting the biosensors to the field for in situ detection of NPK levels.

Using a non-living biosensor is another approach that came to mind. This way, even if the sensor is accidentally released into the field, it will not be able to sustain nor to propagate itself. We opt to use a cell-free transcription-translation system (CF TX-TL) system as the chassis of the non-living biosensors.

SAFETY TRAINING COURSES

This year's HKUST-Rice team members have received safety training over the summer. Topics that we have learned about in safety training are as follows:

For HKUST:
1. Biological Safety
2. Chemical Safety I/ Chemical Safety for Laboratory Users
3. Chemical Safety II/ Hazardous Waste Management

The link to the laboratory safety training requirements of our institution (The Hong Kong University of Science and Technology, HKUST) can be directed to: http://www.ab.ust.hk/hseo/training.htm

For Rice University:
1. General Laboratory Safety
2. Blood Safety and Blood Borne Pathogens

The link to the laboratory safety training requirements of our institution (Rice University) can be directed to: http://safety.rice.edu/Training/Safety_Training_Requirements/