Team:HokkaidoU Japan/Safety

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<h1 >WELCOME TO iGEM 2014! </h1>
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<p>Your team has been approved and you are ready to start the iGEM season!
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<br>On this page you can document your project, introduce your team members, document your progress <br> and share your iGEM experience with the rest of the world! </p>
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<br>
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<p style="color:#E7E7E7"> <a href="https://2014.igem.org/wiki/index.php?title=Team:HokkaidoU_Japan/Safety&action=edit"style="color:#FFFFFF"> Click here  to edit this page!</a> </p>
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<a href="https://2014.igem.org/Team:HokkaidoU_Japan"style="color:#000000">Home </a> </td>
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<a href="https://2014.igem.org/Team:HokkaidoU_Japan/Team"style="color:#000000"> Team </a> </td>
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<a href="https://igem.org/Team.cgi?year=2014&team_name=HokkaidoU_Japan"style="color:#000000"> Official Team Profile </a></td>
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<a href="https://2014.igem.org/Team:HokkaidoU_Japan/Project"style="color:#000000"> Project</a></td>
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<a href="https://2014.igem.org/Team:HokkaidoU_Japan/Safety"style=" color:#000000"> Safety </a></td>
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<a href="https://2014.igem.org/Team:HokkaidoU_Japan/Attributions"style="color:#000000"> Attributions </a></td>
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      Extra Materials
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      Safety
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                                <span class="menu-list" ><a href="https://2014.igem.org/Team:HokkaidoU_Japan"><span style="position:relative; top:10px;" >Top</span></a></span><!-- Increases to 510px in width-->
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<ul style="margin-left:20px;">
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<li class="ldd_heading"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/Overview/Background">Overview</a></li>
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<li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/Overview/Background">Background</a></li>
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<li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/Overview/Achievements">Achievements</a></li>
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<li class="ldd_heading"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/H_Stem">H-stem System</a></li>
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                                                        <li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/H_Stem#asRNA_stabilization">Stabilization</a></li>
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                                                        <li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/H_Stem#Modelling">Modelling</a></li>
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                                                        <li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/H_Stem#Construct">Construct</a></li>
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                                                        <li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/H_Stem#How_To_Use">How To Use</a></li>
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<li class="ldd_heading"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/asB0034">Anti-sense B0034</a></li>
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            <li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/asB0034">Overview</a></li>
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                                                            <li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/asB0034#Method">Method</a></li>
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                                                            <li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/asB0034#Results">Results</a></li>
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                                                            <li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/asB0034#Conclusion">Conclusion</a></li>
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<li class="ldd_heading"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/Length">Length Variation</a></li>
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            <li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/Length">Overview</a></li>
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                                                            <li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/Length#Method">Method</a></li>
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                                                            <li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/Length#Results">Results</a></li>
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                                                            <li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Projects/Length#Conclusion">Conclusion</a></li>
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<li class="ldd_heading"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Materials">Extra Materials</a></li>
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            <li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Parts">Parts</a></li>
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                                                            <li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Notebook">Notebook</a></li>
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                                                            <li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Safety">Safety</a></li>
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</ul>
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<li class="menu_button">
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<span class="menu-list"><span style="position:relative; top:10px;">Outreach</span></span>
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<div class="ldd_submenu" style="width:590px; left:-230px;">
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<ul style="margin-left:20px;">
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<li class="ldd_heading"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Outreach/Univ_festival">Univ. Festival</a></li>
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<li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Outreach/Univ_festival#Education">Education</a></li>
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<li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Outreach/Univ_festival#Survey">Survey</a></li>
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<li class="ldd_heading"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Outreach/Survey">High School</a></li>
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<li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Outreach/Survey#Education">Education</a></li>
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<li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Outreach/Survey#Survey">Survey</a></li>
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</ul>
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<ul>
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<li class="ldd_heading"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Outreach/Discussion">Discussion</a></li>
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<li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Outreach/Discussion#Background">Background</a></li>
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<li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/Outreach/Discussion#Evaluation">Evaluation</a></li>
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<span class="menu-list"><span style="position:relative; top:10px;">About Us</span></span>
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<li class="ldd_heading"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/About_Us">About Us</a></li>
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<li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/About_Us#Acknowledgements">Acknowledgements</a></li>
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<li class="ldd_contents"><a href="https://2014.igem.org/Team:HokkaidoU_Japan/About_Us#Team">Team</a></li>
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</ul>
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<h1>Basic Safety Questions for iGEM 2014</h1>
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<div class="section">
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  <h2> The organisms and parts that we use  </h2>
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  <div class="answer">
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    <table>
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        <th>Part number</th>
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        <th>Source of DNA</th>
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        <th>Species</th>
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        <th>Risk group</th>
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        <th>Function</th>
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      </tr>
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      <tr><td><i>E. coli</i>(K 12) DH5α</td><td></td><td></td><td>1</td><td></td><tr>
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      <tr><td><i>E. coli</i>(K 12) JM109</td><td></td><td></td><td>1</td><td></td><tr>
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      <tr><td>BBa_K1524100</td><td>Synthesised, Sigma-Genosys</td><td><span class="italic"><i>E. coli</i></span></td><td>1</td><td>stem-loop</td></tr>
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      <tr><td>BBa_K1524101</td><td>distribution kit</td><td><span class="italic"><i>E. coli</i></span></td><td>1</td><td>Reporter gene</td></tr>
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      <tr><td>BBa_K1524102</td><td>distribution kit</td><td><span class="italic"><i>E. coli</i></span></td><td>1</td><td>Reporter gene</td></tr>
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      <tr><td>BBa_K1524104</td><td>Synthesised, Sigma-Genosys</td><td><span class="italic"><i>E. coli</i></span></td><td>1</td><td>sense fragment</td></tr>
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      <tr><td>BBa_K1524105</td><td>Synthesised, Sigma-Genosys</td><td><span class="italic"><i>E. coli</i></span></td><td>1</td><td>sense fragment</td></tr>
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      <tr><td>BBa_K1524106</td><td>Synthesised, Sigma-Genosys</td><td><span class="italic"><i>E. coli</i></span></td><td>1</td><td>sense fragment</td></tr>
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      <tr><td>BBa_K1524107</td><td>Synthesised, Sigma-Genosys</td><td><span class="italic"><i>E. coli</i></span></td><td>1</td><td>sense fragment</td></tr>
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      <tr><td>BBa_K1524108</td><td>Synthesised, Sigma-Genosys</td><td><span class="italic"><i>E. coli</i></span></td><td>1</td><td>sense fragment</td></tr>
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<tr><td > <h3> Welcome! </h3></td>
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<td > <h3> Timeline</h3></td>
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  <h3>Dangerous chemicals</h3>
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  <div class="answer">
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<p> Visit the <a href="https://2014.igem.org/Safety" >Safety Hub</a> to see this year's safety requirements. The Safety Hub is the central page for everything related to safety in iGEM. You can also go there to learn about general biosafety topics, and how to think about the future implications of your project.</p>
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    <dl>
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      <dt>Chloroform</dt><dd>corrosive and toxic : must be used in fume hood</dd>
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      <dt>Ethidium Bromide</dt><dd>intercalating agent : must be used with personal safety gear</dd>
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      <dt>Ethanol</dt><dd>flammable : must not be used near open flame or in large quantities</dd>
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      <dt>Liquid Nitrogen</dt><dd>cryogenic container and cryogenic gloves must be used</dd>
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    </dl>
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  </div>
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  <h3>Procedures and equipment</h3>
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  <div class="answer">
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    <dl>
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      <dt>Agarose gel production</dt><dd>heating in sealed container (rupture risk), scalding hot and vicious during preparation (burn injury risk) - remove container lid before heating in microwave, use safety gear, wait for a few moments before removing from microwave</dd>
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      <dt>Benson burner</dt><dd>fire risk: DO NOT use flammable materials especially ethanol near open fire</dd>
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      <dt>Centrifuge</dt><dd>high velocity: balance appropriately, observe the machine till it reaches top velocity</dd>
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      <dt>Autoclave</dt><dd>high pressure: check the water level, DO NOT open when pressurized</dd>
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      <dt>UV radiation</dt><dd>damage to eyes and skin: use glove and UV box or UV shield</dd>
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    </dl>
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  </div>
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<br>
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  <h3>Non-pathogenic bacteria (policy requires treating as pathogenic, as precaution)</h3>
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<h3> Edit this page!</h3>
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  <div class="answer">
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<p>
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    <ul>
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Please use this page to write about anything related to safety in your project. <!--Be sure to talk about both
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      <li>JM109 </li>
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<ul>
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      <li>DH5alpha </li>
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<li> <a href=" ">Learn about lab Safety for Today</a></li>  
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    </ul>
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<li> <a href="">Learn about Safety for the future of your project.</a></li>
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    <p>
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</ul>
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      Both of these are lab safe strains. As a precaution all materials coming in contact are sterilized before and after.
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-->
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      Reference Federal Register, (1986) Vol. V1: 88, 6952–16985
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</p>
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    </p>
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  </div>
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<h3> Your Lab </h3>
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  <h3>Safety equipment</h3>
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  <div class="answer">
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    <ul>
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      <li>Gloves</li>
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      <li>Coats</li>
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      <li>Goggles</li>
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      <li>UV Box</li>
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      <li>UV shield</li>
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    </ul>
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  </div>
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  <h3>Waste disposal and sterilization</h3>
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  <div class="answer">
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    <ul>
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      <li>All equipments and wastes coming in contact with bacterial are sterilized by autoclave or bleach.</li>
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      <li>All chemicals compounds are disposed according to requirements for their disposal.</li>
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      <li>All table surface used for work are sterilized with 70% ethanol before and after a procedure.</li>
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    </ul>
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  </div>
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<p> Use this section to tell us about your laboratory. Where is it located? What sort of equipment do you use every day? Have you decorated it for the summer? How do you look wearing a lab coat? Take pictures! Show off your space! </p>  
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  <h3>Chemical Usage</h3>
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    All chemical compounds are used according to their manuals and respective material safety data sheet
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Image:Example2_Lab_1.png|The building our lab is in!
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Image:Example2_Lab_2.png|The inside of our lab!
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Image:Example2_Lab_3.png|Team Member 3 doing an experiment
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Image:Example2_Lab_4.png|Working in biosafety cabinets
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Image:Example2_Lab_5.png|Team all gloved up and ready for work!
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Image:Example2_Lab_6.png|Equipment that we use to do SCIENCE!
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Image:Example2_Lab_7.png|We decorated this part of our lab
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Image:Example2_Lab_8.png|Whatever else you want
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  <h2>Genetic material</h2>
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  <h3>Risks to the safety and health of team members, or other people working in the lab:.</h3>
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  <div class="answer">
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    <p>
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      All lab staffs are trained according to safety manual provided by Hokkaido University.
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      We took on ourselves to compile a shortlist of often used dangerous materials and safety procedures in our project.
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    </p>
 +
  </div>  
 +
  <h3>Risks to the safety and health of the general public (if any biological materials escaped from your lab): </h3>
 +
  <div class="answer">
 +
    <p>
 +
      Devices which we made, do not code odd proteins. There are no risk by themselves.
 +
    </p>
 +
  </div>
-
<td width="45%"  valign="top">  
+
  <h3>Risks to the environment (from waste disposal, or from materials escaping from your lab): </h3>
 +
  <div class="answer">
 +
    <p>
 +
      Biodevices which we made, do not code odd proteins. There are no risk to environment.
 +
    </p>
 +
  </div>
 +
  <h3>Risks to security through malicious mis-use by individuals, groups, or countries:  </h3>
 +
  <div class="answer">
 +
    <p>
 +
      Our project is about improving antisense RNA system to be useful. They don’t code odd proteins.
 +
    </p>
 +
  </div>
-
<ul>
+
  <h3>What measures are you taking to reduce these risks? (For example: safe lab practices, choices of which organisms to use.)</h3>
-
<li> <b>Now :</b> Read the <a href="https://2014.igem.org/Safety">Safety Hub </a> and learn about safety in iGEM. Ask questions by emailing safety at <i> igem DOT org </i>. </li>
+
  <div class="answer">
-
<li><b>Now - Jamboree:</b> Complete <b>Check-Ins</b> and receive approval before acquiring and using certain materials in your lab</li>
+
    <p>
-
<li><b>Now - Wiki Freeze:</b> Edit this Safety page to tell us about what you're doing</li>
+
      Our projects are only related to antisense RNA system. They are not toxic substances nor substances that influence nature. Therefore that designs are not need.
-
<li><b>June 9: </b>Submit the About Our Lab form.</li>
+
    </p>
-
<li><b>Let us know by June 25 </b>if you will need an extension on the Preliminary Version, or your Preliminary Version will be significantly incomplete.</li>
+
  </div>  
-
<li><b>June 30: </b>Submit the Preliminary Version of the <b>Safety Form</b>.</li>
+
-
<li>Participate in Virtual Open Office Hours to ask questions and discuss safety topics (exact date to be determined).</li>
+
-
<li><b>September 1:</b> Submit the Final Version of the Safety Form.</li>
+
-
<li><b>October: </b> Wiki freeze (exact date to be determined)</li>
+
-
<li><b>October 30 - November 3: </b>GIANT JAMBOREE!</li>
+
-
</ul>
+
  <h3>Risks of Your Project in the Future</h3>
-
</td>
+
  <div class="answer">
 +
    <p>
 +
      Our project aims to make silencing system more efficient by using antisense RNA. There are no risk because the system leads to only control expression of proteins.
 +
    </p>
 +
  </div>  
-
</tr>
+
 +
  <h2>Safety training we received</h2>
 +
  <div class="answer">
 +
    <p>
 +
      We all received a lecture class regarding gene recombination that was held in Hokkaido University we belong to. It is based on ’Act on the Conservation and Sustainable Use of Biological Diversity through Regulations on the Use of Living Modified Organisms’ , ’Regulations related to the Enforcement of the Law concerning the Conservation and Sustainable Use of Biological Diversity through Regulations on the Use of Living Modified Organisms’ and ’The Ministerial Ordinance Providing Containment Measures to Be Taken in Type 2 Use of Living Modified Organisms for Research and Development’ , Japanese laws.
 +
    </p>
 +
  </div>
 +
  <h2>Biosafety provisions</h2>
 +
  <h3>Link to the laboratory safety training requirements of our institution.  </h3>
 +
  <div class="answer">
 +
  <p>
 +
    <a href="http://www.hokudai.ac.jp/jimuk/reiki/reiki_honbun/u010RG00000583.html#e000000477 ">http://www.hokudai.ac.jp/jimuk/reiki/reiki_honbun/u010RG00000583.html#e000000477 </a>
 +
    <br> (Biosafety guidelines of Hokkaido university, section 5-23)
 +
  <br> <a href="http://www.hokudai.ac.jp/jimuk/reiki/reiki_honbun/u010RG00000583.html">http://www.hokudai.ac.jp/jimuk/reiki/reiki_honbun/u010RG00000583.html</a>
 +
    <br>(Biosafety guidelines of Hokkaido University)
 +
  </p>
 +
  </div>
 +
  <h3>Our country’s national biosafety regulations and guidelines</h3>
 +
  <div class="answer">
 +
  <p>
 +
    <a href="http://www.bch.biodic.go.jp/houreiList06.html">http://www.bch.biodic.go.jp/houreiList06.html</a><br>
 +
    <a href="http://www.bch.biodic.go.jp/houreiList04.html">http://www.bch.biodic.go.jp/houreiList04.html</a><br>
 +
    <a href="http://www.bch.biodic.go.jp/houreiList01.html">http://www.bch.biodic.go.jp/houreiList01.html</a>
 +
    (Reference Ministry of the Environment)
 +
  </p>
 +
  </div>
-
<tr>
+
 
 +
  <h3>Biosafety Level rating of our lab.</h3>
 +
  <div class="answer">
 +
    <p>
 +
      Our labs Bio safety level is 2.
 +
    </p>
 +
  </div>
 +
  <h3>The Risk Group of our chassis organisms.</h3>
 +
  <div class="answer">
 +
    <p>
 +
      The Risk Group of our chassis organisms is 1.
 +
    </p>
 +
  </div>
 +
  <h2>Faculty Advisor</h2>
 +
  <div class="answer">
 +
    Yamazaki Ken-ichi
 +
  </div>
 +
</div>
 +
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{{Team:HokkaidoU_Japan/JS}}

Latest revision as of 15:33, 9 September 2015

Extra Materials
Safety

Basic Safety Questions for iGEM 2014

The organisms and parts that we use

 
Part number Source of DNA Species Risk group Function
E. coli(K 12) DH5α1
E. coli(K 12) JM1091
BBa_K1524100Synthesised, Sigma-GenosysE. coli1stem-loop
BBa_K1524101distribution kitE. coli1Reporter gene
BBa_K1524102distribution kitE. coli1Reporter gene
BBa_K1524104Synthesised, Sigma-GenosysE. coli1sense fragment
BBa_K1524105Synthesised, Sigma-GenosysE. coli1sense fragment
BBa_K1524106Synthesised, Sigma-GenosysE. coli1sense fragment
BBa_K1524107Synthesised, Sigma-GenosysE. coli1sense fragment
BBa_K1524108Synthesised, Sigma-GenosysE. coli1sense fragment

Dangerous chemicals

Chloroform
corrosive and toxic : must be used in fume hood
Ethidium Bromide
intercalating agent : must be used with personal safety gear
Ethanol
flammable : must not be used near open flame or in large quantities
Liquid Nitrogen
cryogenic container and cryogenic gloves must be used

Procedures and equipment

Agarose gel production
heating in sealed container (rupture risk), scalding hot and vicious during preparation (burn injury risk) - remove container lid before heating in microwave, use safety gear, wait for a few moments before removing from microwave
Benson burner
fire risk: DO NOT use flammable materials especially ethanol near open fire
Centrifuge
high velocity: balance appropriately, observe the machine till it reaches top velocity
Autoclave
high pressure: check the water level, DO NOT open when pressurized
UV radiation
damage to eyes and skin: use glove and UV box or UV shield

Non-pathogenic bacteria (policy requires treating as pathogenic, as precaution)

  • JM109
  • DH5alpha

Both of these are lab safe strains. As a precaution all materials coming in contact are sterilized before and after. Reference Federal Register, (1986) Vol. V1: 88, 6952–16985

Safety equipment

  • Gloves
  • Coats
  • Goggles
  • UV Box
  • UV shield

Waste disposal and sterilization

  • All equipments and wastes coming in contact with bacterial are sterilized by autoclave or bleach.
  • All chemicals compounds are disposed according to requirements for their disposal.
  • All table surface used for work are sterilized with 70% ethanol before and after a procedure.

Chemical Usage

All chemical compounds are used according to their manuals and respective material safety data sheet

Genetic material

Risks to the safety and health of team members, or other people working in the lab:.

All lab staffs are trained according to safety manual provided by Hokkaido University. We took on ourselves to compile a shortlist of often used dangerous materials and safety procedures in our project.

Risks to the safety and health of the general public (if any biological materials escaped from your lab):

Devices which we made, do not code odd proteins. There are no risk by themselves.

Risks to the environment (from waste disposal, or from materials escaping from your lab):

Biodevices which we made, do not code odd proteins. There are no risk to environment.

Risks to security through malicious mis-use by individuals, groups, or countries:

Our project is about improving antisense RNA system to be useful. They don’t code odd proteins.

What measures are you taking to reduce these risks? (For example: safe lab practices, choices of which organisms to use.)

Our projects are only related to antisense RNA system. They are not toxic substances nor substances that influence nature. Therefore that designs are not need.

Risks of Your Project in the Future

Our project aims to make silencing system more efficient by using antisense RNA. There are no risk because the system leads to only control expression of proteins.

Safety training we received

We all received a lecture class regarding gene recombination that was held in Hokkaido University we belong to. It is based on ’Act on the Conservation and Sustainable Use of Biological Diversity through Regulations on the Use of Living Modified Organisms’ , ’Regulations related to the Enforcement of the Law concerning the Conservation and Sustainable Use of Biological Diversity through Regulations on the Use of Living Modified Organisms’ and ’The Ministerial Ordinance Providing Containment Measures to Be Taken in Type 2 Use of Living Modified Organisms for Research and Development’ , Japanese laws.

Biosafety provisions

Link to the laboratory safety training requirements of our institution.

http://www.hokudai.ac.jp/jimuk/reiki/reiki_honbun/u010RG00000583.html#e000000477
(Biosafety guidelines of Hokkaido university, section 5-23)
http://www.hokudai.ac.jp/jimuk/reiki/reiki_honbun/u010RG00000583.html
(Biosafety guidelines of Hokkaido University)

Our country’s national biosafety regulations and guidelines

http://www.bch.biodic.go.jp/houreiList06.html
http://www.bch.biodic.go.jp/houreiList04.html
http://www.bch.biodic.go.jp/houreiList01.html (Reference Ministry of the Environment)

Biosafety Level rating of our lab.

Our labs Bio safety level is 2.

The Risk Group of our chassis organisms.

The Risk Group of our chassis organisms is 1.

Faculty Advisor

Yamazaki Ken-ichi

Retrieved from "http://2014.igem.org/Team:HokkaidoU_Japan/Safety"