http://2008.igem.org/wiki/index.php?title=Team:Harvard/Hardware&feed=atom&action=historyTeam:Harvard/Hardware - Revision history2024-03-28T10:00:01ZRevision history for this page on the wikiMediaWiki 1.16.5http://2008.igem.org/wiki/index.php?title=Team:Harvard/Hardware&diff=104527&oldid=prevJoyy: /* Software */2008-10-30T04:12:15Z<p><span class="autocomment">Software</span></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* In Labview, an instrument panel is used to allow users to specify inputs and to display the status of program variables. Our instrument panel is shown here.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* In Labview, an instrument panel is used to allow users to specify inputs and to display the status of program variables. Our instrument panel is shown here.</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>[[Image:<del class="diffchange diffchange-inline">LV_vi1</del>.<del class="diffchange diffchange-inline">png </del>|<del class="diffchange diffchange-inline">350px| left]][[Image:LV_vi2.png | 350px</del>]]</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>[[Image:<ins class="diffchange diffchange-inline">Labview2</ins>.<ins class="diffchange diffchange-inline">jpg</ins>|<ins class="diffchange diffchange-inline">600px</ins>]]</div></td></tr>
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</table>Joyyhttp://2008.igem.org/wiki/index.php?title=Team:Harvard/Hardware&diff=104503&oldid=prevJoyy: /* Software */2008-10-30T04:10:40Z<p><span class="autocomment">Software</span></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* In LabVIEW, a block diagram is used to visually write c code. Our block diagram is shown here.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* In LabVIEW, a block diagram is used to visually write c code. Our block diagram is shown here.</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>[[Image:<del class="diffchange diffchange-inline">LV_block1</del>.<del class="diffchange diffchange-inline">png |350px|left]][[Image:LV_block2.png | 350px</del>|]]</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>[[Image:<ins class="diffchange diffchange-inline">Labview</ins>.<ins class="diffchange diffchange-inline">jpg</ins>|<ins class="diffchange diffchange-inline">600px</ins>]]</div></td></tr>
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</table>Joyyhttp://2008.igem.org/wiki/index.php?title=Team:Harvard/Hardware&diff=104450&oldid=prevJoyy: /* Software */2008-10-30T04:07:54Z<p><span class="autocomment">Software</span></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* In LabVIEW, a block diagram is used to visually write c code. Our block diagram is shown here.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* In LabVIEW, a block diagram is used to visually write c code. Our block diagram is shown here.</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>[[Image:LV_block1.png |350px|left]] [[Image:LV_block2.png | 350px|]]</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>[[Image:LV_block1.png |350px|left]][[Image:LV_block2.png | 350px|]]</div></td></tr>
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</table>Joyyhttp://2008.igem.org/wiki/index.php?title=Team:Harvard/Hardware&diff=104048&oldid=prevWorkman: /* Specifications */2008-10-30T03:55:01Z<p><span class="autocomment">Specifications</span></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* anaerobic/aerobic</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* anaerobic/aerobic</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del class="diffchange diffchange-inline">s</del>. <del class="diffchange diffchange-inline">Odenisis </del>only oxidizes substrates in anaerobic environments. The chambers housing the bacteria must be oxygen free and airtight. </div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">S</ins>. <ins class="diffchange diffchange-inline">oneidensis MR-1 </ins>only oxidizes substrates in anaerobic environments. The chambers housing the bacteria must be oxygen free and airtight. </div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* sterile</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* sterile</div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* accessible</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* accessible</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>Experimenters must have access to the bacterial environment. </div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>Experimenters must have access to the bacterial environment.</div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Approach==</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Approach==</div></td></tr>
</table>Workmanhttp://2008.igem.org/wiki/index.php?title=Team:Harvard/Hardware&diff=104008&oldid=prevWorkman: /* Fuel Cells */2008-10-30T03:54:05Z<p><span class="autocomment">Fuel Cells</span></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The simple picture of our design was a hollow tube, sealed at both ends with endplates, and cut in half horizontally to allow for insertion of a semi-permeable membrane. The two halves would then be clamped back together to close the system. Ports needed to be drilled into the walls of the tube to allow for insertion of the anode and cathode, as well as to initially fill the sealed chambers with media and inject bacteria and food. Previous research suggested bubbling gasses into the chambers could improve performance. In the anode chamber, nitrogen was typically bubbled to purge the chamber of oxygen, keeping the bacteria in a controlled anaerobic environment. In the cathode chamber, air was typically bubbled to provide a continuous source of oxygen, ensuring an efficient reduction reaction. We decided to include ports for gas inlet and outlet as well.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The simple picture of our design was a hollow tube, sealed at both ends with endplates, and cut in half horizontally to allow for insertion of a semi-permeable membrane. The two halves would then be clamped back together to close the system. Ports needed to be drilled into the walls of the tube to allow for insertion of the anode and cathode, as well as to initially fill the sealed chambers with media and inject bacteria and food. Previous research suggested bubbling gasses into the chambers could improve performance. In the anode chamber, nitrogen was typically bubbled to purge the chamber of oxygen, keeping the bacteria in a controlled anaerobic environment. In the cathode chamber, air was typically bubbled to provide a continuous source of oxygen, ensuring an efficient reduction reaction. We decided to include ports for gas inlet and outlet as well.</div></td></tr>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>Materials for the chamber were then selected. The central tube and endplates were made from polycarbonate. This is a clear, hard plastic that is easily bonded to itself with silicone glue. It has the added benefit of allowing visual monitoring of the chambers, it is easily milled, and it can be autoclaved. Silicone was used in glue form to bond the tubes to their endplates, and it was used in solidified from to construct gaskets which sealed the two chambers together when clamped. The clamping mechanism involved drilling holes through the overlap of the endplates, inserting iron threaded rods down the length of the chambers, and fastening the ends of the rods with wing nuts. </div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>Materials for the chamber were then selected. The central tube and endplates were made from polycarbonate. This is a clear, hard plastic that is easily bonded to itself with silicone glue. It has the added benefit of allowing visual monitoring of the chambers, it is easily milled, and it can be autoclaved. Silicone was used in glue form to bond the tubes to their endplates, and it was used in solidified from to construct gaskets which sealed the two chambers together when clamped. The clamping mechanism involved drilling holes through the overlap of the endplates, inserting iron threaded rods down the length of the chambers, and fastening the ends of the rods with wing nuts<ins class="diffchange diffchange-inline">.</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> </div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">The anode material was chosen to provide maximal surface area and attachment sites for bacteria. Carbon felt provided such a surface.</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> </div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">The cathode material needed to provide an efficient surface for the reduction reactions to take place. Platinum on carbon cloth acted as a catalyst for this reaction.</ins></div></td></tr>
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<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">Titanium wire was used to connect the cathode and anode surfaces to an external resistor as it cannot be oxidized, which would interfere with the reactions</ins>.</div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>====Measurement====</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>====Measurement====</div></td></tr>
</table>Workmanhttp://2008.igem.org/wiki/index.php?title=Team:Harvard/Hardware&diff=101762&oldid=prevLauren: /* Motivation */2008-10-30T02:34:12Z<p><span class="autocomment">Motivation</span></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Motivation==</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Motivation==</div></td></tr>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>The broad goal of our project was to engineer <del class="diffchange diffchange-inline">s</del>. Oneidensis to produce a detectable change in electric current in response to some environmental stimulus. In order to observe such a reaction, our first task was to design an environment capable of housing bacteria and measuring current production.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>The broad goal of our project was to engineer <ins class="diffchange diffchange-inline">''S</ins>. Oneidensis<ins class="diffchange diffchange-inline">'' </ins>to produce a detectable change in electric current in response to some environmental stimulus. In order to observe such a reaction, our first task was to design an environment capable of housing bacteria and measuring current production.</div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Solution - Microbial Fuel Cells==</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Solution - Microbial Fuel Cells==</div></td></tr>
</table>Laurenhttp://2008.igem.org/wiki/index.php?title=Team:Harvard/Hardware&diff=101093&oldid=prevDangong: /* Background */2008-10-30T02:06:43Z<p><span class="autocomment">Background</span></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>A figure of a microbial fuel cell is shown below (NB: this is not what we used in our experiments). </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>A figure of a microbial fuel cell is shown below (NB: this is not what we used in our experiments). </div></td></tr>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>[[ Image: Snapshot1.png | <del class="diffchange diffchange-inline">300px </del>]]</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>[[ Image: Snapshot1.png | <ins class="diffchange diffchange-inline">350px </ins>]]</div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>On the anode side, glucose is being metabolized by the microorganism to yield electrons which are transferred to the cathode side where oxygen is reduced to water (Lovley 2006).</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>On the anode side, glucose is being metabolized by the microorganism to yield electrons which are transferred to the cathode side where oxygen is reduced to water (Lovley 2006).</div></td></tr>
</table>Dangonghttp://2008.igem.org/wiki/index.php?title=Team:Harvard/Hardware&diff=101081&oldid=prevDangong: /* Background */2008-10-30T02:06:26Z<p><span class="autocomment">Background</span></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>A figure of a microbial fuel cell is shown below (NB: this is not what we used in our experiments). </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>A figure of a microbial fuel cell is shown below (NB: this is not what we used in our experiments). </div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>On the anode side, glucose is being metabolized by the microorganism to yield electrons which are transferred to the cathode side where oxygen is reduced to water (Lovley 2006).</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>On the anode side, glucose is being metabolized by the microorganism to yield electrons which are transferred to the cathode side where oxygen is reduced to water (Lovley 2006).</div></td></tr>
</table>Dangonghttp://2008.igem.org/wiki/index.php?title=Team:Harvard/Hardware&diff=101073&oldid=prevDangong: /* Background */2008-10-30T02:06:16Z<p><span class="autocomment">Background</span></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>A figure of a microbial fuel cell is shown below (NB: this is not what we used in our experiments). </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>A figure of a microbial fuel cell is shown below (NB: this is not what we used in our experiments). </div></td></tr>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del class="diffchange diffchange-inline">INSERT FIGURE</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">[[ Image: Snapshot1.png | 600px ]]</ins></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>On the anode side, glucose is being metabolized by the microorganism to yield electrons which are transferred to the cathode side where oxygen is reduced to water (Lovley 2006).</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>On the anode side, glucose is being metabolized by the microorganism to yield electrons which are transferred to the cathode side where oxygen is reduced to water (Lovley 2006).</div></td></tr>
</table>Dangonghttp://2008.igem.org/wiki/index.php?title=Team:Harvard/Hardware&diff=100935&oldid=prevDangong: /* Context */2008-10-30T02:02:04Z<p><span class="autocomment">Context</span></p>
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<td colspan='2' style="background-color: white; color:black;">Revision as of 02:02, 30 October 2008</td>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Shewanella oneidensis MR-1 is a suitable microorganism for a MFC. It is known to break down lactate (Bretschger et al. 2007), and in anaerobic conditions, S. oneidensis MR-1 produces nanowires that shuttle electrons to electron acceptors as its aerobic electron acceptor, oxygen, is unavailable (Gorby et al. 2006). Taking advantage of this, we designed our microbial fuel cell with an anaerobic anode where completion of the lactate reduction pathway must be completed by transferring electrons to the cathode side at which reduction of oxygen to water occurs. The anode chamber, besides housing our bacteria, was also the site of chemical injections. We provided S. oneidensis MR-1 with lactate as its sole carbon source and sought to induce the mtrB gene, thus “turning on” current production, with chemicals such as lactose and tetracycline. In addition, our heat tests were directed towards the anode chamber as well. Thus, the detection of electricity production of S. oneidensis MR-1 using MFCs serves as an innovative way to detect gene expression, combining both traditional molecular biology with renewable energy engineering. </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Shewanella oneidensis MR-1 is a suitable microorganism for a MFC. It is known to break down lactate (Bretschger et al. 2007), and in anaerobic conditions, S. oneidensis MR-1 produces nanowires that shuttle electrons to electron acceptors as its aerobic electron acceptor, oxygen, is unavailable (Gorby et al. 2006). Taking advantage of this, we designed our microbial fuel cell with an anaerobic anode where completion of the lactate reduction pathway must be completed by transferring electrons to the cathode side at which reduction of oxygen to water occurs. The anode chamber, besides housing our bacteria, was also the site of chemical injections. We provided S. oneidensis MR-1 with lactate as its sole carbon source and sought to induce the mtrB gene, thus “turning on” current production, with chemicals such as lactose and tetracycline. In addition, our heat tests were directed towards the anode chamber as well. Thus, the detection of electricity production of S. oneidensis MR-1 using MFCs serves as an innovative way to detect gene expression, combining both traditional molecular biology with renewable energy engineering. </div></td></tr>
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</table>Dangong