Berkeley UC

From 2007.igem.org

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We are the UC Berkeley iGEM Team for 2007.<br>
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<html>
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#apDiv3 {
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<link rel="stylesheet" href="http://www.davidtulga.com/iGEM_Berkeley_Stylesheet.css" type="text/css" />
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<script type="text/javascript" src="http://www.davidtulga.com/flash.js"></script>
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'''Advisors'''<br>
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<div id="apDiv3"><a href="https://2007.igem.org/Main_Page" title="iGEM 2007" alt="iGEM 2007"><img name="Coverlogo" src="https://static.igem.org/mediawiki/2007/0/0e/Coverlogojpeg.jpg" width="101" height="87" alt="iGEM 2007"></a></div>
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[[John Dueber]]<br>
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[http://www.openwetware.org/wiki/User:JCAnderson Christopher Anderson]<br>
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[[Adam Arkin]]<br>
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[[Jay Keasling]]<br>
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'''Teaching Assistants'''<br>
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<table cellpadding="0" cellspacing="0" border="0" align="left" width="280" height="220" id="Header_Table" class="table_header" bgcolor="#8A0202"><tr><td id="Header_Table_TD" class="td_table_header" bgcolor="#8A0202">
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[[Farnaz Nowroozi]]<br>
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<script type="text/javascript">
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[[Amin Hajimorad]]<br>
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writeFlash("http://www.davidtulga.com/iGEM_Berkeley_Header_Logo_Only.swf", "iGEM_Berkeley_Header", "270", "220", "4", "");
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[[Rickey Bonds]]<br>
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</script>
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</td>
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</tr>
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</table>
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<img src="https://static.igem.org/mediawiki/2007/d/da/BerkiGEM2007-Bactoblood_text.jpg" border="0" id="Bactoblood_Header_Text_Img">
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<p><span id="Intro_Text">The necessity of inexpensive, disease-free, and universally compatible blood substitutes is undisputed. There are currently no blood substitutes approved for use in the US or the UK, and whole blood is almost always in short supply. Developing countries have the greatest need for blood transfusions, yet many lack the necessary donation and storage infrastructure and the required pool of healthy donors. To address this problem, we are developing a cost-effective red blood cell substitute constructed from engineered <i>E. coli</i> bacteria. Our system is designed to safely transport oxygen in the bloodstream without inducing sepsis, and to be stored for prolonged periods in a freeze-dried state.<br /><br /></span></p>
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<p><span id="Support_Text"><b><i>Support for Berkeley iGEM 2007 was generously provided by
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SynBERC and The Camille and Henry Dreyfus Foundation, Inc.</i></b>
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</span></p><hr />
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<p>&nbsp;</p>
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'''Undergraduate Researchers'''<br>
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<p align="left">
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[[Arthur Yu]]<br>
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<table width="100%" id="table2" border="2" cellpadding="0" style="padding: 0px; width: 100%; color: navyblue; background-color: lightblue;" id="Main_Icons_Table">
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[[Austin Day]]<br>
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<!--<tr>
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[[David Tulga]]<br>
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<td class="tdheadL">&nbsp;</td>
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[[Kristin Doan]]<br>
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<td class="tdheadR"><b>Project Modules</b></td>
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[[Samantha Liang]]<br>
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</tr>-->
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[[Vaibhavi Umesh]]<br>
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<tr>
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[[Kristin Fuller]]<br>
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<td class="tdheadR" colspan="2">
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<h3>The System's Components</h3></td>
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</tr>
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<tr>
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<td class="tdboxes"><a href="https://2007.igem.org/BerkiGEM2007Present1"><img border="0" src="https://static.igem.org/mediawiki/2007/e/e5/Berk-Icon-Oxygen.png" width="121" height="121"></a></td>
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<td class="tddesc"><b><a href="https://2007.igem.org/BerkiGEM2007Present1">Oxygen Transport</a></b><p><i>Our system is
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designed to produce Hemoglobin, Heme, and the necessary
 +
chaperones and detoxifying agents to promote the transport
 +
of oxygen throughout the bloodstream.&nbsp; We also
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investigated alternates to hemoglobin and other strategies
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for its production.</i></td>
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</tr>
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<tr>
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<td class="tdboxes">
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<a href="https://2007.igem.org/BerkiGEM2007Present4"><img border="0" src="https://static.igem.org/mediawiki/2007/b/ba/Berk-Icon-Chassis.png" width="121" height="121"></a></td>
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<td class="tddesc"><b><a href="https://2007.igem.org/BerkiGEM2007Present4">The Chassis</a></b><p><i>Our bacterial
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chassis has been heavily modified to remove its
 +
sepsis-inducing toxicity, immunogenic factors, and ability to grow
 +
within the bloodstream, as well as promote its ability to last
 +
longer in the bloodstream by masking it from the immune
 +
system.</i></td>
 +
</tr>
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<tr>
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<td class="tdboxes">
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<a href="https://2007.igem.org/BerkiGEM2007Present3"><img border="0" src="https://static.igem.org/mediawiki/2007/8/8d/Berk-Icon-Controller.png" width="121" height="121"></a></td>
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<td class="tddesc"><b><a href="https://2007.igem.org/BerkiGEM2007Present3">The Controller</a></b><p><i>The Controller
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is an integrated genetic circuit comprised of two plasmids that allows
 +
stable maintenance of the system's various operons on a large single-copy
 +
plasmid in a dormant state.  Upon induction, the copy number of the
 +
operons and their transcription increase 100-fold resulting in a
 +
dramatic increase in protein expression.</i></td>
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</tr>
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<tr>
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<td class="tdboxes">
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<a href="https://2007.igem.org/BerkiGEM2007Present5"><img border="0" src="https://static.igem.org/mediawiki/2007/c/c5/Berk-Icon-Self-Destruct.png" width="121" height="121"></a></td>
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<td class="tddesc"><b><a href="https://2007.igem.org/BerkiGEM2007Present5">Genetic Self-Destruct</a></b><p><i>To
 +
prevent chance of infection or unwanted proliferation after
 +
hemoglobin production, we have engineered a genetic
 +
self-destruct mechanism whereby when induced, the bacterial
 +
cell will express a genetic material-degrading toxin which
 +
kills the cell, but leaves it physically intact.</i></td>
 +
</tr>
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<tr>
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<td class="tdboxes">
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<a href="https://2007.igem.org/BerkiGEM2007Present2"><img border="0" src="https://static.igem.org/mediawiki/2007/c/ce/Berk-Icon-Freeze-Drying.png" width="121" height="121"></a></td>
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<td class="tddesc"><b><a href="https://2007.igem.org/BerkiGEM2007Present2">Freeze Drying</a></b><p><i>To
 +
enable preservation of our bacteria for prolonged periods,
 +
we are including the ability to produce the compounds
 +
hydroxyectoine and trehalose that will enable our bacteria to
 +
survive freeze-drying intact.&nbsp; This will dramatically
 +
increase shelf-life and decrease transport costs.</i></td>
 +
</tr>
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</table>
 +
<p><br /></p>
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'''High School Students'''<br>
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<table width="100%" id="table2" border="2" cellpadding="0" style="padding: 0px; width: 100%; color: navyblue; background-color: lightblue;" id="Secondary_Icons_Table">
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<!--<tr>
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<td class="tdheadR" colspan="2">
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<h3>Other Stuff</h3></td>
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</tr>-->
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<tr>
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<td class="tdsmallboxes"><a href="https://2007.igem.org/BerkiGEM2007Present6"><img border="0" src="https://static.igem.org/mediawiki/2007/8/8b/Berk-Icon-Small-Patents.png" width="83" height="83"></a></td>
 +
<td class="tddesc" style="padding-bottom: 0px; padding-top: 7px;"><b><a href="https://2007.igem.org/BerkiGEM2007Present6">Human Practices</a></b><p><i>An examination of the landscape of patents and the patentablilty of Bactoblood where its parts are in an open source forum and the challenges associated with current patenting practices for synthetic biology.</i></td>
 +
</tr>
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<tr>
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<td class="tdsmallboxes"><a href="https://2007.igem.org/Berkeley_Individual_Contributions"><img border="0" src="https://static.igem.org/mediawiki/2007/0/06/Berk-Icon-Small-References.png" width="83" height="83"></a></td>
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<td class="tddesc"><b><a href="https://2007.igem.org/Berkeley_Individual_Contributions">Individual Contributions</a></b><p><i>The specific contributions made by each team member and advisor.</i></td>
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</tr>
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<tr>
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<td class="tdsmallboxes"><a href="https://2007.igem.org/BerkiGEM2007_Resources"><img border="0" src="https://static.igem.org/mediawiki/2007/d/da/Berk-Icon-Small-Resources.png" width="83" height="83"></a></td>
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<td class="tddesc"><b><a href="https://2007.igem.org/BerkiGEM2007_Resources">Team Resources</a></b><p><i>Organizational spreadsheets, useful tools and links.</i></td>
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</tr>
 +
<tr>
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<td class="tdsmallboxes"><a href="https://2007.igem.org/BerkiGEM2007_Notebooks"><img border="0" src="https://static.igem.org/mediawiki/2007/7/77/Berk-Icon-Small-Notebooks.png" width="83" height="83"></a></td>
 +
<td class="tddesc"><b><a href="https://2007.igem.org/BerkiGEM2007_Notebooks">Team Notebooks</a></b><p><i>The team members' daily logs of our research.</i></td>
 +
</tr>
 +
</table>
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Coming Soon!<br>
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<p><br /></p>
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'''Team Resources'''<br>
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<table width="100%" id="table3" border="2" style="padding: 0px; width: 100%; color: navyblue; background-color: #ffffaa;" id="Team_Members_Table">
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<tr>
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[http://spreadsheets.google.com/ccc?key=pUQEpr4ZqU9TxjeURaNm1Vw Oligo List Spreadsheet]<br>
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<td class="tdheadR" style="background-color: #ffffaa;">
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[http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2007&group=Berkeley_UC Our BioBrick Parts]<br>
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<h3>Team Members</h3></td>
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[[BerkiGEM2007_AllConstructionFiles | All construction files]]<br>
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</tr>
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[[BerkiGEM2007_AllSequencingFiles | All sequencing files]]<br>
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<tr>
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<td class="tddesc"><b>Advisors</b><br />
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'''Tools and Guides'''<br>
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<a href="/igem07/index.php/John_Dueber" title="John Dueber">
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[http://www.openwetware.org/wiki/Arking:JCAOligoTutorialHome Biobricks and Cloning Tutorials]<br>
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John Dueber</a> <font face="Arial">•</font>
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[http://pir.georgetown.edu/pirwww/search/pairwise.shtml Pairwise Alignment Online]<br>
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<a href="http://www.openwetware.org/wiki/User:JCAnderson" title="http://www.openwetware.org/wiki/User:JCAnderson" rel="nofollow">
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[http://en.wikipedia.org/wiki/Help:Wikitext_examples Wiki Formatting Guide]<br>
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Christopher Anderson</a> <font face="Arial">•</font>
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<a href="http://genomics.lbl.gov/" title="http://genomics.lbl.gov/" rel="nofollow">
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'''Team Notebooks'''<br>
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Adam Arkin</a> <font face="Arial">•</font>
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[[John Dueber Notebook]]<br>
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<a href="https://keaslinglab.lbl.gov/wiki/index.php/Main_Page" title="https://keaslinglab.lbl.gov/wiki/index.php/Main Page" rel="nofollow">
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[[Christopher Anderson Notebook]]<br>
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Jay Keasling</a><br />
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[[Farnaz Nowroozi Notebook]]<br>
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<p><b>Teaching Assistants</b><br />
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[[Amin Hajimorad Notebook]]<br>
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<a href="/igem07/index.php/Farnaz_Nowroozi" title="Farnaz Nowroozi">
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[[Rickey Bonds Notebook]]<br>
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Farnaz Nowroozi</a> <font face="Arial">•</font>
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[[Arthur Yu Notebook | Arthur Yu's 1337 Notebook]]<br>
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<a href="/igem07/index.php/Amin_Hajimorad" title="Amin Hajimorad">
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[[Austin Day Notebook]]<br>
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Amin Hajimorad</a> <font face="Arial">•</font>
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[[David Tulga Notebook]]<br>
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<a href="/igem07/index.php/Rickey_Bonds" title="Rickey Bonds">
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[[Kristin Doan Notebook]]<br>
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Rickey Bonds</a><br /></p>
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[[Samantha Liang Notebook]]<br>
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<p><b>Support</b><br />
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[[Vaibhavi Umesh Notebook]]<br>
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<a href="/igem07/index.php/Kate Spohr" title="Kate Spohr">
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[[Kristin Fuller Notebook]]<br>
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Kate Spohr</a> <font face="Arial">•</font>
 +
<a href="/igem07/index.php/Kevin Costa" title="Kevin Costa">
 +
Kevin Costa</a> <font face="Arial">•</font>
 +
<a href="/igem07/index.php/Gwyneth Terry" title="Gwyneth Terry">
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Gwyneth Terry</a><br /></p>
 +
<p><b>Undergraduate Researchers</b><br />
 +
<a href="/igem07/index.php/Arthur_Yu" title="Arthur Yu">
 +
Arthur Yu</a> <font face="Arial">•</font>
 +
<a href="/igem07/index.php/Austin_Day" title="Austin Day">
 +
Austin Day</a> <font face="Arial">•</font>
 +
<a href="/igem07/index.php/David_Tulga" title="David Tulga">
 +
David Tulga</a> <font face="Arial">•</font>
 +
<a href="/igem07/index.php/Kristin_Doan" title="Kristin Doan">
 +
Kristin Doan</a> <font face="Arial">•</font>
 +
<a href="/igem07/index.php/Samantha_Liang" title="Samantha Liang">
 +
Samantha Liang</a> <font face="Arial">•</font>
 +
<a href="/igem07/index.php/Vaibhavi_Umesh" title="Vaibhavi Umesh">
 +
Vaibhavi Umesh</a> <font face="Arial">•</font>
 +
<a href="/igem07/index.php/Kristin_Fuller" title="Kristin Fuller">
 +
Kristin Fuller</a><br /></p>
 +
<p><b>High School Students</b><br />
 +
<a href="/igem07/index.php/Vincent_Parker" title="Vincent Parker">
 +
Vincent Parker</a> <font face="Arial">•</font>
 +
<a href="/igem07/index.php/Nhu_Nguyen" title="Nhu Nguyen">
 +
Nhu Nguyen</a> <font face="Arial">•</font>
 +
<a href="/igem07/index.php/Hannah_Cole" title="Hannah Cole">
 +
Hannah Cole</a></p></td>
 +
</tr>
 +
</table>
 +
<div id="Footer_Stuff">&nbsp;</div>
 +
</html>

Latest revision as of 05:42, 17 July 2008

iGEM 2007

The necessity of inexpensive, disease-free, and universally compatible blood substitutes is undisputed. There are currently no blood substitutes approved for use in the US or the UK, and whole blood is almost always in short supply. Developing countries have the greatest need for blood transfusions, yet many lack the necessary donation and storage infrastructure and the required pool of healthy donors. To address this problem, we are developing a cost-effective red blood cell substitute constructed from engineered E. coli bacteria. Our system is designed to safely transport oxygen in the bloodstream without inducing sepsis, and to be stored for prolonged periods in a freeze-dried state.

Support for Berkeley iGEM 2007 was generously provided by SynBERC and The Camille and Henry Dreyfus Foundation, Inc.

 

The System's Components
Oxygen Transport

Our system is designed to produce Hemoglobin, Heme, and the necessary chaperones and detoxifying agents to promote the transport of oxygen throughout the bloodstream.  We also investigated alternates to hemoglobin and other strategies for its production.
The Chassis

Our bacterial chassis has been heavily modified to remove its sepsis-inducing toxicity, immunogenic factors, and ability to grow within the bloodstream, as well as promote its ability to last longer in the bloodstream by masking it from the immune system.
The Controller

The Controller is an integrated genetic circuit comprised of two plasmids that allows stable maintenance of the system's various operons on a large single-copy plasmid in a dormant state. Upon induction, the copy number of the operons and their transcription increase 100-fold resulting in a dramatic increase in protein expression.
Genetic Self-Destruct

To prevent chance of infection or unwanted proliferation after hemoglobin production, we have engineered a genetic self-destruct mechanism whereby when induced, the bacterial cell will express a genetic material-degrading toxin which kills the cell, but leaves it physically intact.
Freeze Drying

To enable preservation of our bacteria for prolonged periods, we are including the ability to produce the compounds hydroxyectoine and trehalose that will enable our bacteria to survive freeze-drying intact.  This will dramatically increase shelf-life and decrease transport costs.


Human Practices

An examination of the landscape of patents and the patentablilty of Bactoblood where its parts are in an open source forum and the challenges associated with current patenting practices for synthetic biology.
Individual Contributions

The specific contributions made by each team member and advisor.
Team Resources

Organizational spreadsheets, useful tools and links.
Team Notebooks

The team members' daily logs of our research.


Team Members
Advisors
John Dueber • Christopher Anderson • Adam Arkin • Jay Keasling

Teaching Assistants
Farnaz Nowroozi • Amin Hajimorad • Rickey Bonds

Support
Kate Spohr • Kevin Costa • Gwyneth Terry

Undergraduate Researchers
Arthur Yu • Austin Day • David Tulga • Kristin Doan • Samantha Liang • Vaibhavi Umesh • Kristin Fuller

High School Students
Vincent Parker • Nhu Nguyen • Hannah Cole

Retrieved from "http://2007.igem.org/wiki/index.php/Berkeley_UC"