Berkeley UC

From 2007.igem.org

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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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<p>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 includes the ability to transport oxygen, safely exist in the bloodstream without inducing sepsis, and be stored for prolonged periods in a freeze-dried state.<br /><br /></p>
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<p><b><i>Support for Berkeley iGEM 2007 was generously provided by  
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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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SynBERC and The Camille and Henry Dreyfus Foundation, Inc.</i> </b>
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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 />
<p>&nbsp;</p>
<p>&nbsp;</p>
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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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<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>
<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 Carrying</a></b><p><i>Our system is  
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<td class="tddesc"><b><a href="https://2007.igem.org/BerkiGEM2007Present1">Oxygen Transport</a></b><p><i>Our system is  
designed to produce Hemoglobin, Heme, and the necessary  
designed to produce Hemoglobin, Heme, and the necessary  
chaperones and detoxifying agents to promote the transport  
chaperones and detoxifying agents to promote the transport  
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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>
<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>
<td class="tddesc"><b><a href="https://2007.igem.org/BerkiGEM2007Present2">Freeze Drying</a></b><p><i>To  
<td class="tddesc"><b><a href="https://2007.igem.org/BerkiGEM2007Present2">Freeze Drying</a></b><p><i>To  
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enable preservation of our bacteria for long time periods,  
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enable preservation of our bacteria for prolonged periods,  
we are including the ability to produce the compounds  
we are including the ability to produce the compounds  
hydroxyectoine and trehalose that will enable our bacteria to  
hydroxyectoine and trehalose that will enable our bacteria to  
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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>
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<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>
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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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<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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<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>
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<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>
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<td class="tddesc"><a href="/igem07/index.php/Berkeley_Individual_Contributions"><b>Individual Contributions</b></a><br />
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<td class="tddesc"><b>Advisors</b><br />
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<p><b>Advisors</b><br />
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<a href="/igem07/index.php/John_Dueber" title="John Dueber">
<a href="/igem07/index.php/John_Dueber" title="John Dueber">
John Dueber</a> <font face="Arial">•</font>
John Dueber</a> <font face="Arial">•</font>
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Adam Arkin</a> <font face="Arial">•</font>
Adam Arkin</a> <font face="Arial">•</font>
<a href="https://keaslinglab.lbl.gov/wiki/index.php/Main_Page" title="https://keaslinglab.lbl.gov/wiki/index.php/Main Page" rel="nofollow">
<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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Jay Keasling</a><br /></p>
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Jay Keasling</a><br />
<p><b>Teaching Assistants</b><br />
<p><b>Teaching Assistants</b><br />
<a href="/igem07/index.php/Farnaz_Nowroozi" title="Farnaz Nowroozi">
<a href="/igem07/index.php/Farnaz_Nowroozi" title="Farnaz Nowroozi">
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<a href="/igem07/index.php/BerkiGEM2007Setup" title="BerkiGEM2007Setup">
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Presentation Setup</a></p>
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<a href="http://spreadsheets.google.com/ccc?key=pUQEpr4ZqU9TxjeURaNm1Vw" class='external text' title="http://spreadsheets.google.com/ccc?key=pUQEpr4ZqU9TxjeURaNm1Vw" rel="nofollow">
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Oligonucleotide List Spreadsheet</a><br />
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<a href="http://spreadsheets.google.com/ccc?key=pUQEpr4ZqU9TerIU8gSvKbQ" class='external text' title="http://spreadsheets.google.com/ccc?key=pUQEpr4ZqU9TerIU8gSvKbQ" rel="nofollow">
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CloneSaver Cards Spreadsheet</a><br />
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<a href="http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2007&amp;group=Berkeley_UC" class='external text' title="http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2007&amp;group=Berkeley UC" rel="nofollow">
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Our BioBrick Parts</a><br />
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<a href="/igem07/index.php/BerkiGEM2007_AllConstructionFiles" title="BerkiGEM2007 AllConstructionFiles">
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All construction files</a><br />
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<a href="/igem07/index.php/BerkiGEM2007_AllSequencingFiles" title="BerkiGEM2007 AllSequencingFiles">
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All sequencing files</a></p>
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<p><br /><b>Tools and Guides</b><br /></p>
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<p>
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<a href="http://www.openwetware.org/wiki/Arking:JCAOligoTutorialHome" class='external text' title="http://www.openwetware.org/wiki/Arking:JCAOligoTutorialHome" rel="nofollow">
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Biobricks and Cloning Tutorials</a><br />
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<a href="http://pir.georgetown.edu/pirwww/search/pairwise.shtml" class='external text' title="http://pir.georgetown.edu/pirwww/search/pairwise.shtml" rel="nofollow">
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Pairwise Alignment Online</a><br />
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<a href="http://align.genome.jp/" class='external text' title="http://align.genome.jp/" rel="nofollow">
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Multiple Sequence Alignment</a><br />
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Wiki Formatting Guide</a><br /></p>
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<p><br /><b>Useful Links</b> </p>
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<a href="http://openwetware.org/wiki/IGEM:UC_Berkeley/2006" class='external text' title="http://openwetware.org/wiki/IGEM:UC Berkeley/2006" rel="nofollow">
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UC Berkeley iGEM 2006 OpenWetWare Wiki</a> <br />
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<a href="http://parts2.mit.edu/wiki/index.php/University_of_California_Berkeley_2006" class='external text' title="http://parts2.mit.edu/wiki/index.php/University of California Berkeley 2006" rel="nofollow">
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UC Berkeley iGEM 2006 Wiki</a> <br />iGEM wikis:
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<a href="http://parts2.mit.edu/wiki/index.php/Main_Page" class='external text' title="http://parts2.mit.edu/wiki/index.php/Main Page" rel="nofollow">
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2006</a>,
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<a href="/igem07/index.php/Main_Page" title="Main Page">2007</a><br />
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<a href="http://partsregistry.org/Main_Page" class='external text' title="http://partsregistry.org/Main Page" rel="nofollow">
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Registry of Standard Biological Parts</a> <br />UC Berkeley Biobricks
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Parts Lists:
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<a href="http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&amp;group=iGEM_Berkeley" class='external text' title="http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&amp;group=iGEM Berkeley" rel="nofollow">
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2005</a>,
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<a href="http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2006&amp;group=Berkeley" class='external text' title="http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2006&amp;group=Berkeley" rel="nofollow">
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2006</a>,
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<a href="http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2007&amp;group=Berkeley_UC" class='external text' title="http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2007&amp;group=Berkeley UC" rel="nofollow">
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2007</a><br />
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<a href="http://openwetware.org/wiki/Arking:JCAOligoTutorialHome" class='external text' title="http://openwetware.org/wiki/Arking:JCAOligoTutorialHome" rel="nofollow">
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Biobricks and Cloning Tutorials</a> <br /> </p></td>
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<h3>Team Notebooks</h3></div><hr />
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<p><br />
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<a href="/igem07/index.php/John_Dueber_Notebook" title="John Dueber Notebook">
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John Dueber&#39;s Notebook</a><br />
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<a href="/igem07/index.php/Christopher_Anderson_Notebook" title="Christopher Anderson Notebook">
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Christopher Anderson&#39;s Notebook</a><br />
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<a href="/igem07/index.php/Farnaz_Nowroozi_Notebook" title="Farnaz Nowroozi Notebook">
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Farnaz Nowroozi&#39;s Notebook</a><br />
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<a href="/igem07/index.php/Amin_Hajimorad_Notebook" title="Amin Hajimorad Notebook">
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Amin Hajimorad&#39;s Notebook</a><br />
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<a href="/igem07/index.php/Rickey_Bonds_Notebook" title="Rickey Bonds Notebook">
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Rickey Bonds&#39; Notebook</a><br /></p>
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<p><br /><i>Keep your wiki notebooks,
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sequencing/construction logs, and the registry updated!</i>
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<p><br />
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<a href="/igem07/index.php/Arthur_Yu_Notebook" title="Arthur Yu Notebook">
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Arthur Yu&#39;s 1337 Notebook</a><br />
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<a href="/igem07/index.php/Austin_Day_Notebook" title="Austin Day Notebook">
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Austin Day&#39;s Notebook</a><br />
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<a href="/igem07/index.php/David_Tulga_Notebook" title="David Tulga Notebook">
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David Tulga&#39;s Notebook</a><br />
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<a href="/igem07/index.php/Kristin_Doan_Notebook" title="Kristin Doan Notebook">
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Kristin Doan&#39;s Notebook</a><br />
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<a href="/igem07/index.php/Samantha_Liang_Notebook" title="Samantha Liang Notebook">
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Samantha&#39;s Notebook (June - July 19, 2007</a><br />
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<a href="/igem07/index.php/Samantha_Liang_Notebook2" title="Samantha Liang Notebook2">
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Samantha&#39;s Notebook (July 20, 2007 - present)</a><br />
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<a href="/igem07/index.php/Vaibhavi_Umesh_Notebook" title="Vaibhavi Umesh Notebook">
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Vaibhavi Umesh&#39;s Notebook</a><br />
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<a href="/igem07/index.php/Kristin_Fuller_Notebook" title="Kristin Fuller Notebook">
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Kristin Fuller&#39;s Notebook</a><br /></p>
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<p><br />
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<a href="/igem07/index.php/Vincent_Parker_Notebook" title="Vincent Parker Notebook">
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Vincent Parker&#39;s Notebook</a><br />
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<a href="/igem07/index.php/Nhu_Nguyen_Notebook" title="Nhu Nguyen Notebook">
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Nhu Nguyen&#39;s Notebook</a><br />
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<a href="/igem07/index.php/Hannah_Cole_Notebook" title="Hannah Cole Notebook">
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Hannah Cole&#39;s Notebook</a></p></td>
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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"