Team:Berkeley Wetlab

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<img src="http://parts.mit.edu/igem07/images/d/da/BerkiGEM2007-Bactoblood_text.jpg" border="0" id="Bactoblood_Header_Text_Img">
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<img src="Berkeley_UC_files/BerkiGEM2007-Bactoblood_text.jpg" id="Bactoblood_Header_Text_Img" border="0">
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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="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>
<p><span id="Support_Text"><b><i>Support for Berkeley iGEM 2007 was generously provided by  
<p><span id="Support_Text"><b><i>Support for Berkeley iGEM 2007 was generously provided by  
SynBERC and The Camille and Henry Dreyfus Foundation, Inc.</i></b>
SynBERC and The Camille and Henry Dreyfus Foundation, Inc.</i></b>
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<p>&nbsp;</p>
<p>&nbsp;</p>
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</p><table style="padding: 0px; width: 100%; background-color: lightblue;" id="table2" width="100%" border="2" cellpadding="0">
<!--<tr>
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<td class="tdheadR"><b>Project Modules</b></td>
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<h3>The System's Components</h3></td>
<h3>The System's Components</h3></td>
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<td class="tdboxes"><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present1"><img border="0" src="http://parts.mit.edu/igem07/images/e/e5/Berk-Icon-Oxygen.png" width="121" height="121"></a></td>
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<td class="tdboxes"><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present1"><img src="Berkeley_UC_files/Berk-Icon-Oxygen.png" width="121" border="0" height="121"></a></td>
<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present1">Oxygen Transport</a></b><p><i>Our system is  
<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/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  
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of oxygen throughout the bloodstream.&nbsp; We also  
of oxygen throughout the bloodstream.&nbsp; We also  
investigated alternates to hemoglobin and other strategies  
investigated alternates to hemoglobin and other strategies  
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for its production.</i></td>
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for its production.</i></p></td>
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<td class="tdboxes">
<td class="tdboxes">
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<a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present4"><img border="0" src="http://parts.mit.edu/igem07/images/b/ba/Berk-Icon-Chassis.png" width="121" height="121"></a></td>
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<a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present4"><img src="Berkeley_UC_files/Berk-Icon-Chassis.png" width="121" border="0" height="121"></a></td>
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<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present4">The Chassis</a></b><p><i>Our bacterial  
<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present4">The Chassis</a></b><p><i>Our bacterial  
chassis has been heavily modified to remove its  
chassis has been heavily modified to remove its  
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within the bloodstream, as well as promote its ability to last
within the bloodstream, as well as promote its ability to last
longer in the bloodstream by masking it from the immune  
longer in the bloodstream by masking it from the immune  
-
system.</i></td>
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system.</i></p></td>
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<td class="tdboxes">
<td class="tdboxes">
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<a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present3"><img border="0" src="http://parts.mit.edu/igem07/images/8/8d/Berk-Icon-Controller.png" width="121" height="121"></a></td>
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<a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present3"><img src="Berkeley_UC_files/Berk-Icon-Controller.png" width="121" border="0" height="121"></a></td>
<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present3">The Controller</a></b><p><i>The Controller  
<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present3">The Controller</a></b><p><i>The Controller  
is an integrated genetic circuit comprised of two plasmids that allows
is an integrated genetic circuit comprised of two plasmids that allows
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plasmid in a dormant state.  Upon induction, the copy number of the
plasmid in a dormant state.  Upon induction, the copy number of the
operons and their transcription increase 100-fold resulting in a
operons and their transcription increase 100-fold resulting in a
-
dramatic increase in protein expression.</i></td>
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dramatic increase in protein expression.</i></p></td>
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<td class="tdboxes">
<td class="tdboxes">
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<a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present5"><img border="0" src="http://parts.mit.edu/igem07/images/c/c5/Berk-Icon-Self-Destruct.png" width="121" height="121"></a></td>
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<a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present5"><img src="Berkeley_UC_files/Berk-Icon-Self-Destruct.png" width="121" border="0" height="121"></a></td>
<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present5">Genetic Self-Destruct</a></b><p><i>To  
<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present5">Genetic Self-Destruct</a></b><p><i>To  
prevent chance of infection or unwanted proliferation after  
prevent chance of infection or unwanted proliferation after  
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self-destruct mechanism whereby when induced, the bacterial  
self-destruct mechanism whereby when induced, the bacterial  
cell will express a genetic material-degrading toxin which  
cell will express a genetic material-degrading toxin which  
-
kills the cell, but leaves it physically intact.</i></td>
+
kills the cell, but leaves it physically intact.</i></p></td>
</tr>
</tr>
<tr>
<tr>
<td class="tdboxes">
<td class="tdboxes">
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<a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present2"><img border="0" src="http://parts.mit.edu/igem07/images/c/ce/Berk-Icon-Freeze-Drying.png" width="121" height="121"></a></td>
+
<a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present2"><img src="Berkeley_UC_files/Berk-Icon-Freeze-Drying.png" width="121" border="0" height="121"></a></td>
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<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present2">Freeze Drying</a></b><p><i>To  
<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present2">Freeze Drying</a></b><p><i>To  
enable preservation of our bacteria for prolonged periods,  
enable preservation of our bacteria for prolonged periods,  
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hydroxyectoine and trehalose that will enable our bacteria to  
hydroxyectoine and trehalose that will enable our bacteria to  
survive freeze-drying intact.&nbsp; This will dramatically  
survive freeze-drying intact.&nbsp; This will dramatically  
-
increase shelf-life and decrease transport costs.</i></td>
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increase shelf-life and decrease transport costs.</i></p></td>
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<table style="padding: 0px; width: 100%; background-color: lightblue;" id="table2" width="100%" border="2" cellpadding="0">
<!--<tr>
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<h3>Other Stuff</h3></td>
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<td class="tdsmallboxes"><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present6"><img src="Berkeley_UC_files/Berk-Icon-Small-Patents.png" width="83" border="0" height="83"></a></td>
-
<td class="tdsmallboxes"><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present6"><img border="0" src="http://parts.mit.edu/igem07/images/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="http://parts.mit.edu/igem07/index.php/BerkiGEM2007Present6">Human Practices</a></b><p><i>An
-
<td class="tddesc" style="padding-bottom: 0px; padding-top: 7px;"><b><a href="http://parts.mit.edu/igem07/index.php/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>
+
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></p></td>
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<td class="tdsmallboxes"><a href="http://parts.mit.edu/igem07/index.php/Berkeley_Individual_Contributions"><img border="0" src="http://parts.mit.edu/igem07/images/0/06/Berk-Icon-Small-References.png" width="83" height="83"></a></td>
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<td class="tdsmallboxes"><a href="http://parts.mit.edu/igem07/index.php/Berkeley_Individual_Contributions"><img src="Berkeley_UC_files/Berk-Icon-Small-References.png" width="83" border="0" height="83"></a></td>
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<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/Berkeley_Individual_Contributions">Individual Contributions</a></b><p><i>The specific contributions made by each team member and advisor.</i></td>
+
<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/Berkeley_Individual_Contributions">Individual Contributions</a></b><p><i>The specific contributions made by each team member and advisor.</i></p></td>
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<td class="tdsmallboxes"><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007_Resources"><img border="0" src="http://parts.mit.edu/igem07/images/d/da/Berk-Icon-Small-Resources.png" width="83" height="83"></a></td>
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<td class="tdsmallboxes"><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007_Resources"><img src="Berkeley_UC_files/Berk-Icon-Small-Resources.png" width="83" border="0" height="83"></a></td>
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<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007_Resources">Team Resources</a></b><p><i>Organizational spreadsheets, useful tools and links.</i></td>
+
<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007_Resources">Team Resources</a></b><p><i>Organizational spreadsheets, useful tools and links.</i></p></td>
</tr>
</tr>
<tr>
<tr>
-
<td class="tdsmallboxes"><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007_Notebooks"><img border="0" src="http://parts.mit.edu/igem07/images/7/77/Berk-Icon-Small-Notebooks.png" width="83" height="83"></a></td>
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<td class="tdsmallboxes"><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007_Notebooks"><img src="Berkeley_UC_files/Berk-Icon-Small-Notebooks.png" width="83" border="0" height="83"></a></td>
-
<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007_Notebooks">Team Notebooks</a></b><p><i>The team members' daily logs of our research.</i></td>
+
<td class="tddesc"><b><a href="http://parts.mit.edu/igem07/index.php/BerkiGEM2007_Notebooks">Team Notebooks</a></b><p><i>The team members' daily logs of our research.</i></p></td>
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<h3>Team Members</h3></td>
<h3>Team Members</h3></td>
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</tr>
<tr>
<tr>
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<td class="tddesc"><b>Advisors</b><br />
+
<td class="tddesc"><b>Advisors</b><br>
-
<a href="/igem07/index.php/John_Dueber" title="John Dueber">
+
<a href="http://parts.mit.edu/igem07/index.php/John_Dueber" title="John Dueber">
John Dueber</a> <font face="Arial">•</font>
John Dueber</a> <font face="Arial">•</font>
<a href="http://www.openwetware.org/wiki/User:JCAnderson" title="http://www.openwetware.org/wiki/User:JCAnderson" rel="nofollow">
<a href="http://www.openwetware.org/wiki/User:JCAnderson" title="http://www.openwetware.org/wiki/User:JCAnderson" rel="nofollow">
Christopher Anderson</a> <font face="Arial">•</font>
Christopher Anderson</a> <font face="Arial">•</font>
-
 
<a href="http://genomics.lbl.gov/" title="http://genomics.lbl.gov/" rel="nofollow">
<a href="http://genomics.lbl.gov/" title="http://genomics.lbl.gov/" rel="nofollow">
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">
-
Jay Keasling</a><br />
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Jay Keasling</a><br>
-
<p><b>Teaching Assistants</b><br />
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<p><b>Teaching Assistants</b><br>
-
<a href="/igem07/index.php/Farnaz_Nowroozi" title="Farnaz Nowroozi">
+
<a href="http://parts.mit.edu/igem07/index.php/Farnaz_Nowroozi" title="Farnaz Nowroozi">
-
 
+
Farnaz Nowroozi</a> <font face="Arial">•</font>
Farnaz Nowroozi</a> <font face="Arial">•</font>
-
<a href="/igem07/index.php/Amin_Hajimorad" title="Amin Hajimorad">
+
<a href="http://parts.mit.edu/igem07/index.php/Amin_Hajimorad" title="Amin Hajimorad">
Amin Hajimorad</a> <font face="Arial">•</font>
Amin Hajimorad</a> <font face="Arial">•</font>
-
<a href="/igem07/index.php/Rickey_Bonds" title="Rickey Bonds">
+
<a href="http://parts.mit.edu/igem07/index.php/Rickey_Bonds" title="Rickey Bonds">
-
Rickey Bonds</a><br /></p>
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Rickey Bonds</a><br></p>
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<p><b>Support</b><br>
-
<p><b>Support</b><br />
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<a href="http://parts.mit.edu/igem07/index.php/Kate%20Spohr" title="Kate Spohr">
-
<a href="/igem07/index.php/Kate Spohr" title="Kate Spohr">
+
Kate Spohr</a> <font face="Arial">•</font>
Kate Spohr</a> <font face="Arial">•</font>
-
<a href="/igem07/index.php/Kevin Costa" title="Kevin Costa">
+
<a href="http://parts.mit.edu/igem07/index.php/Kevin%20Costa" title="Kevin Costa">
Kevin Costa</a> <font face="Arial">•</font>
Kevin Costa</a> <font face="Arial">•</font>
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<a href="http://parts.mit.edu/igem07/index.php/Gwyneth%20Terry" title="Gwyneth Terry">
-
<a href="/igem07/index.php/Gwyneth Terry" title="Gwyneth Terry">
+
Gwyneth Terry</a><br></p>
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Gwyneth Terry</a><br /></p>
+
<p><b>Undergraduate Researchers</b><br>
-
<p><b>Undergraduate Researchers</b><br />
+
<a href="http://parts.mit.edu/igem07/index.php/Arthur_Yu" title="Arthur Yu">
-
<a href="/igem07/index.php/Arthur_Yu" title="Arthur Yu">
+
Arthur Yu</a> <font face="Arial">•</font>
Arthur Yu</a> <font face="Arial">•</font>
-
<a href="/igem07/index.php/Austin_Day" title="Austin Day">
+
<a href="http://parts.mit.edu/igem07/index.php/Austin_Day" title="Austin Day">
-
 
+
Austin Day</a> <font face="Arial">•</font>
Austin Day</a> <font face="Arial">•</font>
-
<a href="/igem07/index.php/David_Tulga" title="David Tulga">
+
<a href="http://parts.mit.edu/igem07/index.php/David_Tulga" title="David Tulga">
David Tulga</a> <font face="Arial">•</font>
David Tulga</a> <font face="Arial">•</font>
-
<a href="/igem07/index.php/Kristin_Doan" title="Kristin Doan">
+
<a href="http://parts.mit.edu/igem07/index.php/Kristin_Doan" title="Kristin Doan">
Kristin Doan</a> <font face="Arial">•</font>
Kristin Doan</a> <font face="Arial">•</font>
-
 
+
<a href="http://parts.mit.edu/igem07/index.php/Samantha_Liang" title="Samantha Liang">
-
<a href="/igem07/index.php/Samantha_Liang" title="Samantha Liang">
+
Samantha Liang</a> <font face="Arial">•</font>
Samantha Liang</a> <font face="Arial">•</font>
-
<a href="/igem07/index.php/Vaibhavi_Umesh" title="Vaibhavi Umesh">
+
<a href="http://parts.mit.edu/igem07/index.php/Vaibhavi_Umesh" title="Vaibhavi Umesh">
Vaibhavi Umesh</a> <font face="Arial">•</font>
Vaibhavi Umesh</a> <font face="Arial">•</font>
-
<a href="/igem07/index.php/Kristin_Fuller" title="Kristin Fuller">
+
<a href="http://parts.mit.edu/igem07/index.php/Kristin_Fuller" title="Kristin Fuller">
-
Kristin Fuller</a><br /></p>
+
Kristin Fuller</a><br></p>
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<p><b>High School Students</b><br>
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<p><b>High School Students</b><br />
+
<a href="http://parts.mit.edu/igem07/index.php/Vincent_Parker" title="Vincent Parker">
-
<a href="/igem07/index.php/Vincent_Parker" title="Vincent Parker">
+
Vincent Parker</a> <font face="Arial">•</font>
Vincent Parker</a> <font face="Arial">•</font>
-
<a href="/igem07/index.php/Nhu_Nguyen" title="Nhu Nguyen">
+
<a href="http://parts.mit.edu/igem07/index.php/Nhu_Nguyen" title="Nhu Nguyen">
Nhu Nguyen</a> <font face="Arial">•</font>
Nhu Nguyen</a> <font face="Arial">•</font>
-
 
+
<a href="http://parts.mit.edu/igem07/index.php/Hannah_Cole" title="Hannah Cole">
-
<a href="/igem07/index.php/Hannah_Cole" title="Hannah Cole">
+
Hannah Cole</a></p></td>
Hannah Cole</a></p></td>
</tr>
</tr>
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<div id="Footer_Stuff">&nbsp;</div>
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Revision as of 02:19, 17 September 2009

Preliminary project description


The University of California Berkeley iGem team is proposing to expand the design space of synthetic biology by exploring novel applications of cell surface display within Escherichia coli, the gold standard organism for bacterial engineering. The team envisions a bottom-up design scheme in order to tackle this engineering problem in a well organized, modular fashion. In order to overcome the challenges of engineering Escherichia coli cell surface display, a high throughput, automated, combinatorial strategy is employed to control the system.





















<!DOCTYPE HTML PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd"> Berkeley UC - IGEM07

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://parts.mit.edu/igem07/index.php/Berkeley_UC"

Retrieved from "http://2009.igem.org/Team:Berkeley_Wetlab"