Berkeley UC

From 2007.igem.org

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Revision as of 23:51, 9 October 2007

The necessity of cheap, available, disease free, and universally usable 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, however many lack the necessary donation and storage infrastructure and the required number of healthy donors. To address this problem, we are developing an innovative and inexpensive blood substitute constructed from E. coli bacteria engineered to include the critical capabilities of human erythrocytes. Our bacterial system includes the ability to safely exist in the bloodstream, carry oxygen with hemoglobin, and 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.

Team Members

Advisors
John Dueber
[http://www.openwetware.org/wiki/User:JCAnderson Christopher Anderson]
[http://genomics.lbl.gov/ Adam Arkin]
Jay Keasling

Teaching Assistants
Farnaz Nowroozi
Amin Hajimorad
Rickey Bonds

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

Team Resources

[http://spreadsheets.google.com/ccc?key=pUQEpr4ZqU9TxjeURaNm1Vw Oligo List Spreadsheet]
[http://spreadsheets.google.com/ccc?key=pUQEpr4ZqU9TerIU8gSvKbQ CloneSaver Spreadsheet]
[http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2007&group=Berkeley_UC Our BioBrick Parts]
All construction files
All sequencing files

If you need an invitation to the spreadsheets, ask Sam.

Tools and Guides

[http://www.openwetware.org/wiki/Arking:JCAOligoTutorialHome Biobricks and Cloning Tutorials]
[http://pir.georgetown.edu/pirwww/search/pairwise.shtml Pairwise Alignment Online]
[http://align.genome.jp/ Multiple Sequence Alignment]
[http://en.wikipedia.org/wiki/Help:Wikitext_examples Wiki Formatting Guide]

Useful Links

[http://openwetware.org/wiki/IGEM:UC_Berkeley/2006 UC Berkeley iGEM 2006 OpenWetWare]
[http://parts2.mit.edu/wiki/index.php/University_of_California_Berkeley_2006 UC Berkeley iGEM 2006 wiki]
iGEM wikis: [http://parts2.mit.edu/wiki/index.php/Main_Page 2006], 2007
[http://partsregistry.org/Main_Page Registry of Standard Biological Parts]
Biobricks Parts Lists: [http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_Berkeley 2005], [http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2006&group=Berkeley 2006], [http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2007&group=Berkeley_UC 2007]
[http://openwetware.org/wiki/Arking:JCAOligoTutorialHome Tutorials]

Team Notebooks

John Dueber Notebook
Christopher Anderson Notebook
Farnaz Nowroozi Notebook
Amin Hajimorad Notebook
Rickey Bonds Notebook

Keep your wiki notebooks, sequencing/construction logs, and the registry updated!

Arthur Yu's 1337 Notebook
Austin Day Notebook
David Tulga's Notebook
Kristin Doan Notebook
Samantha's Notebook (June - July 19, 2007
Samantha's Notebook (July 20, 2007 - present)
Vaibhavi Umesh Notebook
Kristin Fuller Notebook

Vincent Parker Notebook
Nhu Nguyen Notebook
Hannah Cole Notebook
Setup

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 [[Image:Berkeley_BactobloodHeader.jpg]]<br>
-'''The global demand and importance''' for cheap, available, and disease free blood substitutes is undisputed. There are currently no red blood cell substitutes approved for clinical use in the US or the UK, and whole blood is almost always in short supply. Underdeveloped countries that need blood the most simply don’t have the infrastructure to support donation and storage, in addition a sizeable fraction of the population are disease carriers.  We are developing an innovative and cheap blood substitute based on engineered ''E. coli'' with all the critical properties of human erythrocytes.  These include the ability to safely exist in the bloodstream, carry oxygen, and be stored for prolonged periods in a freeze-dried state.
+'''The necessity''' of cheap, available, disease free, and universally usable 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, however many lack the necessary donation and storage infrastructure and the required number of healthy donors.  To address this problem, we are developing an innovative and inexpensive blood substitute constructed from ''E. coli'' bacteria engineered to include the critical capabilities of human erythrocytes.  Our bacterial system includes the ability to safely exist in the bloodstream, carry oxygen with hemoglobin, and be stored for prolonged periods in a freeze-dried state.
-==>too detailed, move to a later section:
-section on chasis:  to make it safer to inject into the human bloodstream, and by adding components for oxygen delivery. A modified lipopolysaccharide should significantly (1000-10000x) reduce sepsis activity in the human bloodstream.
-section on oxygen carrying:  A hemoglobin mutated to increase OD50 to match that of natural human blood cells after diphosphoglycerase. Heme and cytochrome B5 and B5 reductase complement the hemoglobin. Additional chaperone proteins such as sodC, HPI-katG, map, and AHSP were added to increase hardiness and prolong the half-life of the E. coli in the bloodstream. We are also investigating myoglobin, and
-section on freeze-drying:  potential freeze-drying to preserve E. coli, with OtsA, OtsB, thpA through D (trehalose - ots) (hydroxyectoine).<br>
 ''' ''Support for Berkeley iGEM 2007 was generously provided by SynBERC and The Camille and Henry Dreyfus Foundation, Inc.'' '''