Berkeley UC

From 2007.igem.org

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I haven't had time to update this section of the wiki. Someone should replace this block of text with something legit when they have downtime. -Sam <br>
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'''The global demand and importance for
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'''Networks of interacting cells provide the basis for neural learning. We have developed the process of addressable conjugation for communication within a network of E. coli bacteria. Here, bacteria send messages to one another via conjugation of plasmid DNAs, but the message is only meaningful to cells with a matching address sequence. In this way, the Watson Crick base-pairing of addressing sequences replaces the spatial connectivity present in neural systems. To construct this system, we have adapted natural conjugation systems as the communication device. Information contained in the transferred plasmids is only accessable by "unlocking" the message using RNA based 'keys'. The resulting addressable conjugation process is being adapted to construct a network of NAND logic gates in bacterial cultures. Ultimately, this will allow us to develop networks of bacteria capable of trained learning. <br>'''  
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cheap, available, and disease free blood substitutes
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is undisputed. There are currently no red blood cell
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substitutes approved for clinical use in the US or
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the UK, and whole blood is almost always in short
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supply. Underdeveloped countries that need blood
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the most simply don’t have the infrastructure to
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support donation and storage, in addition a sizeable
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fraction of the population are disease carriers.<br><br>
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We have developed a red blood cell substitute by modifying the E. coli chassis to make it safer to inject into the human bloodstream, and by adding components for oxygen delivery. A modified lipopolysaccharide significantly (1000-10000x) reduces sepsis activity. Other essential components include heme, hemoglobin, and cytochrome b5 and b5 reductase. Additional chaperone proteins such as sodC and HPI-katG were added to prolong the half-life of the E. coli in the bloodstream.<br>'''  

Revision as of 18:47, 13 August 2007

Berkeley BactobloodHeader.jpg

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 have developed a red blood cell substitute by modifying the E. coli chassis to make it safer to inject into the human bloodstream, and by adding components for oxygen delivery. A modified lipopolysaccharide significantly (1000-10000x) reduces sepsis activity. Other essential components include heme, hemoglobin, and cytochrome b5 and b5 reductase. Additional chaperone proteins such as sodC and HPI-katG were added to prolong the half-life of the E. coli in the bloodstream.



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

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