IGEM:Harvard/2008

From OpenWetWare

< IGEM:Harvard(Difference between revisions)
Jump to: navigation, search
Current revision (14:06, 14 April 2010) (view source)
 
(40 intermediate revisions not shown.)
Line 1: Line 1:
<div id="mainpage">
<div id="mainpage">
-
[[Image:iGEM.png]]
+
 
 +
Congratulations to the Harvard team for winning the Best Energy Project and for being one of the 6 finalists at the Jamboree!!
</div>
</div>
-
<html><marquee behavior=scroll direction="left" scroll amount="100"><p><b>&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;</b></p></marquee></html>
+
 
 +
 
 +
The 2008 Harvard iGEM project is based on the ability to control and measure the electric current production in Shewanella oneidensis MR-1.  Multiple genes in Shewanella have been identified as playing a role in transferring electrons to solid substrates, thus generating an easily detectible electric current.  Our goal is to be able to detect differences in current output by the activation and/or deactivation of these genes in Shewanella.  To do this, we are using mutant strains of Shewanella which have one or more of these important electron transfer genes knocked out and are reintroducing the genes on an inducible plasmid.  The electric current produced will be detected by a multimeter, and read by a computer, creating a computer-biology interface.
 +
 
 +
We are developing two inducible systems for electrical current production in Shewanella.  The first is a chemically inducible system, where LacI or TetR repression of the current-production gene expression can be alleviated by the addition of IPTG or anhydrotetracycline, respectively.  Our second approach is a light-inducible system based on the 2005 UT Austin biological camera.  We are also considering a third approach using cI lambda which would be dependent on temperature.
 +
 
 +
Using one or both of these systems, we hope to be able to interact with engineered Shewanella in multiple anaerobic microbial fuel cells which we have built. Communication between the fuel cells and a computer then has the potential to be programmable into a game of sorts, such as Tic-Tac-Toe, in which the level of current production induced by a chemical or light input is understood by the computer as a "turn." This rudimentary game is just one of many possibilities for an inducible interaction between computers and bacteria.
{| cellspacing="5"
{| cellspacing="5"
-
|width="260px" bgcolor="white" |  
+
|width="260px" bgcolor="#E3E3E3" |  
<!-- COMMUNITY HEADER with edit link-->
<!-- COMMUNITY HEADER with edit link-->
<h3><html>
<h3><html>
Line 20: Line 27:
===Project Planning===
===Project Planning===
*[[/Brainstorming/]]
*[[/Brainstorming/]]
 +
 +
===Doin' it===
 +
*[[/Literature/]]
 +
*[[/Strains/]]
 +
*[[/Plasmids/]]
 +
*[[/Lab Notebooks/]]
===For visitors===
===For visitors===
-
*[http://igem.org/2008/ iGEM 2008 Official Page]
+
*[[/Important Stuff/]]
 +
*[http://2008.igem.org/Main_Page iGEM 2008 Official Page]
*[http://parts.mit.edu/igem07/index.php/Harvard Harvard iGEM 2007 Official Page]
*[http://parts.mit.edu/igem07/index.php/Harvard Harvard iGEM 2007 Official Page]
*[http://openwetware.org/wiki/IGEM:Harvard/2007 Harvard iGEM 2007]
*[http://openwetware.org/wiki/IGEM:Harvard/2007 Harvard iGEM 2007]
Line 29: Line 43:
*[http://www.nature.com/nature/comics/syntheticbiologycomic/ SynBio Comic]
*[http://www.nature.com/nature/comics/syntheticbiologycomic/ SynBio Comic]
*[http://karma.med.harvard.edu/w/images/7/7c/Igem05-nyt-article.pdf NYT article] <small>(11/24/05)</small>
*[http://karma.med.harvard.edu/w/images/7/7c/Igem05-nyt-article.pdf NYT article] <small>(11/24/05)</small>
 +
*[http://www.facebook.com/group.php?gid=13190277204 Harvard iGEM 2008 Facebook Group]
<br><br><br><br><br><br><br><br><br><br><br><br><br>
<br><br><br><br><br><br><br><br><br><br><br><br><br>
Line 52: Line 67:
*[[Remy Chait]]
*[[Remy Chait]]
*[[Natalie Farny]]
*[[Natalie Farny]]
-
*[[Christina Agapakis]]
+
*[[User:ChristinaAgapakis|Christina Agapakis]]
*[[Jason Lohmueller]]
*[[Jason Lohmueller]]
 +
*[[User:KimdeMora|Kim de Mora]]
===Advisors===
===Advisors===
Line 66: Line 82:
===Education Advisor===
===Education Advisor===
*[[User:tamarabrenner|Tamara Brenner]] ([[User_talk:tamarabrenner|talk]])
*[[User:tamarabrenner|Tamara Brenner]] ([[User_talk:tamarabrenner|talk]])
-
<br>
+
<br><br>
-
|width="260px" bgcolor="white" |
+
|width="260px" bgcolor="#E3E3E3" |
<!-- NEWS HEADER with edit link-->
<!-- NEWS HEADER with edit link-->
<h3><html>
<h3><html>
Line 75: Line 91:
<hr/>
<hr/>
<!-- END NEWS HEADER with edit link-->
<!-- END NEWS HEADER with edit link-->
-
===Useful links===
+
===iGEM and OWW===
-
iGEM and OWW
+
*[[Etiquette|OpenWetWare Etiquette]]
*[[Etiquette|OpenWetWare Etiquette]]
*[http://parts.mit.edu/registry BioBricks registry]
*[http://parts.mit.edu/registry BioBricks registry]
-
Literature
+
===Literature===
*[http://nrs.harvard.edu/urn-3:hul.eresource:pubmedpi Pubmed for Harvard PIN holders]
*[http://nrs.harvard.edu/urn-3:hul.eresource:pubmedpi Pubmed for Harvard PIN holders]
*[http://portal.isiknowledge.com.ezp1.harvard.edu ISI Web of Science]
*[http://portal.isiknowledge.com.ezp1.harvard.edu ISI Web of Science]
-
Tools
+
===Tools===
 +
*[http://www.ebi.ac.uk/emboss/align/ Alignment tool]
*[http://www.ncbi.nlm.nih.gov/ NCBI Homepage]
*[http://www.ncbi.nlm.nih.gov/ NCBI Homepage]
*[http://www.biology.utah.edu/jorgensen/wayned/ape Plasmid Mapper]
*[http://www.biology.utah.edu/jorgensen/wayned/ape Plasmid Mapper]
Line 90: Line 106:
*[http://www.idtdna.com/analyzer/Applications/OligoAnalyzer IDT Oligo Analyzer]
*[http://www.idtdna.com/analyzer/Applications/OligoAnalyzer IDT Oligo Analyzer]
*[http://ca.expasy.org/tools/dna.html DNA to Protein translator]
*[http://ca.expasy.org/tools/dna.html DNA to Protein translator]
-
Info
+
*[http://www.kazusa.or.jp/codon/ Codon usage database]
 +
===Info===
*[[IGEM:Harvard/2006/Presentation Advice | Presentation Advice]]
*[[IGEM:Harvard/2006/Presentation Advice | Presentation Advice]]
*[[Kafatos:DNA_1kbplus_ladder | 1 kb+ ladder]]
*[[Kafatos:DNA_1kbplus_ladder | 1 kb+ ladder]]
*[http://www.epibio.com/techapp.asp Buffer and gel tables]
*[http://www.epibio.com/techapp.asp Buffer and gel tables]
-
<br><br><br><br><br><br><br>
+
<br><br><br><br><br><br><br><br>

Current revision

Congratulations to the Harvard team for winning the Best Energy Project and for being one of the 6 finalists at the Jamboree!!


The 2008 Harvard iGEM project is based on the ability to control and measure the electric current production in Shewanella oneidensis MR-1. Multiple genes in Shewanella have been identified as playing a role in transferring electrons to solid substrates, thus generating an easily detectible electric current. Our goal is to be able to detect differences in current output by the activation and/or deactivation of these genes in Shewanella. To do this, we are using mutant strains of Shewanella which have one or more of these important electron transfer genes knocked out and are reintroducing the genes on an inducible plasmid. The electric current produced will be detected by a multimeter, and read by a computer, creating a computer-biology interface.

We are developing two inducible systems for electrical current production in Shewanella. The first is a chemically inducible system, where LacI or TetR repression of the current-production gene expression can be alleviated by the addition of IPTG or anhydrotetracycline, respectively. Our second approach is a light-inducible system based on the 2005 UT Austin biological camera. We are also considering a third approach using cI lambda which would be dependent on temperature.

Using one or both of these systems, we hope to be able to interact with engineered Shewanella in multiple anaerobic microbial fuel cells which we have built. Communication between the fuel cells and a computer then has the potential to be programmable into a game of sorts, such as Tic-Tac-Toe, in which the level of current production induced by a chemical or light input is understood by the computer as a "turn." This rudimentary game is just one of many possibilities for an inducible interaction between computers and bacteria.

Resources Planning


News and Announcements

Getting Started

Project Planning

Doin' it

For visitors














People People


Students

Teaching Fellows

Advisors

Education Advisor



News Links


iGEM and OWW

Literature

Tools

Info











Personal tools