IGEM:UC Berkeley/2006: Difference between revisions
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{| | {| | ||
| rowspan=2 | [[Image:Berkeley.jpg| | | rowspan=2 | [[Image:Berkeley.jpg|left|200px]]'''Addressable Conjugation in Bacterial Networks''' | ||
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> | |||
[[Image: | '''The presentation of our results for the 2006 Jamboree is available at the [http://parts2.mit.edu/wiki/index.php/University_of_California_Berkeley_2006 iGEM Website]'''<br> | ||
[[Image:Microsoft_Logo.jpg|right|200 px]] | |||
''The Berkeley iGEM team very gratefully acknowledges the generous support of Microsoft, which helped make our team members' participation possible.''<br> | |||
|- | |- | ||
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[[Bryan Hernandez]]<br> | [[Bryan Hernandez]]<br> | ||
[[ | [[Matt Fleming]]<br> | ||
[[Kaitlin A. Davis]]<br> | [[Kaitlin A. Davis]]<br> | ||
[[Jennifer | [[Jennifer Lu]]<br> | ||
[[Samantha Liang]]<br> | [[Samantha Liang]]<br> | ||
[[Daniel Kluesing]]<br> | [[Daniel Kluesing]]<br> | ||
[[Will Bosworth]]<br> | [[Will Bosworth]]<br> | ||
'''Postdocs''' | '''Postdocs''' | ||
[[John Dueber]]<br> | [[John Dueber]]<br> | ||
[[Chris Anderson]]<br> | [[Chris Anderson]]<br> | ||
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</html>Tools</h3> | </html>Tools</h3> | ||
<hr/> | <hr/> | ||
<!-- END TOOLS HEADER with edit link--> | <!-- END TOOLS HEADER with edit link--> | ||
[[lab calendar]] | |||
'''The Details''' | '''The Details''' | ||
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[[Berk2006-Oligos | Oligonucleotides]]<br> | [[Berk2006-Oligos | Oligonucleotides]]<br> | ||
[[Berk2006-Sequences | Sequences]]<br> | [[Berk2006-Sequences | Sequences]]<br> | ||
[[Berk2006-Constructs | Construction Files]]<br> | [[Berk2006-Constructs | Construction Files]]<br> | ||
[[Berk2006-StockBoxes | -80 Stocks]]<br> | [[Berk2006-StockBoxes | -80 Stocks]]<br> | ||
[[Berk2006-Sequencing | Sequencing]]<br> | |||
'''Procedures''' | |||
[[IGEM:UC Berkeley/2006/Procedure Overview (Plasmid DNA to Sequencing)|Procedure Overview (Plasmid DNA to Sequencing)]]<br> | |||
[[IGEM:UC Berkeley/2006/Competent cell production|Competent cell production]]<br> | |||
[[IGEM:UC Berkeley/2006/Plasmid Transformation|Plasmid Transformation]]<br> | |||
[[IGEM:UC Berkeley/2006/Digestion1|Digestion]]<br> | |||
[[IGEM:UC Berkeley/2006/Ligation|Ligation]]<br> | |||
[[IGEM:UC Berkeley/2006/Sequencing|Sequencing]]<br> | |||
[[IGEM:UC Berkeley/2006/OverlapExtensionRxn|Overlap extension of oligos]]<br> | |||
[[IGEM:UC Berkeley/2006/PCRPrep|PCR prep]]<br> | |||
[[IGEM:UC Berkeley/2006/Conjugation|Conjugation]]<br> | |||
[[IGEM:UC Berkeley/2006/DNAGelPrep|DNA Gel pouring]]<br> | |||
[[IGEM:UC Berkeley/2006/DNA purifications|DNA purifications]]<br> | |||
[[IGEM:UC Berkeley/2006/PCR machine program (extend kit)|PCR machine program (Expand kit)]]<br> | |||
[[IGEM:UC Berkeley/2006/Knockouts|Knockouts]]<br> | |||
[[IGEM:UC Berkeley/2006/Knockouts by Electroporation of pOX38 x pKD46|Knockouts by Electroporation of pOX38 x pKD46]]<br> | |||
''' | |||
'''Subgroup Notebooks''' | |||
[[Berk2006-ConjugationTeam | Conjugation 6/7/06-7/21/06]]<br> | |||
[[Berk2006-ConjugationTeam2 | Conjugation 7/24/06 - 09/07/06]]<br> | |||
[[Berk2006-ConjugationTeam3 | Conjugation 09/07/06- present]]<br> | |||
[[Berk2006-LocksAndKeysTeam | Locks and Keys]]<br> | |||
[[Berk2006-LogicGatesTeam | Logic Gates]]<br> | |||
[http://www.openwetware.org/wiki/IGEM:UC_Berkeley/2006/bryans_notebook Bryan's Lock and Keys]<br> | |||
[[Berk2006-Samantha's Notebook | Samantha's Notebook]]<br> | |||
<br> | |||
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<!-- USER HEADER with edit link--> | <!-- USER HEADER with edit link--> | ||
<h3><html> | <h3><html> | ||
<img src="http://openwetware.org/images/b/b9/Icon_board.png" alt="Resources"> | <img src="http://openwetware.org/images/b/b9/Icon_board.png" alt="Resources"> | ||
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'''Addressable Cell-to-Cell Communication''' | '''Addressable Cell-to-Cell Communication''' | ||
[[ | *[[Media:071906-JCAGroupMeeting.ppt| 071906 JCA Group Meeting]] | ||
*[[Media:060506-Meeting.ppt| 060506 Meeting]] | |||
*[[Media:Berkeley 2005 Jamboree.ppt| Berkeley 2005 'Jamboree']] | |||
*[http://parts2.mit.edu/wiki/index.php/UC_Berkeley_2005 2005 Project] | |||
*[http://parts.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM2006&group=iGEM2006_Berkeley '''2006 Parts List'''] | |||
'''Useful Links''' | |||
*[[IGEM|iGEM]] | |||
*[http://parts2.mit.edu/wiki/index.php/University_of_California_Berkeley_2006 UC Berkeley iGEM wiki] | |||
*[http://parts2.mit.edu/wiki/index.php/Main_Page iGEM wiki] | |||
*[http://parts.mit.edu/registry/index.php/Main_Page Registry of Standard Biological Parts] | |||
*[http://parts2.mit.edu/r/parts/partsdb/pgroup.cgi?pgroup=iGEM&group=iGEM_Berkeley 2005 Biobricks] | |||
*[[Image:iGEM2006Distribution.xls|iGEM2006 Distribution compiled list]] | |||
*[http://parts2.mit.edu/wiki/index.php/University_of_California_Berkeley_2006 | iGEM site] | |||
'''Subgroup Strategies, Overview''' | |||
*[[Powerpoint presentations, drafts]] | |||
|} | |} | ||
Latest revision as of 13:29, 4 June 2010
 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.  The Berkeley iGEM team very gratefully acknowledges the generous support of Microsoft, which helped make our team members' participation possible. |
