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==2007 Virginia Genetically Engineered Machine (VGEM) Team==
<center>http://scs.student.virginia.edu/~aepi/uva_logo.gif http://www.phys.virginia.edu/images/RotundaKaiHui300x225.jpg
Welcome to the new VGEM Team wiki! The VGEM Team was founded by George McArthur so that the University of Virginia could send an undergraduate bioengineering team to compete in MIT's international Genetically Engineered Machines competition [http://parts.mit.edu/igem (iGEM)].  The objective of the competition is to design and build an engineered biological system using DNA. Systems will be constructed from [http://parts.mit.edu standard biological parts]. Last year, there were around [http://parts2.mit.edu/wiki/index.php/Schools_Participating_in_iGEM_2006 40 schools] participating from around the world ([http://parts.mit.edu/wiki/index.php/World_map see map]). You can read more about the competition [http://icampus.mit.edu/projects/iGem.shtml  here] We'll be adding new information regularly, so be sure to check up on us soon.
[[Image:VGEM_new_logo.jpg|250px]]</center><br />
==<font color="#FF6600"><center>2007 Virginia Genetically Engineered Machine Team</center></font>==
Welcome to the 2007 VGEM Team's OpenWetWare wiki.  This wiki contains the internal workings of our team, including our online lab notebook, project designs and other useful information. The VGEM Team is an undergraduate research group interested in synthetic biology and biological engineering, and will compete in MIT's 2007 international Genetically Engineered Machines competition [http://www.igem2007.com (iGEM)] in November.  Check on [http://parts.mit.edu/igem07/index.php/Virginia our official iGEM wiki] for our final project description and [http://seas.virginia.edu/VGEM our external website] for more information about the team.<br />  
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==<center>Acknowledgements</center>==
<center>The VGEM Team was made possible by the generous support from the following groups at the University of Virginia:</center>
<center>The Departments of [http://www.bme.virginia.edu '''Biomedical Engineering'''], [http://www.che.virginia.edu '''Chemical Engineering'''], [http://www.virginia.edu/biology '''Biology'''], and [http://www.healthsystem.virginia.edu/internet/microbiology/ '''Microbiology''']</center>
<center>[http://www.seas.virginia.edu '''The School of Engineering and Applied Science'''] and the [http://www.seas.virginia.edu/vef/ '''The Virginia Engineering Foundation''']</center>
<center>[http://www.virginia.edu/vprgs/ '''The Office of the Vice President for Research and Graduate Studies''']</center>
<center>[http://http://www.healthsystem.virginia.edu/internet/som/home.cfm '''The School of Medicine''']</center><br />
<center> We would like to acknowledge and thank our 2007 corporate sponsor:</center>
<center> [http://www.dna20.com/ http://tbn0.google.com/images?q=tbn:twELO5rfkLG1VM:http://www.teknova.com/dna20/us/images/dna_c.jpg]</center>
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<div id="about">
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<center><img src="http://openwetware.org/images/b/b9/Icon_board.png" alt="Resources">
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Our 2007 project is focused on energy biotechnology and is titled '''"Harvesting Plant Biomass and Sunlight to Power Butanol Biosynthesis: A Synthetic Biology Approach to Metabolic Pathway Engineering."''' More information about our project can be found at our official iGEM wiki, which you can get to by clicking the iGEM logo below. Please check out our other project designs by clicking the "projects" link listed below the iGEM logo.
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<center>[http://parts.mit.edu/igem07/index.php/Virginia http://www.openwetware.org/images/f/ff/IGEM-logo.png]</center><br />
*[[IGEM:VGEM/2007/Projects| <font color="#000000">Projects</font>]]
*[[IGEM:VGEM/2007/Timeline| <font color="#000000">Timeline</font>]]
*[http://www.google.com/calendar/embed?src=pi9gjqgh83id5hokqqd6ciei08%40group.calendar.google.com <font color="#000000">Calendar</font>]
*[[IGEM:VGEM/2007/Meetings| <font color="#000000">Meetings</font>]]
*[[IGEM:VGEM/2007/Notebook| <font color="#000000">Lab Notebook</font>]]
*[[IGEM:VGEM/2007/Journal Club| <font color="#000000">Summer Journal Club</font>]]
===Resources===
*[http://www.DNA20.com<font color="#000000">DNA2.0</font>]
*[http://www.geneart.com/index.php?id=252<font color="#000000">GENEART</font>]
*[http://parts.mit.edu/registry/index.php/Main_Page <font color="#000000">Registry for Standard Biological Parts</font>]
*[[IGEM:Help| <font color="#000000">Guides</font>]]
*[https://new.fishersci.com/wps/portal/HOME<font color="#000000">Fisher Scientific</font>]
*[http://www.dnahack.com <font color="#000000">DNA Hack</font>]
*[http://www.ncbi.nlm.nih.gov <font color="#000000">NCBI website</font>]
*[http://sbml.org <font color="#000000">Systems Biology Workbench</font>]
*[http://syntheticbiology.org <font color="#000000">Synthetic Biology Community</font>]
*[http://www.springer.com/west/home?SGWID=4-102-70-173669004-0&changeHeader=true&SHORTCUT=www.springer.com/11693 <font color="#000000">Systems and Synthetic Biology Journal</font>]
*[http://www.ietdl.org/IET-STB<font color="#000000">IET Synthetic Biology Journal</font>]
*[http://webcast.berkeley.edu/event_details.php?webcastid=15766<font color="#000000">Synthetic Biology 2.0 Conference</font>]
*[http://video.google.com/videoplay?docid=-8615490726732890001&q=synthetic+biology+video&hl=en<font color="#000000">''Pimp my genome'' video</font>]
*[http://www.dnai.org<font color="#000000">DNAi website</font>]
*[http://synthesis.typepad.com/<font color="#000000">Rob Carlson's Blog</font>]
*[http://www.paraschopra.com/blog/biohacking.php<font color="#000000">Biohacking Blog</font>]
*[http://www.ebiweb.org/research.htm<font color="#000000">Energy Biosciences Institute</font>]
*[http://i-r-squared.blogspot.com/2006/05/bio-butanol.html<font color="#000000">R-Squared Energy Blog</font>]
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<!-- PERSONNEL HEADER with edit link-->
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<center><img src="http://openwetware.org/images/3/39/Icon_groups.png" alt="People">
</html>Personnel</h3>
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Our group is an interdisciplinary conglomeration that includes researchers from The School of Engineering and Applied Science, The College of Arts and Sciences, and the School of Medicine. <br />
<br />
[[Image:VGEM Team pic for Cav Daily.jpg|center|275px]]
<center>[mailto:mcarthur@virginia.edu?subject=VGEM_Query <font color="#FFFFFF"> '''email the VGEM team'''</font>]</center>
<br />
===<center>Undergraduate Team</center>===
*[[User:GMcArthurIV| <font color="#000000">'''George McArthur'''</font>]], Chemical Engineering
*[[User:KPHershey| <font color="#000000">'''Kevin Hershey'''</font>]], Chemical Engineering
*[[User:aeschell| <font color="#000000">'''Amy Schell'''</font>]], Biomedical Engineering
*[[User:rpkhan| <font color="#000000">'''Ranjan Khan'''</font>]], Biomedical Engineering
*[[User:eruhi| <font color="#000000">'''Emre Ruhi'''</font>]], Biology
*'''Snowflake''', Albino gorilla
<br />


'''Want to learn some basic ideas regarding Synthetic Biology?''' Check out this [http://www.nature.com/nature/comics/syntheticbiologycomic/index.html comic] by [[User:Endy| Drew Endy]], a synthetic biologist at MIT.
===<center>Graduate Mentor</center>===
*<font color="#000000">'''Brianne Ray'''</font>, Microbiology
<br />
===<center>Lab Specialist</center>===
*<font color="#000000">'''Kay Christopher'''</font>, Biology
<br />


==Acknowledgements==
===<center>Faculty Advisors</center>===
This team was made possible by the generous support from the following:
*[http://www.che.virginia.edu/fernandez.html <font color="#000000">'''Erik Fernandez'''</font>], Chemical Engineering
*[http://www.seas.virginia.edu '''The School of Engineering and Applied Science''']
*[http://bme.virginia.edu/people/faculty/papin/ <font color="#000000">'''Jason Papin'''</font>], [http://www.seas.virginia.edu/news/papin.php <font color="#000000">news</font>] Biomedical Engineering
*[http://www.seas.virginia.edu/vef/ '''The Virginia Engineering Foundation''']
*[http://minerva.acc.virginia.edu/biology/Fac/Bauerle.html <font color="#000000">'''Ron Bauerle'''</font>], Biology
*[http://www.virginia.edu/vprgs/ '''The Office of the Vice President for Research''']
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*[http://www.bme.virginia.edu '''The Department of Biomedical Engineering''']
===<center>Financial Administrator</center>===
*[http://www.che.virginia.edu '''The Department of Chemical Engineering''']
*[http://www.che.virginia.edu/davis.html <font color="#000000">'''Bob Davis'''</font>], Chemical Engineering
*[http://www.virginia.edu/biology '''The Department of Biology''']
<br />
==Personnel==
===<center>[[IGEM:VGEM/2007/Contact| Additional Contact Information]]</center>===
===Undergraduate Team===
===<center>[[IGEM:VGEM/2007/Pics| Photographs]]</center>===
*[[User:GMcArthurIV|'''George McArthur''']], 3rd year, Chemical Engineering and Music - [mailto:mcarthur@virginia.edu?subject=VGEM_Query email the VGEM team]
<br />
*[[User:KPHershey| '''Kevin Hershey''']], 3rd year, Chemical Engineering
''Engineering is a great profession. There is the satisfaction of watching a figment of the imagination emerge through the aid of science to a plan on paper. Then it moves to realisation in stone or metal or energy. Then it brings homes to men or women. Then it elevates the standard of living and adds to the comforts of life. This is the engineer's high privilege.''<br/ >
*[[User:aeschell| '''Amy Schell''']], 3rd year, Biomedical Engineering
<center> - Herbert Hoover (1874-1964)</center>
*[[User:rpkhan| '''Ranjan Khan''']], 2nd year, Biomedical Engineering
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*[[User:eruhi| '''Emre Ruhi''']], 3rd year, Biology
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===Graduate Mentor===
|width="240px" style="padding: 10px; background-color: #FF6600; border: 2px solid #8FB08C;" |
*'''Brianne Ray''', Microbiology
<!-- PROJECT HEADER with edit link-->
===Faculty Advisors===
*[http://www.che.virginia.edu/fernandez.html '''Erik Fernandez'''], Chemical Engineering
*[http://bme.virginia.edu/people/faculty/papin/ '''Jason Papin'''], [http://www.seas.virginia.edu/news/papin.php news] Biomedical Engineering
*[http://minerva.acc.virginia.edu/biology/Fac/Bauerle.html '''Ron Bauerle'''], Biology
===[[VGEM:Contact| Additional Contact Information]]===
==Project==
'''Our project will be mind-blowing and reality-bending.'''  We'll be working with ''E. coli'' and hope to tackle a medical or environmental engineering problem or both!  Our group is interested in utilizing synthetic biology engineering principles in the metabolic engineering of bacteria for the production of sophisticated biomaterials, fine chemicals such as biopharmaceuticals, and renewable energy alternatives such as ethanol and hydrogen. <br />


 
<h3><html>
===Planning===
<center></html>Papers</h3>
*[[IGEM:VGEM/2007/Meetings| Meetings]]
<hr/>
===Documentation===
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*[[IGEM:VGEM/2007/Notebook| Lab Notebook]]
===Introductions===
===Resources===
*[http://www.nature.com/nature/comics/syntheticbiologycomic/index.html <font color="#000000">Adventures in Synthetic Biology</font>] a comic by [[User:Endy| <font color="#000000">Drew Endy</font>]]
*[http://parts.mit.edu/registry/index.php/Main_Page Registry for Standard Biological Parts]
*[http://www.etcgroup.org/en/materials/publications.html?id=602 <font color="#000000">Extreme genetic engineering: An introduction to synthetic biology</font>]
*[[Synthetic Biology:BioBricks| BioBricks Protocols]]
*[http://www.economist.com/business/displaystory.cfm?story_id=7854314<font color="#000000">''Life 2.0'' Economist article</font>]
*[[IGEM| iGEM on OpenWetWare]]
*[http://www.msnbc.msn.com/id/18882828/site/newsweek/page/0/<font color="#000000">''Life 2.0'' Newsweek article</font>]
==Papers==
===Reviews and Perspectives===
===Introductory Papers===
*[http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=ShowDetailView&TermToSearch=17251159&ordinalpos=2&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum <font color="#000000">Biology by Design</font>] by You ''et al''
*[http://www.etcgroup.org/en/materials/publications.html?id=602 Extreme genetic engineering: An introduction to synthetic biology]
*[http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VRV-4KWTFBB-3&_user=709071&_coverDate=10%2F31%2F2006&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039638&_version=1&_urlVersion=0&_userid=709071&md5=55327bdfbda5081b078808963c8a92b6 <font color="#000000">Genetic parts to program bacteria</font>] by Chris Voigt
===Reviews and Perspective Papers===
*[http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VRV-4KPX8RY-1&_user=709071&_coverDate=10%2F31%2F2006&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039638&_version=1&_urlVersion=0&_userid=709071&md5=7a316893fbee50cab2742cc3b6de73b4 <font color="#000000">Systems biology as a foundation for genome-scale synthetic biology</font>] by B. Palsson ''et al''
*[http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VRV-4KWTFBB-3&_user=709071&_coverDate=10%2F31%2F2006&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039638&_version=1&_urlVersion=0&_userid=709071&md5=55327bdfbda5081b078808963c8a92b6 Genetic parts to program bacteria] by Chris Voigt
*[http://www3.interscience.wiley.com/cgi-bin/abstract/112633378/ABSTRACT?CRETRY=1&SRETRY=0 <font color="#000000">A perspective of synthetic biology: Assembling building blocks for novel functions</font>] by Patrick Fu
===Foundational Papers===
===Foundations===
*[http://www.nature.com/nature/journal/v403/n6767/abs/403335a0.html A synthetic oscillatory network of transcriptional regulators] by Michael B. Elowitz and Stanislas Leibler
*[http://www.nature.com/nature/journal/v403/n6767/abs/403335a0.html <font color="#000000">A synthetic oscillatory network of transcriptional regulators</font>] by Michael B. Elowitz and Stanislas Leibler
*[http://www.nature.com/nature/journal/v403/n6767/abs/403339a0.html Construction of a genetic toggle switch in ''Escherichia coli''] by James J. Collins ''et al''
*[http://www.nature.com/nature/journal/v403/n6767/abs/403339a0.html <font color="#000000">Construction of a genetic toggle switch in ''Escherichia coli''</font>] by James J. Collins ''et al''
*[http://www.nature.com/nature/journal/v438/n7067/abs/nature04342.html;jsessionid=3E7E09FF4E647671DF79F2A37BC3632F Foundations for engineering biology] by Drew Endy
*[http://dspace.mit.edu/handle/1721.1/21168 <font color="#000000">Biobricks</font>] by Tom Knight
===Current Research Papers===
*[http://www.nature.com/nature/journal/v438/n7067/abs/nature04342.html;jsessionid=3E7E09FF4E647671DF79F2A37BC3632F <font color="#000000">Foundations for engineering biology</font>] by Drew Endy
*[http://www.nature.com/nchembio/journal/v2/n12/abs/nchembio836.html;jsessionid=EFAF8B58DDCC1CB3D2EB61B11223039B Production of isoprenoid pharmaceuticals by engineered microbes] by Jay Keasling ''et al''
===Current Research===
*[http://www.nature.com/nchembio/journal/v2/n12/abs/nchembio836.html;jsessionid=EFAF8B58DDCC1CB3D2EB61B11223039B <font color="#000000">Production of isoprenoid pharmaceuticals by engineered microbes</font>] by Jay Keasling ''et al''
*[http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=ShowDetailView&TermToSearch=17239639&ordinalpos=12&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum<font color="#000000">Balancing a heterologous mevalonate pathway for improved isoprenoid production in Escherichia coli</font>] by Jay Keasling ''et al''
*[http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WK7-4HJRXGD-4&_user=709071&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000039638&_version=1&_urlVersion=0&_userid=709071&md5=cac1dbad4022f85af3724a9ba787d3dd <font color="#000000">Environmentally Controlled Invasion of Cancer Cells by Engineered Bacteria</font>] by Chris Voigt ''et al''
===Implications===
*[http://www.nature.com/nbt/journal/v25/n6/pdf/nbt0607-627.pdf<font color="#000000">DNA synthesis and biological security</font>]
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Latest revision as of 18:51, 13 October 2007

http://scs.student.virginia.edu/~aepi/uva_logo.gif http://www.phys.virginia.edu/images/RotundaKaiHui300x225.jpg


2007 Virginia Genetically Engineered Machine Team

Welcome to the 2007 VGEM Team's OpenWetWare wiki. This wiki contains the internal workings of our team, including our online lab notebook, project designs and other useful information. The VGEM Team is an undergraduate research group interested in synthetic biology and biological engineering, and will compete in MIT's 2007 international Genetically Engineered Machines competition (iGEM) in November. Check on our official iGEM wiki for our final project description and our external website for more information about the team.

Acknowledgements

The VGEM Team was made possible by the generous support from the following groups at the University of Virginia:
The Departments of Biomedical Engineering, Chemical Engineering, Biology, and Microbiology
The School of Engineering and Applied Science and the The Virginia Engineering Foundation
The Office of the Vice President for Research and Graduate Studies
The School of Medicine


We would like to acknowledge and thank our 2007 corporate sponsor:
http://tbn0.google.com/images?q=tbn:twELO5rfkLG1VM:http://www.teknova.com/dna20/us/images/dna_c.jpg

<html> <center><img src="http://openwetware.org/images/b/b9/Icon_board.png" alt="Resources"> </html>Project

Our 2007 project is focused on energy biotechnology and is titled "Harvesting Plant Biomass and Sunlight to Power Butanol Biosynthesis: A Synthetic Biology Approach to Metabolic Pathway Engineering." More information about our project can be found at our official iGEM wiki, which you can get to by clicking the iGEM logo below. Please check out our other project designs by clicking the "projects" link listed below the iGEM logo.

http://www.openwetware.org/images/f/ff/IGEM-logo.png

Resources

<html> <center><img src="http://openwetware.org/images/3/39/Icon_groups.png" alt="People"> </html>Personnel

Our group is an interdisciplinary conglomeration that includes researchers from The School of Engineering and Applied Science, The College of Arts and Sciences, and the School of Medicine.

email the VGEM team


Undergraduate Team


Graduate Mentor

  • Brianne Ray, Microbiology


Lab Specialist

  • Kay Christopher, Biology


Faculty Advisors


Financial Administrator


Additional Contact Information

Photographs


Engineering is a great profession. There is the satisfaction of watching a figment of the imagination emerge through the aid of science to a plan on paper. Then it moves to realisation in stone or metal or energy. Then it brings homes to men or women. Then it elevates the standard of living and adds to the comforts of life. This is the engineer's high privilege.

- Herbert Hoover (1874-1964)

<html> <center></html>Papers

Introductions

Reviews and Perspectives

Foundations

Current Research

Implications
Retrieved from "https://openwetware.org/mediawiki/index.php?title=IGEM:VGEM/2007&oldid=158283"