Boston University

From 2007.igem.org

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== About Us ==
== About Us ==
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Welcome to the wiki for Boston University's iGEM 2007 team!
Welcome to the wiki for Boston University's iGEM 2007 team!
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[[Image:BU_bubio.jpg|right]]
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Our team consists of [[Boston_UniversityDS | David Shi]], [[BostonUniversity_RA | Rahul Ahuja]], [[Boston_UniversityCL | Christian Ling]], and [[Boston_UniversityDB | Danny Bellin]], all soon-to-be juniors majoring in Biomedical Engineering at Boston University.
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Our team consists of [[Boston_University/DS | David Shi]], [[Boston_University/RA | Rahul Ahuja]], [[Boston_University/CL | Christian Ling]], and [[Boston_University/DB | Danny Bellin]],
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all soon-to-be juniors majoring in Biomedical Engineering at Boston University.
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We are advised by [http://www.bu.edu/dbin/bme/faculty/?prof=tgardner Dr. Timothy Gardner], Assistant Professor of Biomedical Engineering, as well as [[Frank Juhn]], [[Kevin Litcofsky]], and [[Stephen Schneider]], students in the [http://gardnerlab.bu.edu/ Gardner Laboratory], where we work.  We are grateful to our advisors for their time and support!
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We are advised by [http://www.bu.edu/dbin/bme/faculty/?prof=tgardner Dr. Timothy Gardner], Assistant Professor of Biomedical Engineering, as well as [[Boston_University/FJ | Frank Juhn]], [[Boston_University/KL | Kevin Litcofsky]], and [[Boston_University/SS | Stephen Schneider]], students in the [http://gardnerlab.bu.edu/ Gardner Laboratory], where we work.  We are grateful to our advisors for their time and support!
We are also grateful to [http://www.pfizer.com Pfizer], the [http://www.bu.edu/eng Boston University College of Engineering], and the [http://www.bu.edu/eng/bme Boston University Department of Biomedical Engineering], for their generous support of our team.
We are also grateful to [http://www.pfizer.com Pfizer], the [http://www.bu.edu/eng Boston University College of Engineering], and the [http://www.bu.edu/eng/bme Boston University Department of Biomedical Engineering], for their generous support of our team.
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The goal of our project is to use [[Directed_Evolution | directed evolution]] to increase the current output of the electrogenic bacteria [[Shewanella_oneidensis | Shewanella oneidensis]] (affectionately referred to as Shewie in the Gardner Lab). As the name suggests, directed evolution consists of two main steps: intentionally mutating DNA and then selecting for the expression of desired traits.  
The goal of our project is to use [[Directed_Evolution | directed evolution]] to increase the current output of the electrogenic bacteria [[Shewanella_oneidensis | Shewanella oneidensis]] (affectionately referred to as Shewie in the Gardner Lab). As the name suggests, directed evolution consists of two main steps: intentionally mutating DNA and then selecting for the expression of desired traits.  
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In the case of S. oneidensis, certain [[GTRs_in_S_oneidensis | global transcription regulators]] in its genome have been identified as being related to the metabolic processes of the bacteria. These global transcription regulators will be mutated via [[Error_prone_PCR | error-prone PCR]] and transformed into S. oneidensis in hopes of altering current output. Bacteria that express greater electrogenic capability will then be selected via [[Flow_cytometry | flow cytometry]] or other viable [[Selection_Methods | selection methods]]. This process of directed evolution can be repeated with previously selected S. oneidensis in order to increase the level of electrogenesis even further.
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In the case of S. oneidensis, certain [[GTRs_in_S_oneidensis | global transcription regulators]] in its genome have been identified as being related to the metabolic processes of the bacteria. These global transcription regulators will be mutated via [[Error_prone_PCR | error-prone PCR]] and transformed into S. oneidensis in hopes of altering current output.  
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== Project Progress ==
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Bacteria that express greater electrogenic capability will then be selected via [[Boston_University/Fluorescence-Activated_Cell_Sorting | flow cytometry]] or other viable selection methods.
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[[Boston_UniversityStatus | Project Progress]]
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This process of directed evolution can be repeated with previously selected S. oneidensis in order to increase the level of
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electrogenesis even further.
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{| align="center" style="width:75%; color:white;" border="1"
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{| align="center" style="color:white;" border="1"
|-  
|-  
| bgcolor="#990000" color="white" height="30pt" align="center" | '''Our Team'''  
| bgcolor="#990000" color="white" height="30pt" align="center" | '''Our Team'''  
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| bgcolor="#990000" color="white" align="center" | '''Miscellany'''
| bgcolor="#990000" color="white" align="center" | '''Miscellany'''
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|- style="color:#990000;"
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| align="left" width="200pt" | '''Undergraduate Students'''  
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| align="left" width="375pt" |  
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:Rahul Ahuja • Daniel Bellin
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:'''Undergraduate Students'''  
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:Christian Ling • David Shi  
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::[[Boston_University/RA | Rahul Ahuja]] [[Boston_University/DB | Daniel Bellin]]
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'''Graduate Advisors'''
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::[[Boston_University/CL | Christian Ling]] [[Boston_University/DS | David Shi]]
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:Frank Juhn • Kevin Litcofsky
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:'''Graduate Advisors'''
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:Stephen Schneider
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::[[Boston_University/Frank Juhn | Frank Juhn]] [[Boston_University/Kevin Litcofsky | Kevin Litcofsky]]
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'''Principal Advisor'''
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::[[Boston_University/Stephen Schneider | Stephen Schneider]]
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:Prof. Timothy Gardner
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:'''Principal Advisor'''
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| align="left" width="300pt"| '''Why ''S. oneidensis''? '''
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::[http://www.bu.edu/dbin/bme/faculty/?prof=tgardner Dr. Timothy Gardner]
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'''Directed Evolution'''
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| align="left" width="350pt"|  
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:1. Plasmid Selection and Design
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:'''[[Boston_University/Why_Shewie | Why ''S. oneidensis''?]] '''
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:2. Mutation of GTFs
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:'''Directed Evolution'''
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:3. Transformation of GTFs into Shewie
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::1. [[Boston_University/Plasmid Selection and Design | Plasmid Selection and Design]]
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:::TOPO Cloning • Conjugation Zymo
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::2. [[Boston_University/Mutation of GTFs | Mutation of GTFs]]
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:4. Selection Methods
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::3. Transformation of GTFs into Shewie
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:::Fluorescence-Activated Cell Sorting
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::::[[Boston_University/TOPO Cloning | TOPO Cloning]] [[Boston_University/Conjugation | Conjugation]] [[Boston_University/Zymo | Zymo]]
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| align="left" |  
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::4. Selection Methods
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:'''TOPO Cloning'''
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::::[[Boston_University/Microencapsulation | Microencapsulation ]]
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:'''TOPO Transformation'''
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::::[[Boston_University/Redox-sensitive fluorescent dye | Redox-sensitive fluorescent dye]]
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:'''Bacterial Conjugation'''
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::::[[Boston_University/Fluorescence-Activated Cell Sorting | Fluorescence-Activated Cell Sorting]]
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:'''Zymo Transformation'''
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| align="left" width="250pt" |  
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:'''Electroporation'''
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:'''[[Boston_University/Zymo Transformation Results | Zymo Transformation]]'''
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| align="center" | '''stv'''
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:'''[[Boston_University/Electroporation Results | Electroporation]]'''
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:'''[[Boston_University/Bacterial Conjugation Results | Bacterial Conjugation]]'''
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:'''[[Boston_University/Plasmid Customization | Plasmid Customization]]'''
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:'''[[Boston_University/TOPO Cloning Results | TOPO Cloning]]'''
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:'''[[Boston_University/TOPO Transformation Results | TOPO Transformation]]'''
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:'''[[Hi-Scores and Other Greatness]]'''
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| align="left" width="250" |  
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:'''[[Boston_University/Project Progress | Project Progress]]'''
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:'''[[Boston_University/Protocols | Protocols]]
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:'''[[Boston_University/Lab Photos | Lab Photos]]
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<!--:'''[[Boston_University/Team Photos | Team Photos]]-->
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:'''[[Boston_University/BU Photos | BU Photos]]
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:'''[[Boston_University/Image Dump | Image Dump (56k stay away!)]]
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==Supported By==
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Latest revision as of 22:29, 20 October 2007

BU banner.JPG


About Us

Welcome to the wiki for Boston University's iGEM 2007 team!

BU bubio.jpg

Our team consists of David Shi, Rahul Ahuja, Christian Ling, and Danny Bellin, all soon-to-be juniors majoring in Biomedical Engineering at Boston University.

We are advised by [http://www.bu.edu/dbin/bme/faculty/?prof=tgardner Dr. Timothy Gardner], Assistant Professor of Biomedical Engineering, as well as Frank Juhn, Kevin Litcofsky, and Stephen Schneider, students in the [http://gardnerlab.bu.edu/ Gardner Laboratory], where we work. We are grateful to our advisors for their time and support!

We are also grateful to [http://www.pfizer.com Pfizer], the [http://www.bu.edu/eng Boston University College of Engineering], and the [http://www.bu.edu/eng/bme Boston University Department of Biomedical Engineering], for their generous support of our team.

Our Project

The goal of our project is to use directed evolution to increase the current output of the electrogenic bacteria Shewanella oneidensis (affectionately referred to as Shewie in the Gardner Lab). As the name suggests, directed evolution consists of two main steps: intentionally mutating DNA and then selecting for the expression of desired traits.

In the case of S. oneidensis, certain global transcription regulators in its genome have been identified as being related to the metabolic processes of the bacteria. These global transcription regulators will be mutated via error-prone PCR and transformed into S. oneidensis in hopes of altering current output.

Bacteria that express greater electrogenic capability will then be selected via flow cytometry or other viable selection methods.

This process of directed evolution can be repeated with previously selected S. oneidensis in order to increase the level of

electrogenesis even further.


Our Team Project Design Project Results Miscellany
Undergraduate Students
Rahul Ahuja Daniel Bellin
Christian Ling David Shi
Graduate Advisors
Frank Juhn Kevin Litcofsky
Stephen Schneider
Principal Advisor
[http://www.bu.edu/dbin/bme/faculty/?prof=tgardner Dr. Timothy Gardner]
Why S. oneidensis?
Directed Evolution
1. Plasmid Selection and Design
2. Mutation of GTFs
3. Transformation of GTFs into Shewie
TOPO Cloning Conjugation Zymo
4. Selection Methods
Microencapsulation
Redox-sensitive fluorescent dye
Fluorescence-Activated Cell Sorting
Zymo Transformation
Electroporation
Bacterial Conjugation
Plasmid Customization
TOPO Cloning
TOPO Transformation
Hi-Scores and Other Greatness
Project Progress
Protocols
Lab Photos
BU Photos
Image Dump (56k stay away!)


Supported By

BU pfizer.gif Bu collegeofengineering.gif Bu Gardner logo small.jpg