Team:WashU StLouis

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<h1>WashU IGEM received a Silver Medal for participating in the Giant Jamboree! Congratulations to everyone involved~<br> <br>Additionally, we are now recruiting for 2015. Please follow <a target="_blank" href="https://drive.google.com/file/d/0ByOQoDVkzlgweUFrbkhlcHZNTjg/view">this link</a> for the application! </h1>
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<h1> Site is currently under major construction, excuse the glitches! </h1>
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<h1>Engineering <span style="font-style: italic;">E. coli</span>
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to Fix Nitrogen and Regulating Transcription with Light<br>
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</h1>
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<p> </p>
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<h3> Why are we doing this project? </h3>
 +
<div style="text-align: left;">Synthetic biology is an exciting area of research that aims to genetically improve organisms to make them more efficient and hopefully more useful to us as well. The human population in 1950 was 2.5 billion, yet it is predicted to surpass 9 billion by 2050 <a href="https://2014.igem.org/Team:WashU_StLouis/Project/light#7">[1]</a>. Even with population growth slowing, increasing life spans and standards of living will soon tax our natural resources. One of the most concerning is our food supply. The agriculture industry needs a revolution in order to keep up with our expected growth rates. Currently about 80% of chemically fixated nitrogen is used as agricultural fertilizers, the majority in developed lands <a href="https://2014.igem.org/Team:WashU_StLouis/Project/light#7">[1]</a>. Intracellular nitrogen fixation in crops could help to sustain the burgeoning world population, especially in areas with less fertile soil without taxing the planet’s waterways. The exponential increase in nitrogen fertilizer has led to more runoff into rivers and oceans. Fertilizers then provide nutrition for algal blooms that result in hypoxia and form oceanic dead zones. These dead zones lead to the death of marine species and have potentially large economic consequences. <br>
<br>
<br>
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<h3> We are also looking for teams to collaborate. <br> Please  <a href="mailto:washu.igem@gmail.com"> email </a> or follow us on Social Media
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The ramifications of nitrogen fertilizer runoff can be averted by
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        <a href="http://www.facebook.com/WashuIgem"><img src="https://static.igem.org/mediawiki/2014/c/cd/WashU_Facebook_icon.png" style="width:40px"/></a>
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genetically engineering plant crops to fix their own nitrogen. Some
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        <a href="http://twitter.com/WashUiGEM"><img src="https://static.igem.org/mediawiki/2014/e/e2/WashU_Twitter_Icon.png" style="width:40px"/></a> for latest updates </h3>
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cyanobacteria fix nitrogen for nutritional needs, while most organisms
 +
can only acquire it from the food it consumes. Synthetic biology allows
 +
us to transfer this ability to fix nitrogen to a heterologous host that
 +
has many genetic tools, <span style="font-style: italic;">Escherichia
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coli</span>, so that we can learn how to give single cell organisms,
 +
and eventually chloroplasts the ability to create their own nitrogen
 +
fertilizer.<br>
<br>
<br>
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<h1> Project Description </h1>
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Diazotrophic (organisms that fix nitrogen) cyanobacteria such <span
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style="font-style: italic;">Nostoc
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<h3> Why are we doing this project? </h3> <br>
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Punctiforme</span> or <span style="font-style: italic;">Anabaena</span>
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      <div align="center">
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use heterocysts (specialized nitrogen fixing
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            <iframe width="640" height="360" src="//www.youtube.com/embed/5B73_8vcENI" frameborder="0" allowfullscreen></iframe>
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cells) to create a mini-anaerobic environment to aid nitrogen fixation.
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      </div>
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However, <span style="font-style: italic;">Cyanothece</span> 51142, a
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</p>
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non-heterocyst, fixes nitrogen in the same
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</td>
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cell as photosynthesis by relying on a circadian metabolic process,
 +
when there is less oxygen byproduct from photosynthesis. This process is both fascinating and necessary since the key enzyme in nitrogen fixation, nitrogenase, is poisoned by oxygen. Our goal this
 +
summer is to engineer the regulation of the proteins necessary for
 +
nitrogen fixation so that they are highly repressed when activated by
 +
broad spectrum light (such as the sun), and are highly active when
 +
there is no light around, mimicking the cycle where photosynthesis
 +
occurs during the day and nitrogen fixation occurs at night.<br>
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<h3> How does our project work?</h3>
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<h3> How does our project work? </h3>
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<p> Right now, our plan is to divide and conquer. Ben and Jeffrey are working in Dr. Tae Seok Moon's lab with Cheryl Immethun on the transcription regulation project while Richard and Caroline are working in Dr. Himadri Pakrasi's lab with Dr. Deng Liu, Bert Berla, and Andrew Ng on getting the cyanobacterial <i> nif </i> cluster to function in <i> E. coli </i>. We are looking to study how these nitrogen fixation genes function in a foreign environment and to generate a light-senstive transcription system; our end goal is to unite these two projects to create a system that fixes nitrogen only in the absence of light. </p>
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<td
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style="vertical-align: middle; width: 70%; text-align: justify;">Our
 +
team worked this summer on two projects towards a common purpose. <br>
 +
Richard and Caroline worked in the Pakrasi lab under Dr. Pakrasi, with
 +
Andrew Ng, Bert Berla, and Deng Liu as advisors on the getting nitrogen
 +
fixation working in <span style="font-style: italic;">E. coli.</span> <br>
 +
Benjamin and Jeffrey worked in the Moon lab under Dr. Moon, with Cheryl
 +
Immethun as an advisor, and created a repressor system to turn off
 +
transcription of a reporter protein in the light.<br>
 +
<br>
 +
For more information, please visit our <a
 +
href="https://2014.igem.org/Team:WashU_StLouis/Project">project</a> tab.</td>
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<h3> What did we accomplish? </h3>
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<h3> What have we been up to this summer? </h3>
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<p>There are two key components of our project: <br> Richard and Caroline have been working in the Pakrasi lab, and have been using genes from cyanobacteria to get nitrogen fixation working in <i> E. coli </i>. They are testing nitrogen fixation by running acetylene reduction assays and designing experiments to test the optimal criteria (ie. <i> E. coli </i> strains, temperature, pH, nitrogen source) to get maximum results. Ben and Jeffrey have been working in the Moon lab, and have been busy cloning plasmids to create a system that represses and expresses a fluorescent protein with the presence and absence of light and running experiments to test the induction levels compared to various positive and negative controls. Our next step would be to combine the two "mini" projects into one so that light will regulate the transcription of the nitrogen fixation genes. </p>
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<p style="text-align: justify;">There
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are two key components of our
 +
project:&nbsp;</p>
 +
<p style="text-align: justify;">Richard
 +
and Caroline have been working in the Pakrasi lab, and have
 +
been using genes from cyanobacteria to get nitrogen fixation working in
 +
<i> E. coli </i>. They are testing
 +
nitrogen fixation by
 +
running acetylene reduction assays and designing experiments to test
 +
the optimal criteria (ie. <i> E. coli </i> strains, temperature, pH,
 +
nitrogen source) to get maximum results. For more info, visit the <a
 +
href="https://2014.igem.org/Team:WashU_StLouis/Project/nif">nitrogenase
 +
</a>tab.<br>
 +
</p>
 +
<p style="text-align: justify;">Ben
 +
and Jeffrey have been
 +
working in the Moon lab, and have been busy cloning plasmids to create
 +
a system that represses and expresses a fluorescent protein with the
 +
presence and absence of light and running experiments to test the
 +
induction levels compared to various positive and negative controls.
 +
For more info, visit the <a
 +
href="https://2014.igem.org/Team:WashU_StLouis/Project/light">light
 +
regulation</a> tab.</p>
 +
</td>
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<td
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style="vertical-align: top; width: 20%;"><img style="width: 100%;"
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alt="nitrogenius"
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src="https://static.igem.org/mediawiki/2014/7/70/WashU_nitrogenius_home.jpg"></td>
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<h3> Who will our project help?</h3>
<h3> Who will our project help?</h3>
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<p> Our project is the first step of a much larger, much more complex endeavor. Nitrogen overabundance and nitrogen depletion are simultaneously big stumbling blocks in modern agriculture. The solution to both of these problems would be to endow plants themselves with the ability to fix nitrogen so that they could autonomously supply their own nitrogen for proteins, DNA, etc. We are taking the first step towards this ambitious goal by studying how the genes for nitrogen fixation from cyanobacteria work in different environments and constructing an artificial transcriptional system. We are currently working in <i> E. coli </i> because it is easy to engineer, but the next step would be to move into a cyanobacteria more closely related to chloroplasts. We hope that by making these initial steps that we may be helping to pave the way for future research that may put an end to world hunger.</p>
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style="vertical-align: top; width: 30%; text-align: center;"><img
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style="width: 100%;" alt="the world"
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src="https://static.igem.org/mediawiki/2014/3/35/WashU_TheWorld.jpg">Image
 +
from <a
 +
href="http://blogs-images.forbes.com/actiontrumpseverything/files/2012/05/47311_Papel-de-Parede-Planeta-Terra_1600x12001.jpg">here</a><br>
 +
</td>
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<td
 +
style="vertical-align: top; width: 70%;"> Our project is the first
 +
step
 +
of a much larger, much
 +
more complex endeavor. Nitrogen overabundance and nitrogen depletion
 +
are simultaneously big stumbling blocks in modern agriculture. The
 +
solution to both of these problems would be to endow plants themselves
 +
with the ability to fix nitrogen so that they could autonomously supply
 +
their own nitrogen for proteins, DNA, etc. We are taking the first step
 +
towards this ambitious goal by studying how the genes for nitrogen
 +
fixation from cyanobacteria work in different environments and
 +
constructing an artificial transcriptional system. We are currently
 +
working in <i> E. coli </i> because it is easy to engineer, but the
 +
next step would be to move into a cyanobacteria more closely related to
 +
chloroplasts. We hope that by making these initial steps that we may be
 +
helping to pave the way for future research that may put an end to
 +
world hunger.</td>
 +
</tr>
 +
</tbody>
</table>
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<p style="text-align: left;"><br>
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Important links to keep
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<li><a href="https://2014.igem.org/Team:WashU_StLouis">Home</a> </li>
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<li><a href="https://2014.igem.org/Team:WashU_StLouis/Team">Team</a> </li>
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<li><a href="https://igem.org/Team.cgi?year=2014&team_name=WashU_StLouis">Official Team Profile</a> </li>
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<li><a href="https://2014.igem.org/Team:WashU_StLouis/Project">Project</a> </li>
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<li><a href="https://2014.igem.org/Team:WashU_StLouis/Parts">Parts</a> </li>
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<li><a href="https://2014.igem.org/Team:WashU_StLouis/Modeling">Modeling</a> </li>
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<li><a href="https://2014.igem.org/Team:WashU_StLouis/Notebook">Notebook</a> </li>
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<li><a href="https://2014.igem.org/Team:WashU_StLouis/Safety">Safety</a> </li>
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<li><a href="https://2014.igem.org/Team:WashU_StLouis/Attributions">Attributions</a> </li>
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</ul>
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There are a few wiki requirements teams must follow:
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<li>All pages, images and files must be hosted on the <a href ="https://2014.igem.org/Special:Upload">  2014.igem.org server</a>. </li>
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<li>All pages must be created under the team’s name space.</li>
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<li>As part of your documentation, keep the links from the menu to the left. </li>
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<li>Do not use flash in wiki code. </li>
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<li>The <a href="https://static.igem.org/mediawiki/igem.org/6/60/Igemlogo_300px.png"> iGEM logo </a> should be placed on the upper part of every page and should link to <a href="https://2014.igem.org/Main_Page">2014.igem.org</a>.</li>
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</ul>
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<p>Visit the <a href="https://2014.igem.org/Wiki_How-To"> Wiki How To page </a> for a complete list of requirements, tips and other useful information. </p>
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Latest revision as of 01:08, 13 January 2015



WashU IGEM received a Silver Medal for participating in the Giant Jamboree! Congratulations to everyone involved~

Additionally, we are now recruiting for 2015. Please follow this link for the application!

Engineering E. coli to Fix Nitrogen and Regulating Transcription with Light

Why are we doing this project?

Synthetic biology is an exciting area of research that aims to genetically improve organisms to make them more efficient and hopefully more useful to us as well. The human population in 1950 was 2.5 billion, yet it is predicted to surpass 9 billion by 2050 [1]. Even with population growth slowing, increasing life spans and standards of living will soon tax our natural resources. One of the most concerning is our food supply. The agriculture industry needs a revolution in order to keep up with our expected growth rates. Currently about 80% of chemically fixated nitrogen is used as agricultural fertilizers, the majority in developed lands [1]. Intracellular nitrogen fixation in crops could help to sustain the burgeoning world population, especially in areas with less fertile soil without taxing the planet’s waterways. The exponential increase in nitrogen fertilizer has led to more runoff into rivers and oceans. Fertilizers then provide nutrition for algal blooms that result in hypoxia and form oceanic dead zones. These dead zones lead to the death of marine species and have potentially large economic consequences.

The ramifications of nitrogen fertilizer runoff can be averted by genetically engineering plant crops to fix their own nitrogen. Some cyanobacteria fix nitrogen for nutritional needs, while most organisms can only acquire it from the food it consumes. Synthetic biology allows us to transfer this ability to fix nitrogen to a heterologous host that has many genetic tools, Escherichia coli, so that we can learn how to give single cell organisms, and eventually chloroplasts the ability to create their own nitrogen fertilizer.

Diazotrophic (organisms that fix nitrogen) cyanobacteria such Nostoc Punctiforme or Anabaena use heterocysts (specialized nitrogen fixing cells) to create a mini-anaerobic environment to aid nitrogen fixation. However, Cyanothece 51142, a non-heterocyst, fixes nitrogen in the same cell as photosynthesis by relying on a circadian metabolic process, when there is less oxygen byproduct from photosynthesis. This process is both fascinating and necessary since the key enzyme in nitrogen fixation, nitrogenase, is poisoned by oxygen. Our goal this summer is to engineer the regulation of the proteins necessary for nitrogen fixation so that they are highly repressed when activated by broad spectrum light (such as the sun), and are highly active when there is no light around, mimicking the cycle where photosynthesis occurs during the day and nitrogen fixation occurs at night.

Flag Counter

How does our project work?

WashU project Our team worked this summer on two projects towards a common purpose.
Richard and Caroline worked in the Pakrasi lab under Dr. Pakrasi, with Andrew Ng, Bert Berla, and Deng Liu as advisors on the getting nitrogen fixation working in E. coli.
Benjamin and Jeffrey worked in the Moon lab under Dr. Moon, with Cheryl Immethun as an advisor, and created a repressor system to turn off transcription of a reporter protein in the light.

For more information, please visit our project tab.

What did we accomplish?

There are two key components of our project: 

Richard and Caroline have been working in the Pakrasi lab, and have been using genes from cyanobacteria to get nitrogen fixation working in E. coli . They are testing nitrogen fixation by running acetylene reduction assays and designing experiments to test the optimal criteria (ie. E. coli strains, temperature, pH, nitrogen source) to get maximum results. For more info, visit the nitrogenase tab.

Ben and Jeffrey have been working in the Moon lab, and have been busy cloning plasmids to create a system that represses and expresses a fluorescent protein with the presence and absence of light and running experiments to test the induction levels compared to various positive and negative controls. For more info, visit the light regulation tab.

nitrogenius

Who will our project help?

the worldImage from here
Our project is the first step of a much larger, much more complex endeavor. Nitrogen overabundance and nitrogen depletion are simultaneously big stumbling blocks in modern agriculture. The solution to both of these problems would be to endow plants themselves with the ability to fix nitrogen so that they could autonomously supply their own nitrogen for proteins, DNA, etc. We are taking the first step towards this ambitious goal by studying how the genes for nitrogen fixation from cyanobacteria work in different environments and constructing an artificial transcriptional system. We are currently working in E. coli because it is easy to engineer, but the next step would be to move into a cyanobacteria more closely related to chloroplasts. We hope that by making these initial steps that we may be helping to pave the way for future research that may put an end to world hunger.