Team:Lethbridge

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The tailings ponds that result from the extraction of oil from the oil sands have used up vast amounts of fresh water and contain substantial quantities of useable organic matter. While most of the oil is extracted from the oil sands, some is left behind and added to the tailing pond waters. The left over hydrocarbon compounds, bitumen, can be extracted from the ponds and potentially used to create another source of fuel, thus cleaning the tailing ponds and creating a profit. <br>
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We wish to develop and characterize a BioBrick, that can breakdown some of the more prominent toxic organic compounds found in the tailing ponds to a more useable form. Currently we are targeting catechol, a compound that has shown to be degraded by bacteria living in the tailings ponds1. Catechol is being converted into 2-hydroxymuconic semialdehyde, which we later hope to further convert into a useful hydrocarbon compound. <br>
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Additionally, we plan to target our catechol degrading enzyme into a microcompartment which the University of Lethbridge team has been working on since last year. By compartmentalizing the converted catechol, were trying to develop a way of easily removing the useful hydrocarbon product from the tailings ponds. As a proof of principle we will target the catechol degradation enzyme into the negatively charged microcompartment by the use of a poly-arginine tag. Furthermore, to avoid adding a new species into the oil sands environment we plan on using the DNA digestion part created by Berkley in 2007 to render our Escherichia coli cells unable to reproduce or able to horizontally transfer its genes. <br>
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=<font color="white">Project Description=
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For our bacteria to target areas of high catachol concentration we plan to use chemotaxis. Chemotaxis is a way in which bacteria migrate towards food, poisons, or in this case catechol. This will help decrease the time it will take to degrade catechol in the tailing ponds. <br>
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Finally, we will be continuing to explore the novel method of the mass production of uniform iron nanoparticles, which is more efficient and cost effective than current methods. To optimize the production of nanoparticles we are attaching signal peptide sequences to export the protein to different areas of the cell. By attaching these signal peptides and having the protein directed to certain areas of the cell we hope to find which area is most productive to produce nanoparticles.<br>
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The tailings ponds that result from the extraction of heavy crude oil and bitumen (used to make synthetic crude oil) from the oil sands have used up vast amounts of fresh water and contain substantial quantities of useable organic matter. While most of the bitumen is extracted from the oil sands, some is left behind and added to the tailings ponds. The residual hydrocarbon compounds can be potentially extracted from the ponds and utilized as another source of fuel. Consequently, cleaning the tailings ponds and increasing efficiency of extraction from the oil sands.
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<br>
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References
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We wish to develop and characterize a BioBrick, that can breakdown some of the more prominent toxic organic compounds found in the tailing ponds to a more useable form. We are currently targeting catechol, a aromatic compound shown to be degraded by bacteria living in the tailings ponds (Kato <i>et al.</i>, 2001). Catechol is being converted into 2-hydroxymuconic semialdehyde, which we later hope to further convert into a useful hydrocarbon compound.  
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Kato, T., Haruki, M., Imanaka, T., Morikawa, M., and Kanaya, S. (2001). Isolation and characterization of psychrotrophic bacteria from oil-reservoir and oil sands. Applied Microbial Biotechnology. 55, 794-800.
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Additionally, we plan to target our <html><a href="https://2010.igem.org/Team:Lethbridge/Project/Catechol_Degradation"><font color="#00DC00">catechol degrading enzyme</font></a></html> into a <html><a href="https://2010.igem.org/Team:Lethbridge/Project/Compartamentalization"><font color="#00DC00"> microcompartment</font></a></html> which the <html><a href="https://2009.igem.org/Team:Lethbridge" target="new"><font color="#00DC00"> Lethbridge 2009</font></a></html> team began the work on.  By compartmentalizing the converted catechol, were trying to develop a way of easily removing the useful hydrocarbon product from the tailings ponds.  As a proof of principle, we will target the catechol degradation enzyme into the negatively charged microcompartment by the use of a poly-arginine tag.  Furthermore, to avoid adding a new species into the oil sands environment we plan on using the <html><a href="https://2010.igem.org/Team:Lethbridge/Project/DNA_Degradation"><font color="#00DC00"> DNA digestion part</font></a></html> created by <html><a href="https://2007.igem.org/Berkeley_UC" target="new"><font color="#00DC00"> Berkley in 2007</font></a></html> to render our <i>Escherichia coli </i>cells unable to reproduce or able to horizontally transfer its genes.
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Finally, we will be continuing to explore the novel method of the mass production of <html><a href="https://2010.igem.org/Team:Lethbridge/Project/Magnetic_Nanoparticles"><font color="#00DC00"> uniform iron nanoparticles</font></a></html>, which is more efficient and cost effective than current methods (Prozorov <i>et al.</i>, 2007).  To optimize the production of nanoparticles we are attaching signal peptide sequences to export the protein to different areas of the cell.  By attaching these signal peptides and having the protein directed to certain areas of the cell we hope to find which area is most productive to produce nanoparticles.
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=<font color="white">University of Lethbridge 2010 Team=
 
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Excited for the upcoming 2010 iGEM season, the University of Lethbridge 2010 Team consists of ten undergraduate students, five graduate student advisors and one faculty member. We have high hopes for the upcoming season, having received financial or gift in kind support from the groups listed below. If you are interested in helping our team reach our goals, contact us at uleth.igem@gmail.com.
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Reference:<br>
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Kato, T., Haruki, M., Imanaka, T., Morikawa, M., and Kanaya, S. (2001). Isolation and characterization of psychrotrophic bacteria from oil-reservoir and oil sands. <i>Applied Microbial Biotechnology.</i> 55, 794-800.
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Prozorov, T., Mallapragada, S. K., Narasimhan, B., Wang, L., Palo, P., Nilsen-Hamilton, M., Williams, T. J., Bazylinski, D. A., Prozorov, R., and Canfield, P. C. (2007). Protein-mediated synthesis of uniform superparamagnetic magnetite nanocrystals. Adv. Funct. Mater. Advanced Functional Materials. 17, 951-957
=<font color="white">Sponsors=
=<font color="white">Sponsors=
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===<font color="white">Alberta Innovates Technology Futures===
===<font color="white">Alberta Innovates Technology Futures===
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===<font color="white">Oil Sands Initiative===
===<font color="white">Oil Sands Initiative===
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==<font color="white">Gold==
==<font color="white">Gold==
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===<font color="white">Autodesk===
===<font color="white">Autodesk===
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===<font color="white">MathWorks===
===<font color="white">MathWorks===
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===<font color="white">Geneious===
===<font color="white">Geneious===
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===<font color="white">Integrated DNA Technologies===
===<font color="white">Integrated DNA Technologies===
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===<font color="white">GeneArt & Mr. Gene===
===<font color="white">GeneArt & Mr. Gene===
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===<font color="white">Macrogen===
===<font color="white">Macrogen===
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c) Tangible donations of lab supplies or other necessary materials.
c) Tangible donations of lab supplies or other necessary materials.
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===Donations can be made in two ways:===
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===<font color="white">Donations can be made in two ways:===
1. Donations can be directed towards the U of L iGEM Scholarship account.
1. Donations can be directed towards the U of L iGEM Scholarship account.
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===<font color="white">Sponsorship Levels===
===<font color="white">Sponsorship Levels===
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Platinum - $5000+ or gift in kind
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Platinum - $5000+ or gift in kind <br>
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Logo on front of team shirts, large logo on scientific poster, large logo on team wiki and verbal recognition during team project presentations/media interviews.
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Logo on team shirts, large logo on scientific poster, large logo on team wiki and verbal recognition during team project presentations/media interviews.
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Gold - $2000-$4999 or gift in kind
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Gold - $2000-$4999 or gift in kind<br>
Logo on team shirts, medium logo on scientific poster, medium logo on team wiki and written recognition at end of team project presentations.
Logo on team shirts, medium logo on scientific poster, medium logo on team wiki and written recognition at end of team project presentations.
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Silver - $1000-$1999 or gift in kind
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Silver - $1000-$1999 or gift in kind<br>
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Medium logo on scientific poster, medium logo on team wiki and written recognition at end of team project presentations.
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Medium logo on team shirts, scientific poster, medium logo on team wiki and written recognition at end of team project presentations.
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Bronze - <$999 or gift in kind
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Small logo on scientific poster, small logo on team wiki and written recognition at end of team project presentations.
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Bronze - <$999 or gift in kind<br>
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Small logo on team shirts, scientific poster, small logo on team wiki and written recognition at end of team project presentations.
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Latest revision as of 15:20, 27 October 2010



Check out these important project links!

Contents

Project Description

The tailings ponds that result from the extraction of heavy crude oil and bitumen (used to make synthetic crude oil) from the oil sands have used up vast amounts of fresh water and contain substantial quantities of useable organic matter. While most of the bitumen is extracted from the oil sands, some is left behind and added to the tailings ponds. The residual hydrocarbon compounds can be potentially extracted from the ponds and utilized as another source of fuel. Consequently, cleaning the tailings ponds and increasing efficiency of extraction from the oil sands.

We wish to develop and characterize a BioBrick, that can breakdown some of the more prominent toxic organic compounds found in the tailing ponds to a more useable form. We are currently targeting catechol, a aromatic compound shown to be degraded by bacteria living in the tailings ponds (Kato et al., 2001). Catechol is being converted into 2-hydroxymuconic semialdehyde, which we later hope to further convert into a useful hydrocarbon compound.

Additionally, we plan to target our catechol degrading enzyme into a microcompartment which the Lethbridge 2009 team began the work on. By compartmentalizing the converted catechol, were trying to develop a way of easily removing the useful hydrocarbon product from the tailings ponds. As a proof of principle, we will target the catechol degradation enzyme into the negatively charged microcompartment by the use of a poly-arginine tag. Furthermore, to avoid adding a new species into the oil sands environment we plan on using the DNA digestion part created by Berkley in 2007 to render our Escherichia coli cells unable to reproduce or able to horizontally transfer its genes.

Finally, we will be continuing to explore the novel method of the mass production of uniform iron nanoparticles, which is more efficient and cost effective than current methods (Prozorov et al., 2007). To optimize the production of nanoparticles we are attaching signal peptide sequences to export the protein to different areas of the cell. By attaching these signal peptides and having the protein directed to certain areas of the cell we hope to find which area is most productive to produce nanoparticles.


Reference:
Kato, T., Haruki, M., Imanaka, T., Morikawa, M., and Kanaya, S. (2001). Isolation and characterization of psychrotrophic bacteria from oil-reservoir and oil sands. Applied Microbial Biotechnology. 55, 794-800.
Prozorov, T., Mallapragada, S. K., Narasimhan, B., Wang, L., Palo, P., Nilsen-Hamilton, M., Williams, T. J., Bazylinski, D. A., Prozorov, R., and Canfield, P. C. (2007). Protein-mediated synthesis of uniform superparamagnetic magnetite nanocrystals. Adv. Funct. Mater. Advanced Functional Materials. 17, 951-957

Sponsors

Platinum

Alberta Innovates Technology Futures

Oil Sands Initiative

https://2010.igem.org/Oil_Sands

Gold

Autodesk


Silver

MathWorks


Geneious


Bronze

Integrated DNA Technologies


GeneArt & Mr. Gene


Macrogen

Sponsorship Breakdown

The University of Lethbridge iGEM Team requests your support in the following ways:

a) $2000 scholarship of one team member – It is our hope that every team member will be able to travel to the iGEM competition taking place in November 2010. However, without enough funding, this will not be the situation. By sponsoring one student at a time, we can work towards reaching our goal of the entire U of L team traveling to MIT and provide every student with the possibility to meet and talk to some of the brightest and inspiring minds of synthetic biology.

b) Monetary donation towards lab supplies, travel arrangements and iGEM competition registration fees.

c) Tangible donations of lab supplies or other necessary materials.

Donations can be made in two ways:

1. Donations can be directed towards the U of L iGEM Scholarship account.

2. Donations can be directed towards the U of L iGEM General account and in recognition of your generous support, the U of L iGEM team would like to recognize you and/or your business as outlined in the sponsorship levels.

Sponsorship Levels

Platinum - $5000+ or gift in kind
Logo on team shirts, large logo on scientific poster, large logo on team wiki and verbal recognition during team project presentations/media interviews.

Gold - $2000-$4999 or gift in kind
Logo on team shirts, medium logo on scientific poster, medium logo on team wiki and written recognition at end of team project presentations.

Silver - $1000-$1999 or gift in kind
Medium logo on team shirts, scientific poster, medium logo on team wiki and written recognition at end of team project presentations.

Bronze - <$999 or gift in kind
Small logo on team shirts, scientific poster, small logo on team wiki and written recognition at end of team project presentations.


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