Team:Calgary/Project

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</html>[[Image:UofC2011_Whitbey.png|thumb|600px|center|<b>Figure 1.</b> Structure of Naphthenic Acids as discussed in Whitby, C. <i>et al.</i> 2010.]]<html>
</html>[[Image:UofC2011_Whitbey.png|thumb|600px|center|<b>Figure 1.</b> Structure of Naphthenic Acids as discussed in Whitby, C. <i>et al.</i> 2010.]]<html>
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<p>Naphthenic Acids (NAs) are a group of recalcitrant, hydrophobic, compounds which may contain a variety of structures. All naphthenic acids contain a conserved carboxylic acid group followed by a hydrocarbon chain. Attached to this hydrophobic chain can be between one and four hydrogenated ring systems. The classification of what defines a naphthenic acid has been of great debate in the scientific community; their diversity has contributed to difficulties targeting them for biodegradation. NAs are natively found in oil sands deposits and their surfactant quality aids in a higher efficiency of oil sands recovery in the hot water extraction process. The majority of NAs end up in large tailings ponds with a variety of other toxic by-products of bitumen extraction. The NAs continuously accumulate in these large tailings ponds and are allowed to settle to the bottom of these pools.</p>
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<p>Naphthenic Acids (NAs) are a group of recalcitrant and hydrophobic compounds comprising a variety of structures. All NAs contain a conserved carboxylic acid group followed by a hydrocarbon chain. Attached to this hydrophobic chain there may be between one and four hydrogenated ring systems. NA classification criteria are continually debated in the scientific community. With such diversity within this chemical class, the biodegradation of NAs is difficult to define due to the likelihood of biodegradation pathways interacting with very specific topological structures. Thus one pathway likely does not degrade all NAs, and NA research has yet to define any NA degrading pathways (Whitby, 2010).</p>  
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</html>[[Image:UofC_TailingPond.png|thumb|600px|center|<b>Figure 2.</b> Courtesy of Pembina, a picture of a tailings pond]]<html>
</html>[[Image:UofC_TailingPond.png|thumb|600px|center|<b>Figure 2.</b> Courtesy of Pembina, a picture of a tailings pond]]<html>
<h2>Bitumen Extraction Process</h2>
<h2>Bitumen Extraction Process</h2>
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<p>NAs naturally occur in all petroleum deposits and their surfactant quality is actually useful for higher efficiency of oil sands recovery in the hot water extraction process. Post processing, the majority of NAs from the tar sands separate into the waste water aqueous fraction and are then collected in large tailings ponds along with a variety of other toxic by-products of bitumen extraction. The NAs continuously accumulate in these large tailings ponds and are allowed to settle to the bottom of these pools.</p>
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<p>Naphthenic acids are found naturally in the bitumen that is extracted from the ground, but is not one of the desired products in refined petroleum. During the refining process, excess hot water and chemical agents such as NaOH are added to aid in the separation of contaminants such as naphthenic acids from the desired hydrocarbons. These contaminants are then stored in the tailings ponds that are shown above.</p>
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</html>[[Image:UofC_Extraction.png|thumb|600px|center|<b>Figure 3.</b>The extraction process from bitumen to oil, showing where waste like naphthenic acids is extracted]]<html>
</html>[[Image:UofC_Extraction.png|thumb|600px|center|<b>Figure 3.</b>The extraction process from bitumen to oil, showing where waste like naphthenic acids is extracted]]<html>
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<h2>The Toxicity of Naphthenic Acids</h2>
<h2>The Toxicity of Naphthenic Acids</h2>
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<p>One of the major industry concerns with NAs is their contribution to corrosion in equipment and pipelines. In addition, their surfactant nature also makes them toxic in mammalian systems allowing them to pass through and potentially disrupt cell membranes. NAs with a higher molecular weight are typically less toxic than those with a lower molecular weight.  These lower molecular weight compounds have been shown to have LC<sub>50</sub> values of less than 50 mg/L in freshwater systems.  The higher the concentration of the NAs in the environment the greater the potential harm to the local ecosystem, in particular, their contamination of biological communities surrounding the tailings ponds.</p>  
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<p>One of the major industry concerns with NAs is their contribution to corrosion of equipment and pipelines. In addition, their surfactant nature also makes them toxic in mammalian systems allowing them to pass through and potentially disrupt cell membranes. NAs with a higher molecular weight are typically less toxic than those with a lower molecular weight, however, the lower molecular weight compounds still have significant toxicity with LC<sub>50</sub> values of less than 50 mg/L in freshwater systems.  The higher the concentration of NAs in the environment the greater the potential harm to the local ecosystem (Dokhoyan and Magomedov, 1984).</p>  
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</html>[[Image:UCalgary2011_LC50_values_for_fish_and_stuff.png|thumb|600px|center|<b>Figure 4.</b> LC50 values for Adult kutum, sturgeon, and roach when exposed to Napthenic Acids. Adapted from Dokholyan VK., Magomedov AK. (1983). ]]<html>
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</html>[[Image:UCalgary2011_LC50_values_for_fish_and_stuff.png|thumb|600px|center|<b>Figure 4.</b> LC<sub>50</sub> values for Adult kutum, sturgeon, and roach when exposed to Napthenic Acids. Adapted from Dokholyan VK., Magomedov AK. (1983). ]]<html>
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<h2>Monitoring Naphthenic Acids</h2>
<h2>Monitoring Naphthenic Acids</h2>
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<p>Having the ability to monitor the levels of NAs is mandated by Canadian law and would be useful in assessing whether or not any future detoxification or remediation efforts are effective. Other applications including examining the surrounding areas for seepage of NAs into ground water, and determining the extent of damage caused by oil based chemical spills. Currently, the only ways to test for the presence of NAs are mass spectrometry and gas chromatography. These methods are costly, require the experience of a trained technician, must be shipped to a facility to be processed, and takes up to several hours per analysis. The University of Calgary’s iGEM team is working on developing a novel electrochemical biosensor which would allow for cheap, quick, and convenient on site monitoring of NAs. The bacteria used to sense the naphthenic acids would be contained inside a device, and respond specifically to these compounds.  Their response would signal a change in electrochemical potential in the solution which could be used as a read-out for our device in a quantitative manner.</p>
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<p>Having the ability to monitor the levels of NAs is mandated by Canadian law and would be useful in assessing whether or not any future detoxification or remediation efforts are effective. Other applications include examining the surrounding areas for seepage of NAs into ground water, and determining the extent of damage caused by oil based chemical spills. Currently, the main way to test for the presence of NAs is through gas chromatography-mass spectrometry. This method is costly, requires the experience of a trained technician, takes up to several hours per sample, and the samples must be shipped to a facility with the proper equipment for analysis. The University of Calgary’s iGEM team is working on developing a novel electrochemical biosensor which would allow for cheap, quick, and convenient on site monitoring of NAs. The bacteria used to sense the naphthenic acids would be contained inside a device, and respond specifically to these compounds.  Their response would signal a change in electrochemical potential in the solution that could be used as a read-out for our device in a quantitative manner.</p>
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</html>[[Image:TeamCalgary2011 The Vision Image 2.png|thumb|600px|center|<b>Figure 5.</b> The Vision of our project.  The University of Calgary team imagined a device which could allow for on-site testing of water samples for naphthenic acids.  Solutions would be placed into the device, where a bacteria would recognize the concentration of naphthenic acids in solution and generate a response.  This can be detected by the device and a quantitative interpretation of the data would be viewable by the user.]]<html>
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</html>[[Image:TeamCalgary2011 The Vision Image 2.png|thumb|600px|center|<b>Figure 5.</b> The Vision of our project.  The University of Calgary team imagined a device which could allow for on-site testing of water samples for naphthenic acids.  Solutions would be placed into the device, where bacteria would recognize the concentration of naphthenic acids in solution and generate a response.  This can be detected by the device and a quantitative interpretation of the data would be viewable by the user.]]<html>
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<h2>Engineering the Biosensor</h2>
<h2>Engineering the Biosensor</h2>

Latest revision as of 04:31, 29 September 2011


A Biosensor for Naphthenic Acids

Naphthenic Acids in the Oil Sands

Figure 1. Structure of Naphthenic Acids as discussed in Whitby, C. et al. 2010.

Naphthenic Acids (NAs) are a group of recalcitrant and hydrophobic compounds comprising a variety of structures. All NAs contain a conserved carboxylic acid group followed by a hydrocarbon chain. Attached to this hydrophobic chain there may be between one and four hydrogenated ring systems. NA classification criteria are continually debated in the scientific community. With such diversity within this chemical class, the biodegradation of NAs is difficult to define due to the likelihood of biodegradation pathways interacting with very specific topological structures. Thus one pathway likely does not degrade all NAs, and NA research has yet to define any NA degrading pathways (Whitby, 2010).

Figure 2. Courtesy of Pembina, a picture of a tailings pond

Bitumen Extraction Process

NAs naturally occur in all petroleum deposits and their surfactant quality is actually useful for higher efficiency of oil sands recovery in the hot water extraction process. Post processing, the majority of NAs from the tar sands separate into the waste water aqueous fraction and are then collected in large tailings ponds along with a variety of other toxic by-products of bitumen extraction. The NAs continuously accumulate in these large tailings ponds and are allowed to settle to the bottom of these pools.

Figure 3.The extraction process from bitumen to oil, showing where waste like naphthenic acids is extracted

The Toxicity of Naphthenic Acids

One of the major industry concerns with NAs is their contribution to corrosion of equipment and pipelines. In addition, their surfactant nature also makes them toxic in mammalian systems allowing them to pass through and potentially disrupt cell membranes. NAs with a higher molecular weight are typically less toxic than those with a lower molecular weight, however, the lower molecular weight compounds still have significant toxicity with LC50 values of less than 50 mg/L in freshwater systems. The higher the concentration of NAs in the environment the greater the potential harm to the local ecosystem (Dokhoyan and Magomedov, 1984).


Figure 4. LC50 values for Adult kutum, sturgeon, and roach when exposed to Napthenic Acids. Adapted from Dokholyan VK., Magomedov AK. (1983).


Monitoring Naphthenic Acids

Having the ability to monitor the levels of NAs is mandated by Canadian law and would be useful in assessing whether or not any future detoxification or remediation efforts are effective. Other applications include examining the surrounding areas for seepage of NAs into ground water, and determining the extent of damage caused by oil based chemical spills. Currently, the main way to test for the presence of NAs is through gas chromatography-mass spectrometry. This method is costly, requires the experience of a trained technician, takes up to several hours per sample, and the samples must be shipped to a facility with the proper equipment for analysis. The University of Calgary’s iGEM team is working on developing a novel electrochemical biosensor which would allow for cheap, quick, and convenient on site monitoring of NAs. The bacteria used to sense the naphthenic acids would be contained inside a device, and respond specifically to these compounds. Their response would signal a change in electrochemical potential in the solution that could be used as a read-out for our device in a quantitative manner.

Figure 5. The Vision of our project. The University of Calgary team imagined a device which could allow for on-site testing of water samples for naphthenic acids. Solutions would be placed into the device, where bacteria would recognize the concentration of naphthenic acids in solution and generate a response. This can be detected by the device and a quantitative interpretation of the data would be viewable by the user.

Engineering the Biosensor

Engineering the biosensor involved three main components: finding an appropriate sensory element, characterizing a novel reporter and selecting and designing tools for an appropriate chassis for our system. Information on the sensory element can be found on our Promoter Project page. More details on our reporter can be found on the Reporter Project page. More details on our chassis can be found on our Chassis Project page.

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