Difference between revisions of "Part:BBa K1336006:Experience"
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===Applications of BBa_K1336006===
 
===Applications of BBa_K1336006===
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<br><br>After having studied the viability of <a href="https://parts.igem.org/Part:BBa_K1336003">BBa_K1336003</a>, the next step was to investigate the functionality of the Azo-degradation device <a href="https://parts.igem.org/Part:BBa_K1336007">BBa_K1336007</a>, composed of BsDyP <a href="https://parts.igem.org/Part:BBa_K1336003">BBa_K1336003</a> plus the IPTG-inducble <a href="https://parts.igem.org/Part:BBa_K1336007">BBa_K314103</a> expression cassette, in decolourising several Azo-dye contaminated waste-waters. This was carried out by growing the <a href="https://parts.igem.org/Part:BBa_K1336007">BBa_K1336007</a> containing cells over-night, allowing them to reach stationary phase while already expressing the part, to then inoculate the dyes at the different concentrations. The differences in absorbance between plasmid-containing samples and plasmid-free was measured by OD at the corresponding maximum absorptions for each dye. The full protocol can be found <a href="http://2014.igem.org/Team:UCL/Science/Proto">here</a>.
 
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The first 24 hours of incubation at 37ºC shaking showed subtle decolourisation. This is represented in the graphs below. RB5 at its highest concentration (0.5 mg/mL) seems to present the most significant drop in absorbance 6 hours of inoculation of the dyes. The decolourisation obtained is not as high as expected, possibly due to non ideal temperature for the activity of this particular enzyme.
 
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    <img src="https://static.igem.org/mediawiki/2014/5/55/UCL2014-Figure_3a_DegradationFINAL.PNG" width="49%">
 
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    <img src="https://static.igem.org/mediawiki/2014/7/7b/UCL2014-Figure_3b_DegradationFINAL.PNG" width="49%">
 
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<b>Figure 1a - <a href="https://parts.igem.org/Part:BBa_K1336007">BBa_K1336007</a> LEC+BsDyP Azo-degradation device shows indicative effectiveness on Reactive Black 5 after 24 hours of shaking incubation. </b> Graph showing the indicative decolourisation activity of <em>E. coli</em> DH5Gα transformed with BBa_K1336007 on RB5, <br>at three different concentrations in LB media. Cells were incubated for 24 hours at 37 ºC and shaking at 250rpm. Please note that OD measurements are considerably higher in dye-contaminated waters due to the absorbance of the azo-dye. OD measured at 600nm and Time is shown in hours after incubation. Error bars indicate SEM, n=2.
 
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<b>Figure 1b - <a href="https://parts.igem.org/Part:BBa_K1336007">BBa_K1336007</a> LEC+BsDyP Azo-degradation device shows indicative effectiveness on Acid Orange 7 after 24 hours of shaking incubation. </b> Graph showing the indicative decolourisation activity of <em>E. coli</em> DH5Gα transformed with BBa_K1336007 on AO7, at three different concentrations in LB media. Cells were incubated for 24 hours at 37 ºC and shaking at 250rpm. Please note that OD measurements are considerably higher in dye-contaminated waters due to the absorbance of the azo-dye. OD measured at 480nm and Time is shown in hours after incubation. Error bars indicate SEM, n=2.<br><br><br>
 
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The second step of the decolourisation assay, however, showed a much more dramatic decolourising effect after 30 hours. After centrifugation, it could be observed that the supernatant for the AO7 (0.0155 mg/mL) with cells that contained the plasmid had a less intense colour than the plasmid-free control, where no degradation was expected.
 
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<img src="https://static.igem.org/mediawiki/2014/c/c7/UCL2014-AO7_Decolourisation.JPG" "width="600" height="350">
 
  
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<br><b>Figure 2 - <a href="https://parts.igem.org/Part:BBa_K1336007">BBa_K1336007</a> Decolourisation of 0.0155 mg/mL Acid Orange 7 by <a href="https://parts.igem.org/Part:BBa_K1336007">BBa_K1336007</a> after 30 hours stationary at room temperature.</b> Samples were centrifuged in order to measure the OD values of the supernatants. On the right, the supernatant of the plasmid-free cells. On the left, the supernatant of the sample with <a href="https://parts.igem.org/Part:BBa_K1336007">BBa_K1336007</a>-containing cells, showing a less intense colour than the control. Picture taken after 24 hours of incubation at 37 ºC and 250rpm plus 30 hours stationary at room temperature.
 
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This decolourisation was confirmed by spectrophotometric analysis of the samples, as shown in the figures below.
 
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    <img src="https://static.igem.org/mediawiki/2014/d/dc/UCL2014-Figure_5a_Degradation.PNG" width="49%" >
 
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<b>Figure 3a - <a href="https://parts.igem.org/Part:BBa_K1336007">BBa_K1336007</a> BsDyP Azo-degradation module is capable of degrading Acid Orange 7 (AO7) dye-contaminated waste waters at room temperature. </b> Graph shows that <br>in comparison to the plasmid free control, E.coli transformed with the BBa_K1336007 BsDyP Azo-degradation device is able to decolourise AO7 (0.155 mg/mL) dye contaminated LB <br>media after being induced by 1mM IPTG. Inoculations were grown at 37 degrees and 250rpm for 24 hours and then left stationary for a further 30 hours at room temperature. The <br>samples were centrifuged, and OD480nm measurements were taken of the supernatant at the end of the 54 hour experiment. Error bars indicate SEM, n=2.
 
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<b>Figure 3b - <a href="https://parts.igem.org/Part:BBa_K1336007">BBa_K1336007</a> BsDyP Azo-degradation module is capable of degrading Reactive Black 5 (RB5) dye-contaminated waste waters. </b> Graph showing that in comparison to the plasmid free control, E.coli transformed with the BBa_K1336007 BsDyP Azo-degradation device is able to decolourise RB5 (0.5 mg/mL) dye-contaminated LB media after being induced by 1mM IPTG. Inoculations were grown at 37 degrees and 250rpm for 24 hours and then left stationary for a further 30 hours at room temperature. The samples were centrifuged, and OD600nm measurements were taken of the supernatant at <br>the end of the 54 hour experiment. Error bars indicate SEM, n=2.
 
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These assays show the effectiveness of the <a href="https://parts.igem.org/Part:BBa_K1336007">BBa_K1336007</a> degradation device in decolourisation of the two tested dyes at the indicated conditions. It remains unclear why most of the decolourisation took place in the second part of the assay; a possible explanation fot this is that the temperature post-incubation was more optimal for BsDyP function.
 
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The conclusion drawn for the decolourisation experiments is that it would be possible to integrate the dye-decolourising device <a href="https://parts.igem.org/Part:BBa_K1336007">BBa_K1336007</a>  in a bioprocessing context aimed towards the biological degradation of azo-dye contaminated waters, as it seems to be effective in partially degrading sulphonate azo-dyes Reactive Black 5 and Acid Orange 7.
 
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===User Reviews===
 
===User Reviews===
 
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Revision as of 17:32, 18 October 2014

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Applications of BBa_K1336006

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