Team:AUC TURKEY/Results/Functional Essay

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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
  <w:LsdException Locked="false" Priority="73" Name="Colorful Grid Accent 3"/>
 
-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
  <w:LsdException Locked="false" Priority="73" Name="Colorful Grid Accent 6"/>
 
-
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-
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-
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-
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-
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-
  <w:LsdException Locked="false" Priority="46" Name="List Table 1 Light"/>
 
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-
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-
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-
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-
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-
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-
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-
  Name="List Table 1 Light Accent 1"/>
 
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-
  <w:LsdException Locked="false" Priority="50" Name="List Table 5 Dark Accent 1"/>
 
-
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-
  Name="List Table 6 Colorful Accent 1"/>
 
-
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-
  Name="List Table 7 Colorful Accent 1"/>
 
-
  <w:LsdException Locked="false" Priority="46"
 
-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
 
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<body lang=TR style='tab-interval:35.4pt'>
 
-
 
-
<div class=WordSection1>
 
-
 
-
<p class=MsoNormal><b><u><span lang=EN-US style='color:red;mso-ansi-language:
 
-
EN-US'>Spectrophotometric Absorption Measurements: </span></u></b><span
 
-
lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;We used </span><b>Thermo Sc</b><b><span
 
-
lang=EN-US style='mso-ansi-language:EN-US'>ientific Varioskan Flash Multimode
 
-
Reader for our absorption measurements.</span></b></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>1)
 
-
Measurements of Dyes:</span></p>
 
-
 
-
<p class=MsoNormal><span style='mso-no-proof:yes'><img width=604 height=440
 
-
id="_x0000_i1031" src="https://static.igem.org/mediawiki/2014hs/8/88/Fimage001.jpg"
 
-
alt="https://static.igem.org/mediawiki/2014hs/8/88/Fimage001.jpg"></span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>Graphic 1:
 
-
This graphic shows our absorption rate of our dye (Methylene Blue) in different
 
-
concentrations. ( 1X=8 uM, 10X=80uM, 100X=800uM, 1000X=uM) </span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>In the
 
-
Graphic 1, we have got the correct absorption rates for every concentration of
 
-
Methylene Blue dyes that correlates with the same results in the literature.</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>2)
 
-
Preparations of Lysates : <o:p></o:p></span></p>
 
-
 
-
<p class=MsoNormal><span style='font-size:11.5pt;line-height:115%;font-family:
 
-
"Arial","sans-serif";color:black'>The verified plasmids were then cultivated in
 
-
liquid culture for isolation. The 50 mL’s of bacteria containing the parts
 
-
BBa_K1291071 and BBa_K1291299 were centrifuged at 4100 rpm for 5 minutes, the
 
-
supernatant was discarded and then lysis solution was added. After 10 minutes
 
-
of incubation in ice, the lysates were sonicated in the minimum activity level.
 
-
After a spin of 15000 rpm for 10 minutes, the supernatant was transferred to
 
-
eppendorphs and dye was added; the solution was boiled at 95</span></span><span
 
-
style='font-size:11.5pt;line-height:115%;font-family:"Arial","sans-serif";
 
-
color:#545454; '><span style='orphans: auto;text-align:start;
 
-
widows: auto;-webkit-text-stroke-width: 0px;white-space:pre-wrap;word-spacing:
 
-
0px'> °C for 5 minutes. The lysate were stored at -20 °C.</span></span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>3)
 
-
Decolorization Assay:</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>In this
 
-
assay we mixed our liquid cell culture and also our lysates with dyes. All the
 
-
concentrations of the solutions are adjusted according to the literature. We
 
-
measured the first absorptions of the samples and compared it with the 2<sup>nd</sup>
 
-
measurement in the end of 1<sup>st</sup> hour.</span></p>
 
-
 
-
<p class=MsoNormal><span style='mso-no-proof:yes'><img width=604 height=300
 
-
id="_x0000_i1030" src="https://static.igem.org/mediawiki/2014hs/f/fb/Fimage002.jpg"
 
-
alt="https://static.igem.org/mediawiki/2014hs/f/fb/Fimage002.jpg"></span>&nbsp;</p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>Graphic 2:
 
-
This graphic shows our absorption rate of our mixed sample that includes
 
-
Lysates of our BL-21 Bacteria that have LiP gene and&nbsp; Methylene Blue
 
-
(80uM) dyes and for the activate the LiP we also added Hydrogen Peroxide
 
-
(800uM) measured in the 1 hour.</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>The result
 
-
of Graphic-2 is that our Lysates of BL-21 Bacteria that have LiP gene degraded
 
-
the Methylene Blue (80uM) dye with approximately %83,3 efficiency.</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span style='mso-no-proof:yes'><img width=605 height=516
 
-
id="_x0000_i1029" src="https://static.igem.org/mediawiki/2014hs/7/7d/Fimage003.jpg"
 
-
alt="https://static.igem.org/mediawiki/2014hs/7/7d/Fimage003.jpg"></span><span
 
-
lang=EN-US style='mso-ansi-language:EN-US'>Graphic 3: This graphic shows our
 
-
absorption rate of our mixed samples that includes Lysates of our BL-21
 
-
Bacteria that have HRP gene and other Bacteria that have LiP gene and Methyl
 
-
Green (150uM) dyes and for the activate the HRP and LiP we also added Hydrogen
 
-
Peroxide (8.8 uM-HRP), (0,176 uM-LiP) concentrations that measured in the
 
-
different time periods. </span></p>
 
-
 
-
<p class=MsoNormal><u><span lang=EN-US style='color:red;mso-ansi-language:EN-US'>The
 
-
result of Graphic-3 is that our Lysates of BL-21 Bacteria that have HRP gene
 
-
and other Bacteria that have LiP gene degraded the Methyl Green (8.8 uM) dye
 
-
with approximately %71,4 efficiency in the end of the 7 hours.</span></u></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span style='mso-no-proof:yes'><img width=475 height=304
 
-
id="_x0000_i1028" src="https://static.igem.org/mediawiki/2014hs/e/ed/Fimage004.png"
 
-
alt="https://static.igem.org/mediawiki/2014hs/e/ed/Fimage004.png"></span><span
 
-
lang=EN-US style='mso-ansi-language:EN-US'>.</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>Graphic 4:
 
-
This graphic shows our absorption rate of our mixed samples that includes
 
-
Lysates of our BL-21 Bacteria that have HRP gene and other Bacteria that have
 
-
LiP gene and Methyl Green (150uM) dyes and for the activate the HRP and LiP we
 
-
also added Hydrogen Peroxide (8.8 uM-HRP), (0,176 uM-LiP) concentrations that
 
-
measured in the beginning of the experiment and in the 1<sup>st</sup> hour. </span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>The result
 
-
of Graphic-4 is that our Lysates of BL-21 Bacteria that have HRP gene and other
 
-
Bacteria that have LiP gene degraded the Methyl Green (8.8 uM) dye with
 
-
approximately %71,4 efficiency. <u><span style='color:red'>Also in this graphic
 
-
the most important point that our control group BL-21 bacteria that don’t
 
-
include our genes of enzymes(HRP or LiP) couldn’t degrade the Methyl Green (8.8
 
-
uM) dye.</span></u></span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span style='mso-no-proof:yes'><img width=610 height=320
 
-
id="_x0000_i1027" src="https://static.igem.org/mediawiki/2014hs/a/a9/Fimage005.jpg"
 
-
alt="https://static.igem.org/mediawiki/2014hs/a/a9/Fimage005.jpg"></span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>Graphic 5:
 
-
This graphic shows our absorption rate of our mixed sample that includes liquid
 
-
culture &nbsp;of our BL-21 Bacteria that have LiP gene and&nbsp; Methylene Blue
 
-
(80uM) dyes and for the activate the LiP we also added Hydrogen Peroxide
 
-
(800uM) measured in the 1 hour.</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>The result
 
-
of Graphic-5 is that our Liquid cultures of BL-21 Bacteria that have LiP gene
 
-
also degraded the Methylene Blue (80uM) dye with approximately %70 efficiency. </span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span style='mso-no-proof:yes'><img width=603 height=359
 
-
id="_x0000_i1026" src="https://static.igem.org/mediawiki/2014hs/e/eb/Fimage006.jpg"
 
-
alt="https://static.igem.org/mediawiki/2014hs/e/eb/Fimage006.jpg"></span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>Graphic 6:
 
-
This graphic shows our absorption rate of our mixed sample that includes liquid
 
-
culture&nbsp; of our BL-21 Bacteria that have HRP gene and&nbsp; Methylene Blue
 
-
(80uM) dyes and for the activate the HRP we also added Hydrogen Peroxide
 
-
(800uM) measured in the 1 hour.</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>The result
 
-
of Graphic-6 is that our Liquid cultures of BL-21 Bacteria that have LiP gene
 
-
also degraded the Methylene Blue (80uM) dye with approximately %65 efficiency.</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>The Results
 
-
of Graphic 5 and 6 show that our liquid culture of our BL-21 Bacteria that have
 
-
HRP gene and other Bacteria that have LiP gene could degraded the Methylene
 
-
Blue (80uM) dye but our Lysates of our BL-21 Bacteria that have HRP gene and
 
-
other Bacteria that have LiP gene degraded the Methylene Blue (80uM) dye more
 
-
efficiently. This results gave us an opinion that when our enzymes have further
 
-
interaction with dyes they could degrade much more.</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span style='mso-no-proof:yes'><img width=604 height=283
 
-
id="_x0000_i1025" src="https://static.igem.org/mediawiki/2014hs/6/60/Fimage007.jpg"
 
-
alt="https://static.igem.org/mediawiki/2014hs/6/60/Fimage007.jpg"></span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>&nbsp;</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>Graphic 7:
 
-
This graphic shows our absorption rate of our mixed sample that includes liquid
 
-
culture&nbsp; of our Control BL-21 bacteria that don’t have any HRP or LiP gene
 
-
and&nbsp; Methylene Blue (80uM) dyes and for the activate the any peroxidases,
 
-
Control BL-21 bacteria have, we also added Hydrogen Peroxide (800uM) measured
 
-
in the 1 hour.</span></p>
 
-
 
-
<p class=MsoNormal><span lang=EN-US style='mso-ansi-language:EN-US'>The result
 
-
of Graphic-7 is that our Liquid culture of BL-21 Bacteria that don’t have any
 
-
HRP or LiP gene could degrade the Methylene Blue (80uM) dye with approximately
 
-
% 18 efficiency. This result show that Control bacteria can degrade the the
 
-
Methylene Blue (80uM) dye but at the very low percentage when compared with our
 
-
liquid culture BL-21 Bacteria that have HRP gene and other Bacteria that have
 
-
LiP gene so we thought that some peroxidases also can degrade the dyes but our
 
-
enzymes HRP and LiP have very high catalytic ability for the our
 
-
dyes(Methlylene Blue and Methyl Green). These results and graphics show that
 
-
our enzymes are functional and working properly.</span></p>
 
-
 
-
</div>
 
-
 
-
</body>
 
-
 
-
 
-
</head>
 
-
</html>
 

Revision as of 21:43, 18 February 2015