Team:Cambridge/Bioluminescence/Firefly Modelling

From 2010.igem.org

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{{:Team:Cambridge/Templates/headerMinimalprototype}}
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{{:Team:Cambridge/Templates/headerbar|colour=#96d446|linkcolour=#6bbe00|title=Project Firefly: Modelling}}
{{:Team:Cambridge/Templates/headerbar|colour=#96d446|linkcolour=#6bbe00|title=Project Firefly: Modelling}}
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{{:Team:Cambridge/Templates/Topheader|header=Introduction}}
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<a href="http://cambridgeigem.org/igem10/In Vivo Cycle.xml" style="display:block; width:300px; padding-top:100px; margin-left:30px; margin-bottom:30px; background-image:url('https://static.igem.org/mediawiki/2010/7/76/Downloadsbml.png');background-repeat:no-repeat; background-position:top left;">Download model in SBML format
<a href="http://cambridgeigem.org/igem10/In Vivo Cycle.xml" style="display:block; width:300px; padding-top:100px; margin-left:30px; margin-bottom:30px; background-image:url('https://static.igem.org/mediawiki/2010/7/76/Downloadsbml.png');background-repeat:no-repeat; background-position:top left;">Download model in SBML format
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Some parameters were taken from literature.  However there was no clear data for others, such that we were only able to define some parameters in the light of experimental data.
Some parameters were taken from literature.  However there was no clear data for others, such that we were only able to define some parameters in the light of experimental data.
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While attempting to optimise our system we modelled the effect of [https://2010.igem.org/Team:Cambridge/Bioluminescence/Luciferin_Regeneration Luciferin Regenerating Enzyme (LRE)]
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==Effect of LRE==
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While attempting to optimise our system we modelled the effect of [https://2010.igem.org/Team:Cambridge/Bioluminescence/Luciferin_Regeneration Luciferin Regenerating Enzyme (LRE)].
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We modelled the system both with and without the effect of the [https://2010.igem.org/Team:Cambridge/Bioluminescence/Luciferin_Regeneration Luciferase Regenerating Enzyme] (LRE.) The 4 Figures below show a comparison the model and our data for both cases. 
 
[[Image:Cambridge-LREmodel.png|thumb|center|700px|'''Figure 1 - Model of the light output as a function of time without the effect of the LRE. ''']]
[[Image:Cambridge-LREmodel.png|thumb|center|700px|'''Figure 1 - Model of the light output as a function of time without the effect of the LRE. ''']]
Our model suggested that the LRE would make light output increase faster, peak higher and decay more slowly.  These were all qualities which suited us.
Our model suggested that the LRE would make light output increase faster, peak higher and decay more slowly.  These were all qualities which suited us.
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[[Image:Modellight.png|thumb|center|700px|'''Figure 1 - Model of the light output as a function of time without the effect of the LRE. ''']]
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==Validity of model==
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<p><h2 class="noline" style="margin-top:30px;">Luciferase alone</h2>
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<td><div class="center"><div class="thumb tnone"><div class="thumbinner" style="width:352px;"><a href="/Image:Modellight.png" class="image" title="Modellight.png"><img alt="" src="/wiki/images/thumb/b/b5/Modellight.png/350px-Modellight.png" width="350" height="234" border="0" class="thumbimage" /></a>  <div class="thumbcaption"><div class="magnify"><a href="/Image:Modellight.png" class="internal" title="Enlarge"><img src="/wiki/skins/common/images/magnify-clip.png" width="15" height="11" alt="" /></a></div></div></div></div></div>
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</td><td><div class="center"><div class="thumb tnone"><div class="thumbinner" style="width:352px;"><a href="/Image:Datawithoutreg.png" class="image" title="Datawithoutreg.png"><img alt="" src="/wiki/images/thumb/d/dd/Datawithoutreg.png/350px-Datawithoutreg.png" width="350" height="211" border="0" class="thumbimage" /></a>  <div class="thumbcaption"><div class="magnify"><a href="/Image:Datawithoutreg.png" class="internal" title="Enlarge"><img src="/wiki/skins/common/images/magnify-clip.png" width="15" height="11" alt="" /></a></div></div></div></div></div>
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<td><div style="margin:10px">Figure 1 - Model of the light output as a function of time without the effect of the LRE. </div>
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</td><td><div style="margin:10px">Figure 2 - Light output as a function of time for <a href="http://partsregistry.org/Part:BBa_K325108" class="external text" title="http://partsregistry.org/Part:BBa_K325108" rel="nofollow">P.Pyralis luciferase</a> under pBad promoter. Arabinose concentration is 10mM and D-Luciferin concentration is 100µM</div>
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<p><h2 class="noline" style="margin-top:30px;">Luciferase and LRE</h2>
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<td><div class="center"><div class="thumb tnone"><div class="thumbinner" style="width:352px;"><a href="/Image:Modellight_with_regen.png" class="image" title="Modellight with regen.png"><img alt="" src="/wiki/images/thumb/6/6d/Modellight_with_regen.png/350px-Modellight_with_regen.png" width="350" height="241" border="0" class="thumbimage" /></a>  <div class="thumbcaption"><div class="magnify"><a href="/Image:Modellight_with_regen.png" class="internal" title="Enlarge"><img src="/wiki/skins/common/images/magnify-clip.png" width="15" height="11" alt="" /></a></div></div></div></div></div>
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</td><td><div class="center"><div class="thumb tnone"><div class="thumbinner" style="width:352px;"><a href="/Image:Datawithreg.png" class="image" title="Datawithreg.png"><img alt="" src="/wiki/images/thumb/6/6b/Datawithreg.png/350px-Datawithreg.png" width="350" height="211" border="0" class="thumbimage" /></a>  <div class="thumbcaption"><div class="magnify"><a href="/Image:Datawithreg.png" class="internal" title="Enlarge"><img src="/wiki/skins/common/images/magnify-clip.png" width="15" height="11" alt="" /></a></div></div></div></div></div>
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<td><div style="margin:10px">Figure 3 - Model of the light output as a function of time with the effect of the LRE. </div>
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</td><td><div style="margin:10px"> Figure 4 - Light output as a function of time for <a href="http://partsregistry.org/Part:BBa_K325219" class="external text" title="http://partsregistry.org/Part:BBa_K325219" rel="nofollow">L. Cruciata luciferase with LRE</a> under pBad promoter. Arabinose concentration is 100 µM and D-Luciferin concentration is 1µM</div>
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[[Image:Datawithoutreg.png|thumb|center|700px|'''Figure 2 - Light output as a function of time for [http://partsregistry.org/Part:BBa_K325108 P.Pyralis luciferase] under pBad promoter. Arabinose concentration is 10mM and D-Luciferin concentration is 100µM''']]
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[[Image:Modellight_with_regen.png|thumb|center|700px|'''Figure 3 - Model of the light output as a function of time with the effect of the LRE. ''']]
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[[Image:Datawithreg.png|thumb|center|700px|'''Figure 4 - Light output as a function of time for [http://partsregistry.org/Part:BBa_K325219 L. Cruciata luciferase with LRE] under pBad promoter. Arabinose concentration is 100 µM and D-Luciferin concentration is 1µM''']]
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Latest revision as of 02:41, 28 October 2010