Team:Aachen/Achievements

From 2014.igem.org

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     <a class="menulink" href="http://2014.igem.org/Team:Aachen/Achievements#achmedals" style="color:black">
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     <div class="menusmall-item menusmall-info" style="height: 180px; width: 180px;"><div class="menukachel">Medal Fulfillments</div></div>
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     <div class="menusmall-item menusmall-info" style="height: 180px; width: 180px;"><div class="menukachel" style="top:32%; line-height:1.5em;">Medal Fulfillments</div></div>
     <div class="menusmall-item menusmall-img" style="background: url(http://2014.igem.org/wiki/images/2/2d/Aachen_14-10-14_Medals_iFG.png); norepeat scroll 0% 0% transparent; background-size:100%;height: 180px; width: 180px;">
     <div class="menusmall-item menusmall-img" style="background: url(http://2014.igem.org/wiki/images/2/2d/Aachen_14-10-14_Medals_iFG.png); norepeat scroll 0% 0% transparent; background-size:100%;height: 180px; width: 180px;">
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     <a class="menulink" href="http://2014.igem.org/Team:Aachen/Achievements#achbiosensor" style="color:black">
     <a class="menulink" href="http://2014.igem.org/Team:Aachen/Achievements#achbiosensor" style="color:black">
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     <div class="menusmall-item menusmall-info" style="height: 180px; width: 180px;"><div class="menukachel">Biosensor</div></div>
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     <div class="menusmall-item menusmall-info" style="height: 180px; width: 180px;"><div class="menukachel" style="top:40%;">Biosensor</div></div>
     <div class="menusmall-item menusmall-img" style="background: url(http://2014.igem.org/wiki/images/5/5a/Aachen_14-10-14_cellock_liegend_panel_iNB.png); norepeat scroll 0% 0% transparent; background-size:100%;height: 180px; width: 180px;">
     <div class="menusmall-item menusmall-img" style="background: url(http://2014.igem.org/wiki/images/5/5a/Aachen_14-10-14_cellock_liegend_panel_iNB.png); norepeat scroll 0% 0% transparent; background-size:100%;height: 180px; width: 180px;">
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     <a class="menulink" href="http://2014.igem.org/Team:Aachen/Achievements#achwatson" style="color:black">
     <a class="menulink" href="http://2014.igem.org/Team:Aachen/Achievements#achwatson" style="color:black">
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     <div class="menusmall-item menusmall-info" style="height: 180px; width: 180px;"><div class="menukachel"><i>WatsOn</i></div></div>
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     <div class="menusmall-item menusmall-info" style="height: 180px; width: 180px;"><div class="menukachel" style="top:40%;"><i>WatsOn</i></div></div>
     <div class="menusmall-item menusmall-img" style="background: url(http://2014.igem.org/wiki/images/c/c7/Aachen_WatsOn_easy.png); norepeat scroll 0% 0% transparent; background-size:100%;height: 180px; width: 180px;">
     <div class="menusmall-item menusmall-img" style="background: url(http://2014.igem.org/wiki/images/c/c7/Aachen_WatsOn_easy.png); norepeat scroll 0% 0% transparent; background-size:100%;height: 180px; width: 180px;">
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     <a class="menulink" href="http://2014.igem.org/Team:Aachen/Achievements#achdevice" style="color:black">
     <a class="menulink" href="http://2014.igem.org/Team:Aachen/Achievements#achdevice" style="color:black">
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     <div class="menusmall-item menusmall-info" style="height: 180px; width: 180px;"><div class="menukachel">OD/F Device</div></div>
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     <div class="menusmall-item menusmall-info" style="height: 180px; width: 180px;"><div class="menukachel" style="top:40%;">OD/F Device</div></div>
     <div class="menusmall-item menusmall-img" style="background: url(http://2014.igem.org/wiki/images/0/0f/Aachen_14-10-10_ODF_Button_ipo.png); norepeat scroll 0% 0% transparent; background-size:100%;height: 180px; width: 180px;">
     <div class="menusmall-item menusmall-img" style="background: url(http://2014.igem.org/wiki/images/0/0f/Aachen_14-10-10_ODF_Button_ipo.png); norepeat scroll 0% 0% transparent; background-size:100%;height: 180px; width: 180px;">
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     <a class="menulink" href="http://2014.igem.org/Team:Aachen/Achievements#achinterlab" style="color:black">
     <a class="menulink" href="http://2014.igem.org/Team:Aachen/Achievements#achinterlab" style="color:black">
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     <div class="menusmall-item menusmall-info" style="height: 180px; width: 180px;"><div class="menukachel">Interlab Study</div></div>
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     <div class="menusmall-item menusmall-info" style="height: 180px; width: 180px;"><div class="menukachel" style="top:32%; line-height:1.5em;">Interlab<br>Study</br></div></div>
     <div class="menusmall-item menusmall-img" style="background: url(http://2014.igem.org/wiki/images/3/39/Aachen_Interlab_Cellocks.png); norepeat scroll 0% 0% transparent; background-size:100%;height: 180px; width: 180px;">
     <div class="menusmall-item menusmall-img" style="background: url(http://2014.igem.org/wiki/images/3/39/Aachen_Interlab_Cellocks.png); norepeat scroll 0% 0% transparent; background-size:100%;height: 180px; width: 180px;">
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<span class="anchor" id="achmedals"></span>
<span class="anchor" id="achmedals"></span>
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{|
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{| style="float:left; margin-left:30px; margin-bottom:20px"
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|http://2014.igem.org/wiki/images/thumb/b/b8/Aachen_14-10-14_Bronze_iFG.png/230px-Aachen_14-10-14_Bronze_iFG.png
+
| http://2014.igem.org/wiki/images/thumb/b/b8/Aachen_14-10-14_Bronze_iFG.png/230px-Aachen_14-10-14_Bronze_iFG.png
-
|<span style="font-size:150%;">'''Bronze Requirements (6/6)'''</span>
+
|<span style="font-size:150%">'''Bronze Requirements (6/6)'''</span>
# Our team was registered successfully.
# Our team was registered successfully.
# The [http://igem.org/2014_Judging_Form?id=1319 Judging form] was completed.
# The [http://igem.org/2014_Judging_Form?id=1319 Judging form] was completed.
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|<span style="font-size:150%;">'''Silver Requirements (4/4)</span>
|<span style="font-size:150%;">'''Silver Requirements (4/4)</span>
# It was experimentally validated that [http://parts.igem.org/Part:BBa_K1319001 K1319001], [http://parts.igem.org/Part:BBa_K1319004 K1319004] and other [http://2014.igem.org/Team:Aachen/Parts BioBrick Parts] and Devices of our own design work as expected.
# It was experimentally validated that [http://parts.igem.org/Part:BBa_K1319001 K1319001], [http://parts.igem.org/Part:BBa_K1319004 K1319004] and other [http://2014.igem.org/Team:Aachen/Parts BioBrick Parts] and Devices of our own design work as expected.
-
# The characterization of [http://parts.igem.org/Part:BBa_K1319001 K1319001], [http://parts.igem.org/Part:BBa_K1319004 K1319004] and other [http://2014.igem.org/Team:Aachen/Parts BioBrick Parts] is documented in the 'Main Page' section of that Registry entry.
+
# The characterization of [http://parts.igem.org/Part:BBa_K1319001 K1319001], [http://parts.igem.org/Part:BBa_K1319004 K1319004] and other [http://2014.igem.org/Team:Aachen/Parts BioBrick Parts] is documented in the 'Main Page' section of that Registry entry and in the parts section of our Wiki.
# [http://parts.igem.org/Part:BBa_K1319001 K1319001], [http://parts.igem.org/Part:BBa_K1319004 K1319004] and other [http://2014.igem.org/Team:Aachen/Parts BioBrick Parts] were submitted to the iGEM Parts Registry.
# [http://parts.igem.org/Part:BBa_K1319001 K1319001], [http://parts.igem.org/Part:BBa_K1319004 K1319004] and other [http://2014.igem.org/Team:Aachen/Parts BioBrick Parts] were submitted to the iGEM Parts Registry.
-
# During the project we addressed several [http://2014.igem.org/Team:Aachen/PolicyPractices important questions beyond the bench]. Together with students of the [http://2014.igem.org/Team:Aachen/Collaborations/Kaiser-Karls-Gymnasium Kaiser-Karls-Gymnasium] and the [http://2014.igem.org/Team:Aachen/Collaborations/Neanderlab Gymnasiun am Neandertal] and people at the [http://2014.igem.org/Team:Aachen/Collaborations/MakerFaire MakerFaire] and the [http://2014.igem.org/Team:Aachen/Meetup iGEM Meetup] we discussed several issues regarding our project, microorganisms in our environment and synthetic biology. Since we use genetically engineered bacteria to detect human pathogens [http://2014.igem.org/Team:Aachen/Safety safety] was an important aspect for us throughout the whole project. Together with other german iGEM Teams we encountered an issue regarding [http://2014.igem.org/Team:Aachen/PolicyPractices/BioBrickIntellectualProperty intellectual property rights] in context of the legal status of Biobricks.
+
# During the project we addressed several [http://2014.igem.org/Team:Aachen/PolicyPractices important questions beyond the bench]. Together with students of the [http://2014.igem.org/Team:Aachen/Collaborations/Kaiser-Karls-Gymnasium Kaiser-Karls-Gymnasium] and the [http://2014.igem.org/Team:Aachen/Collaborations/Neanderlab Gymnasiun am Neandertal] as well as people at the [http://2014.igem.org/Team:Aachen/Collaborations/MakerFaire MakerFaire] and at the [http://2014.igem.org/Team:Aachen/Meetup iGEM Meetup] we discussed several issues regarding our project, microorganisms in our environment and synthetic biology. Since we use genetically engineered bacteria to detect human pathogens, [http://2014.igem.org/Team:Aachen/Safety safety] was an important aspect for us throughout the whole project. Together with other German iGEM Teams we encountered an issue regarding [http://2014.igem.org/Team:Aachen/PolicyPractices/BioBrickIntellectualProperty intellectual property rights] in context of the legal status of Biobricks.
|-
|-
|colspan="2" | &nbsp;
|colspan="2" | &nbsp;
|-
|-
|http://2014.igem.org/wiki/images/thumb/5/5b/Aachen_14-10-14_Gold_iFG.png/230px-Aachen_14-10-14_Gold_iFG.png
|http://2014.igem.org/wiki/images/thumb/5/5b/Aachen_14-10-14_Gold_iFG.png/230px-Aachen_14-10-14_Gold_iFG.png
-
|<span style="font-size:150%;">'''Gold Requirements (3/1)'''</span>
+
|<span style="font-size:150%;">'''Gold Requirements (4/1)'''</span>
# We demonstrated a substantial improvement in cost efficiency of our [http://2014.igem.org/Team:Aachen/OD/F_device OD/F Device] in comparison to commercially available spectrophotometers. For more information see [http://2014.igem.org/Team:Aachen/PolicyPractices/Economics Economical View].
# We demonstrated a substantial improvement in cost efficiency of our [http://2014.igem.org/Team:Aachen/OD/F_device OD/F Device] in comparison to commercially available spectrophotometers. For more information see [http://2014.igem.org/Team:Aachen/PolicyPractices/Economics Economical View].
# We increased the accessability of our new measurement techniques by sharing instructions to build our DIY devices [http://2014.igem.org/Team:Aachen/Notebook/Engineering/WatsOn#watsondiy ''WatsOn''] and the [http://2014.igem.org/Team:Aachen/Notebook/Engineering/ODF#diy OD/F Device].
# We increased the accessability of our new measurement techniques by sharing instructions to build our DIY devices [http://2014.igem.org/Team:Aachen/Notebook/Engineering/WatsOn#watsondiy ''WatsOn''] and the [http://2014.igem.org/Team:Aachen/Notebook/Engineering/ODF#diy OD/F Device].
# Helped three other iGEM Teams:
# Helped three other iGEM Teams:
#:* We built a [http://2014.igem.org/Team:Aachen/Collaborations/Braunschweig low-cost DIY methane sensor] for [http://2014.igem.org/Team:Braunschweig Team Braunschweig].
#:* We built a [http://2014.igem.org/Team:Aachen/Collaborations/Braunschweig low-cost DIY methane sensor] for [http://2014.igem.org/Team:Braunschweig Team Braunschweig].
-
#:* We built [http://2014.igem.org/Team:Aachen/Collaborations/Freiburg AcCELLoMatrix Masks] for [http://2014.igem.org/Team:Freiburg Team Freiburg]
+
#:* We built [http://2014.igem.org/Team:Aachen/Collaborations/Freiburg AcCELLoMatrix Masks] for [http://2014.igem.org/Team:Freiburg Team Freiburg].
-
#:* We [http://2014.igem.org/Team:Aachen/Collaborations/Heidelberg tested different expression vectors] constructed by [http://2014.igem.org/Team:Heidelberg Team Heidelberg]
+
#:* We [http://2014.igem.org/Team:Aachen/Collaborations/Heidelberg tested different expression vectors] constructed by [http://2014.igem.org/Team:Heidelberg Team Heidelberg].
 +
# On top of the Policy & Practice aspects already mentioned in the Silver Medal Requirements, we also critically [http://2014.igem.org/Team:Aachen/Collaborations/Neanderlab#neanderlabevaluation evaluated] the effectiveness of our approach to increase the social acceptance of gene technology in general, and of our initiative to spark interest for synthetic biology and DIY hardware.
|}
|}
 +
In addition to the medal criteria of the measurement track, we have characterized the existing BioBricks [http://parts.igem.org/Part:BBa_K131026:Experience K131026] and [http://parts.igem.org/Part:BBa_I746909:Experience I746909]. We improved [http://parts.igem.org/Part:BBa_K731520 K731520] by replacing the GFP with an iLOV (now [http://parts.igem.org/Part:BBa_K1319042 K1319042]) and showed that it functions in our two-dimensional biosensor ([[Team:Aachen/Project/2D_Biosensor#Achievements|link]]).
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<span class="anchor" id="achbiosensor"></span>
<span class="anchor" id="achbiosensor"></span>
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We developed and optimized a novel [http://2014.igem.org/Team:Aachen/Project/2D_Biosensor method] of reading out biosensors on a two dimensional level. The sensor cells are therefore immobilized in an agar chip. It was experimentally [http://2014.igem.org/Team:Aachen/Project/2D_Biosensor#biosensorachievements validated] that this method works for different kinds of reporter cells, induction substances and readout methods including our newly designed system [http://2014.igem.org/Team:Aachen/Project/Measurement_Device ''WatsOn''].
+
We developed and optimized a novel [http://2014.igem.org/Team:Aachen/Project/2D_Biosensor method] for detecting pathogens using a two dimensional biosensor. In our approach, the sensor cells are immobilized in '''[http://2014.igem.org/Team:Aachen/Project/2D_Biosensor#biosensordevelopment optimized agar chips]'''. It has been '''experimentally [http://2014.igem.org/Team:Aachen/Project/2D_Biosensor#biosensorachievements validated]''' that this method works for different kinds of reporter cells, induction substances and readout methods including our newly designed system [http://2014.igem.org/Team:Aachen/Project/Measurement_Device ''WatsOn''].
 +
 
 +
In order to improve the response of our sensor cells to induction we '''designed and engineered a novel [http://2014.igem.org/Team:Aachen/Project/FRET_Reporter reporter system]''' using a TEV protease to activate a reporter protein by cleaving off a quencher. A faster response in comparison to regular expression of the reporter protein was shown by '''[http://2014.igem.org/Team:Aachen/Project/Model computational modeling] as well as in our [http://2014.igem.org/Team:Aachen/Project/FRET_Reporter#reachachievements experiments]'''. All parts needed to build this kind of reporter system have been '''submitted to the parts registry'''.
-
To improve the response of our reporter cells to induction we designed and engineered a novel [http://2014.igem.org/Team:Aachen/Project/FRET_Reporter reporter system] using a TEV protease to activate a previously synthesized reporter protein by cleaving off a quencher. A faster response in comparison to regular expression of the reporter protein was shown by [http://2014.igem.org/Team:Aachen/Project/Model modeling] as well as in our [http://2014.igem.org/Team:Aachen/Project/FRET_Reporter#reachachievements experiments]. All parts needed to build this kind of reporter system were submitted to the partsregistry.
 
{{Team:Aachen/BlockSeparator}}
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<span class="anchor" id="achwatson"></span>
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[http://2014.igem.org/Team:Aachen/Project/Measurement_Device ''WatsOn''] is a measuring device designed to read out novel two dimensional biosensor.
+
[http://2014.igem.org/Team:Aachen/Project/Measurement_Device ''WatsOn''] is a measuring device designed to read out novel two dimensional biosensor. Using ''WatsOn'', we could demonstrate the '''successful detection''' of ''Pseudomonas&nbsp;aeruginosa'' with our chip technology. This measurement device is built from inexpensive and easily available parts to make it ideal for use in low-budget institutions. Following our economic strategy embracing the Open Access principle, we published all technical details and constructional manuals for ''WatsOn'' on our wiki.
 +
 
 +
In addition, we have shown that our '''image analysis software [http://2014.igem.org/Team:Aachen/Project/Measurement_Device#watsonmeasurarty ''Measurarty'']''' can analyze photos of the sensor chips taken by ''WatsOn'' and can '''effectively segment the image''' into pathogenic regions and non-pathogenic regions.
 +
 
{{Team:Aachen/BlockSeparator}}
{{Team:Aachen/BlockSeparator}}
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<span class="anchor" id="achdevice"></span>
<span class="anchor" id="achdevice"></span>
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In addition to our main project we built an [http://2014.igem.org/Team:Aachen/OD/F_device OD/F Device] capable of measuring optical density and flourescence. It beats commercially available devices in cost and weight. It can be built with common, inexpensive and easily available parts. An [http://2014.igem.org/Team:Aachen/Notebook/Engineering/ODF#diy instruction manual] is available on our wiki.
+
In addition to our main project, we built an [http://2014.igem.org/Team:Aachen/OD/F_device OD/F Device] capable of measuring optical density and flourescence. It '''beats commercially available devices in cost and portability'''. It can be built with common, inexpensive and easily available parts. A [http://2014.igem.org/Team:Aachen/Notebook/Engineering/ODF#diy construction manual] is available on our wiki.
 +
 
 +
The device has been '''successfully tested''' with one of the target groups, high school students, in our collaboration with the [http://2014.igem.org/Team:Aachen/Collaborations/Neanderlab NEAnderLab].
 +
 
{{Team:Aachen/BlockSeparator}}
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<span class="anchor" id="achinterlab"></span>
<span class="anchor" id="achinterlab"></span>
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Since we compete in the Measurement Track of this year's iGEM competition, one of our bronze medal criteria was to participate in the [http://2014.igem.org/Team:Aachen/Interlab_Study Measurement Interlab Study].
+
Since we compete in the Measurement Track of this year's iGEM competition, one of our bronze medal criteria was to participate in the [http://2014.igem.org/Team:Aachen/Interlab_Study Measurement Interlab Study]. Our team was able to measure optical density and fluorescence of ''E.&nbsp;coli'' cells containing the three specified genetic devices, and '''obtained high quality data''' supporting the hypotheses regarding different expression levels depending on plamid copy number and promoter strength.
 +
 
{{Team:Aachen/Footer}}
{{Team:Aachen/Footer}}

Latest revision as of 03:55, 18 October 2014

Achievements

On this page, we summarized all things we accomplished throughout our project "Cellock Holmes - A Case of Identity", and present the medal criteria we have fulfilled for the iGEM competition 2014:

Medal Fulfillments

230px-Aachen_14-10-14_Bronze_iFG.png Bronze Requirements (6/6)
  1. Our team was registered successfully.
  2. The Judging form was completed.
  3. Team Wiki was created.
  4. We are looking forward to present a poster and a talk at the iGEM Jamboree.
  5. We successfully participated in the Measurement Interlab Study.
  6. Several parts were submitted to the Registry of Standard Biological Parts.
 
230px-Aachen_14-10-14_Silver_iFG.png Silver Requirements (4/4)
  1. It was experimentally validated that K1319001, K1319004 and other BioBrick Parts and Devices of our own design work as expected.
  2. The characterization of K1319001, K1319004 and other BioBrick Parts is documented in the 'Main Page' section of that Registry entry and in the parts section of our Wiki.
  3. K1319001, K1319004 and other BioBrick Parts were submitted to the iGEM Parts Registry.
  4. During the project we addressed several important questions beyond the bench. Together with students of the Kaiser-Karls-Gymnasium and the Gymnasiun am Neandertal as well as people at the MakerFaire and at the iGEM Meetup we discussed several issues regarding our project, microorganisms in our environment and synthetic biology. Since we use genetically engineered bacteria to detect human pathogens, safety was an important aspect for us throughout the whole project. Together with other German iGEM Teams we encountered an issue regarding intellectual property rights in context of the legal status of Biobricks.
 
230px-Aachen_14-10-14_Gold_iFG.png Gold Requirements (4/1)
  1. We demonstrated a substantial improvement in cost efficiency of our OD/F Device in comparison to commercially available spectrophotometers. For more information see Economical View.
  2. We increased the accessability of our new measurement techniques by sharing instructions to build our DIY devices WatsOn and the OD/F Device.
  3. Helped three other iGEM Teams:
  4. On top of the Policy & Practice aspects already mentioned in the Silver Medal Requirements, we also critically evaluated the effectiveness of our approach to increase the social acceptance of gene technology in general, and of our initiative to spark interest for synthetic biology and DIY hardware.

In addition to the medal criteria of the measurement track, we have characterized the existing BioBricks K131026 and I746909. We improved K731520 by replacing the GFP with an iLOV (now K1319042) and showed that it functions in our two-dimensional biosensor (link).


Aachen 14-10-14 cellock liegend panel iNB.png

Biosensor

We developed and optimized a novel method for detecting pathogens using a two dimensional biosensor. In our approach, the sensor cells are immobilized in optimized agar chips. It has been experimentally validated that this method works for different kinds of reporter cells, induction substances and readout methods including our newly designed system WatsOn.

In order to improve the response of our sensor cells to induction we designed and engineered a novel reporter system using a TEV protease to activate a reporter protein by cleaving off a quencher. A faster response in comparison to regular expression of the reporter protein was shown by computational modeling as well as in our experiments. All parts needed to build this kind of reporter system have been submitted to the parts registry.


Aachen WatsOn easy.png

WatsOn

WatsOn is a measuring device designed to read out novel two dimensional biosensor. Using WatsOn, we could demonstrate the successful detection of Pseudomonas aeruginosa with our chip technology. This measurement device is built from inexpensive and easily available parts to make it ideal for use in low-budget institutions. Following our economic strategy embracing the Open Access principle, we published all technical details and constructional manuals for WatsOn on our wiki.

In addition, we have shown that our image analysis software Measurarty can analyze photos of the sensor chips taken by WatsOn and can effectively segment the image into pathogenic regions and non-pathogenic regions.


Aachen 14-10-10 ODF Button ipo.png

OD/F Device

In addition to our main project, we built an OD/F Device capable of measuring optical density and flourescence. It beats commercially available devices in cost and portability. It can be built with common, inexpensive and easily available parts. A construction manual is available on our wiki.

The device has been successfully tested with one of the target groups, high school students, in our collaboration with the NEAnderLab.


Aachen Interlab Cellocks.png

Interlab Study

Since we compete in the Measurement Track of this year's iGEM competition, one of our bronze medal criteria was to participate in the Measurement Interlab Study. Our team was able to measure optical density and fluorescence of E. coli cells containing the three specified genetic devices, and obtained high quality data supporting the hypotheses regarding different expression levels depending on plamid copy number and promoter strength.