Difference between revisions of "Team:Bielefeld-CeBiTec/Achievements"

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<b>Establishment of two orthogonal methods for the detection of unnatural base pairs in a target sequence via <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Software">Oxford Nanopore sequencing</a> and an enzyme based detection method</b>
+
<b>Establishment of two orthogonal methods for the detection of unnatural base pairs in a target sequence via <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Software">Oxford Nanopore sequencing</a> and an enzyme based detection method</b>
 
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<b>Development of a <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Software">software</a> suite for these orthogonal methods </b>
+
<b>Development of a <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Software">software</a> suite for these orthogonal methods </b>
 
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<b>Integration and characterization of  the <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Results/unnatural_base_pair/uptake_and_biosynthesis">nucleotide transporter PtNTT2</a> from <i>P.tricornutum</i> in <i>E.coli</i> for the uptake of  unnatural nucleoside triphosphates</b>
+
<b>Integration and characterization of  the <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Results/unnatural_base_pair/uptake_and_biosynthesis">nucleotide transporter PtNTT2</a> from <i>P.tricornutum</i> in <i>E.coli</i> for the uptake of  unnatural nucleoside triphosphates</b>
 
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<b>Proof that certain Taq-polymerases can efficiently <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Results/unnatural_base_pair/preservation_system">incorporate unnatural nucleotides</a> </b>
+
<b>Proof that certain Taq-polymerases can efficiently <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Results/unnatural_base_pair/preservation_system">incorporate unnatural nucleotides</a> </b>
 
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<b>Construction of a <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Results/toolbox">toolkit</a> consisting of five aminoacyl-tRNA synthetases for incorporation of non-canonical amino acids</b>
+
<b>Construction of a <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Results/toolbox">toolkit</a> consisting of five aminoacyl-tRNA synthetases for incorporation of non-canonical amino acids</b>
 
</article>
 
</article>
 
</div>
 
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<b>Development of a <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Results/toolbox/photoswitching">photoswitchable lycopene pathway</a></b>
+
<b>Development of a <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Results/toolbox/photoswitching">photoswitchable lycopene pathway</a></b>
 
</article>
 
</article>
 
</div>
 
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<b>Design and <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Results/toolbox/fusing">chemical synthesis</a> of a novel, fully synthetic amino acid based on cyanonitrobenzothiazol and asparagine and proof of its functionality</b>
+
<b>Design and <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Results/toolbox/fusing">chemical synthesis</a> of a novel, fully synthetic amino acid based on cyanonitrobenzothiazol and asparagine and proof of its functionality</b>
 
</article>
 
</article>
 
</div>
 
</div>
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<b><a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Model">Modeling</a> more than ten new aaRS sequences</b>
+
<b><a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Model">Modeling</a> more than ten new aaRS sequences</b>
 
</article>
 
</article>
 
</div>
 
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<b><a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Results/translational_system/library_and_selection">Library development</a> with several hundred thousand sequences for selecting aminoacyl-tRNA synthetases</b>
+
<b><a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Results/translational_system/library_and_selection">Library development</a> with several hundred thousand sequences for selecting aminoacyl-tRNA synthetases</b>
 
</article>
 
</article>
 
</div>
 
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<b>Construction of positive and negative <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Results/translational_system/library_and_selection">selection plasmids</a> for the evolution of new synthetases for non-canonical amino acids</b>
+
<b>Construction of positive and negative <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Results/translational_system/library_and_selection">selection plasmids</a> for the evolution of new synthetases for non-canonical amino acids</b>
 
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<b><a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Improve">Improvement</a> of an aminoacyl-tRNA synthetase test-system by introducing a FRET-system and development of a ranking system</b>
+
<b><a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Improve">Improvement</a> of an aminoacyl-tRNA synthetase test-system by introducing a FRET-system and development of a ranking system</b>
 
</article>
 
</article>
 
</div>
 
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<b>Construction of an <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Hardware">LED panel</a> for irradiating 96-well microtiter plates, which can be used to manipulate non-canonical amino acids and much more </b>
+
<b>Construction of an <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Hardware">LED panel</a> for irradiating 96-well microtiter plates, which can be used to manipulate non-canonical amino acids and much more </b>
 
</article>
 
</article>
 
</div>
 
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<b>Development of an <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Software">Android</a> App to control the LED panel with your smartphone via Bluetooth</b>
+
<b>Development of an <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Software">Android</a> App to control the LED panel with your smartphone via Bluetooth</b>
 
</article>
 
</article>
 
</div>
 
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<b>Writing of a <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/HP/Silver">biosafety report</a> titled “Auxotrophy to Xeno-DNA: A Comprehensive Exploration of Combinatorial Mechanisms for a High-Fidelity Biosafety System” </b>
+
<b>Writing of a <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/HP/Silver">biosafety report</a> titled “Auxotrophy to Xeno-DNA: A Comprehensive Exploration of Combinatorial Mechanisms for a High-Fidelity Biosafety System” </b>
 
</article>
 
</article>
 
</div>
 
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<b>Writing of the <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/HP/Gold_Integrated">ChImp Report</a> on the “Chances and Implications of an Expanded Genetic Code”</b>
+
<b>Writing of the <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/HP/Gold_Integrated">ChImp Report</a> on the “Chances and Implications of an Expanded Genetic Code”</b>
 
</article>
 
</article>
 
</div>
 
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                   <h3>Integrated Human Practices</h3>
 
                   <h3>Integrated Human Practices</h3>
 
<article>
 
<article>
−
Throughout our project we got advice and support by over thirty experts that influenced our work very much. We organized a conference about the expansion of the genetic code and wrote a report about the chances and implications of an expanded genetic code. See all the human practices we integrated into our project <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/HP/Gold_Integrated">here</a>.
+
Throughout our project we got advice and support by over thirty experts that influenced our work very much. We organized a conference about the expansion of the genetic code and wrote a report about the chances and implications of an expanded genetic code. See all the human practices we integrated into our project <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/HP/Gold_Integrated">here</a>.
 
</article>
 
</article>
 
                   <h3>Improve a previous part or project</h3>
 
                   <h3>Improve a previous part or project</h3>
 
<article>
 
<article>
−
We improved the validation system for aminoacyl-tRNA synthetases for ncAAs from Austin Texas 2014 <a target="_blank" href="http://parts.igem.org/Part:BBa_K1416004">(BBa_K1416004)</a> and Aachen 2016 (<a href="http://parts.igem.org/Part:BBa_K2020040">BBa_K2020040</a>) with a FRET system (<a href="http://parts.igem.org/Part:BBa_K2201343">BBa_K2201343</a>) and used it in our project. You can find our Part Improvement site <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Improve">here</a>.
+
We improved the validation system for aminoacyl-tRNA synthetases for ncAAs from Austin Texas 2014 <a target="_blank" href="http://parts.igem.org/Part:BBa_K1416004">(BBa_K1416004)</a> and Aachen 2016 (<a target="_blank" href="http://parts.igem.org/Part:BBa_K2020040">BBa_K2020040</a>) with a FRET system (<a target="_blank" href="http://parts.igem.org/Part:BBa_K2201343">BBa_K2201343</a>) and used it in our project. You can find our Part Improvement site <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Improve">here</a>.
 
</article>
 
</article>
 
                   <h3>Model your project</h3>
 
                   <h3>Model your project</h3>
 
<article>
 
<article>
−
We successfully modeled several protein sequences for our synthetases to incorporate the new synthetic non-canonical amino acid CBT-asparagine and 2-nitrophenylalanine. See the results of our modeling <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Model">here</a>.
+
We successfully modeled several protein sequences for our synthetases to incorporate the new synthetic non-canonical amino acid CBT-asparagine and 2-nitrophenylalanine. See the results of our modeling <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Model">here</a>.
 
</article>
 
</article>
 
                   <h3>Demonstrate your work</h3>
 
                   <h3>Demonstrate your work</h3>
 
<article>
 
<article>
−
We were able to integrate and detect the unnatural bases in the DNA sequences by software modification of nanopore sequencing. We also expanded the genetic code by providing a toolkit of some evolved synthetases. These are able to incorporate noncanonical amino acids into any kind of protein and proof their functionality. See a summary of our achievements <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Demonstrate">here</a>.
+
We were able to integrate and detect the unnatural bases in the DNA sequences by software modification of nanopore sequencing. We also expanded the genetic code by providing a toolkit of some evolved synthetases. These are able to incorporate noncanonical amino acids into any kind of protein and proof their functionality. See a summary of our achievements <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Demonstrate">here</a>.
 
</article>
 
</article>
 
</div>
 
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                   <h4> Validated Part / Validated Contribution </h4>
 
                   <h4> Validated Part / Validated Contribution </h4>
 
<article>
 
<article>
−
In our project we used and created a lot of different parts. We are especially proud of our part <a href="http://parts.igem.org/Part:BBa_K2201004">BBa_K2201004</a> that worked just as expected and was well characterized and validated by us.
+
In our project we used and created a lot of different parts. We are especially proud of our part <a target="_blank" href="http://parts.igem.org/Part:BBa_K2201004">BBa_K2201004</a> that worked just as expected and was well characterized and validated by us.
 
</article>
 
</article>
 
                   <h4> Collaboration </h4>
 
                   <h4> Collaboration </h4>
 
<article>
 
<article>
−
Throughout our project we collaborated with many iGEM Teams to improve our work and help each other. Especially our part exchange with the CU Boulder team and the mentoring of the new iGEM team UNIFI was very important for us. See the summary of our collaborations <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Collab">here</a>.
+
Throughout our project we collaborated with many iGEM Teams to improve our work and help each other. Especially our part exchange with the CU Boulder team and the mentoring of the new iGEM team UNIFI was very important for us. See the summary of our collaborations <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Collab">here</a>.
 
</article>
 
</article>
 
                   <h4> Human Practices </h4>
 
                   <h4> Human Practices </h4>
 
<article>
 
<article>
−
During the last months we had a lot of interactions with the public trying to convey the aspects of our work and project. For example we worked with pupils at the GENIALE or our yearly pupil’s academy and organized a literature workshop about synthetic biology. We had appearances at the radio, created a little biotechnology quiz show for a student initiative and even wrote a biosafety report. All silver human practices are collected <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/HP/Silver">here</a>.
+
During the last months we had a lot of interactions with the public trying to convey the aspects of our work and project. For example we worked with pupils at the GENIALE or our yearly pupil’s academy and organized a literature workshop about synthetic biology. We had appearances at the radio, created a little biotechnology quiz show for a student initiative and even wrote a biosafety report. All silver human practices are collected <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/HP/Silver">here</a>.
 
</article>
 
</article>
 
</div>
 
</div>
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                   <h4> Deliverables </h4>
 
                   <h4> Deliverables </h4>
 
<article>
 
<article>
−
We have met all the required deliverables as you can see in our team wiki, our project attribution, our team poster, our presentation on the 12th of november, our <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Safety">safety</a> and judging forms, our part page and our submitted samples.
+
We have met all the required deliverables as you can see in our team wiki, our project attribution, our team poster, our presentation on the 12th of november, our <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Safety">safety</a> and judging forms, our part page and our submitted samples.
 
</article>
 
</article>
 
                   <h4> Attribution </h4>
 
                   <h4> Attribution </h4>
 
                     <article>
 
                     <article>
−
We created an <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Attributions">Attribution</a> site where we listed and thanked all the people who supported us with advice and material throughout our project. If not mentioned specificially we have done the work ourselfs and the results are due to our own work.
+
We created an <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/Attributions">Attribution</a> site where we listed and thanked all the people who supported us with advice and material throughout our project. If not mentioned specificially we have done the work ourselfs and the results are due to our own work.
 
                     </article>
 
                     </article>
 
                   <h4> Characterization / Contribution </h4>
 
                   <h4> Characterization / Contribution </h4>
 
                     <article>
 
                     <article>
−
We characterized a lot of different parts and successfully participated at the <a href="https://2017.igem.org/Team:Bielefeld-CeBiTec/InterLab"> Interlab Measurement Study </a>.</article>
+
We characterized a lot of different parts and successfully participated at the <a target="_blank" href="https://2017.igem.org/Team:Bielefeld-CeBiTec/InterLab"> Interlab Measurement Study </a>.</article>
 
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Revision as of 15:17, 29 October 2017

Achievements


Establishment of two orthogonal methods for the detection of unnatural base pairs in a target sequence via Oxford Nanopore sequencing and an enzyme based detection method



Development of a software suite for these orthogonal methods


Integration and characterization of the nucleotide transporter PtNTT2 from P.tricornutum in E.coli for the uptake of unnatural nucleoside triphosphates



Construction of a toolkit consisting of five aminoacyl-tRNA synthetases for incorporation of non-canonical amino acids


Design and chemical synthesis of a novel, fully synthetic amino acid based on cyanonitrobenzothiazol and asparagine and proof of its functionality



Modeling more than ten new aaRS sequences



Library development with several hundred thousand sequences for selecting aminoacyl-tRNA synthetases


Construction of positive and negative selection plasmids for the evolution of new synthetases for non-canonical amino acids



Improvement of an aminoacyl-tRNA synthetase test-system by introducing a FRET-system and development of a ranking system



Construction of an LED panel for irradiating 96-well microtiter plates, which can be used to manipulate non-canonical amino acids and much more



Development of an Android App to control the LED panel with your smartphone via Bluetooth


Writing of a biosafety report titled “Auxotrophy to Xeno-DNA: A Comprehensive Exploration of Combinatorial Mechanisms for a High-Fidelity Biosafety System”



Writing of the ChImp Report on the “Chances and Implications of an Expanded Genetic Code”

We applied for the following special prizes

Best Integrated Human Practices

Best Education and Public Engagement

Best Measurement

Best Modeling

Best Basic Part

Best Composite Part

Best Part Collection

Best Software Tool

Best Hardware

Integrated Human Practices

Throughout our project we got advice and support by over thirty experts that influenced our work very much. We organized a conference about the expansion of the genetic code and wrote a report about the chances and implications of an expanded genetic code. See all the human practices we integrated into our project here.

Improve a previous part or project

We improved the validation system for aminoacyl-tRNA synthetases for ncAAs from Austin Texas 2014 (BBa_K1416004)

Model your project

We successfully modeled several protein sequences for our synthetases to incorporate the new synthetic non-canonical amino acid CBT-asparagine and 2-nitrophenylalanine. See the results of our modeling here.

Demonstrate your work

We were able to integrate and detect the unnatural bases in the DNA sequences by software modification of nanopore sequencing. We also expanded the genetic code by providing a toolkit of some evolved synthetases. These are able to incorporate noncanonical amino acids into any kind of protein and proof their functionality. See a summary of our achievements here.

Validated Part / Validated Contribution

In our project we used and created a lot of different parts. We are especially proud of our part BBa_K2201004 that worked just as expected and was well characterized and validated by us.

Collaboration

Throughout our project we collaborated with many iGEM Teams to improve our work and help each other. Especially our part exchange with the CU Boulder team and the mentoring of the new iGEM team UNIFI was very important for us. See the summary of our collaborations here.

Human Practices

During the last months we had a lot of interactions with the public trying to convey the aspects of our work and project. For example we worked with pupils at the GENIALE or our yearly pupil’s academy and organized a literature workshop about synthetic biology. We had appearances at the radio, created a little biotechnology quiz show for a student initiative and even wrote a biosafety report. All silver human practices are collected here.

Register and attend

We registered for the competition in March and are proud to be able to attend the Giant Jamboree. We will without doubt have a lot of fun!

Deliverables

We have met all the required deliverables as you can see in our team wiki, our project attribution, our team poster, our presentation on the 12th of november, our safety and judging forms, our part page and our submitted samples.

Attribution

We created an Attribution site where we listed and thanked all the people who supported us with advice and material throughout our project. If not mentioned specificially we have done the work ourselfs and the results are due to our own work.

Characterization / Contribution