Difference between revisions of "Team:EPF Lausanne/Description"

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<h2> Project Description </h2>
 
  
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<p>Tell us about your project, describe what moves you and why this is something important for your team.</p>
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                <h3>BIOBRICK IMPROVEMENTS</h3>
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<h5>What should this page contain?</h5>
 
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<li> A clear and concise description of your project.</li>
 
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<li>A detailed explanation of why your team chose to work on this particular project.</li>
 
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<li>References and sources to document your research.</li>
 
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<li>Use illustrations and other visual resources to explain your project.</li>
 
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<h4>Advice on writing your Project Description</h4>
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We encourage you to put up a lot of information and content on your wiki, but we also encourage you to include summaries as much as possible. If you think of the sections in your project description as the sections in a publication, you should try to be consist, accurate and unambiguous in your achievements.
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Judges like to read your wiki and know exactly what you have achieved. This is how you should think about these sections; from the point of view of the judge evaluating you at the end of the year.
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        <font size="100"><h3>Bikard et al. used dCas9-ω in order to regulate gene expression [1]. Their dCas9 system works with <b>tracRNAs</b>, while our system works with <b>simpler gRNAs</b>. We also added to the iGEM Parts Registry Bikard's promoter, <b>BBa_K1723001</b>, which is an <b>improved version of the J23117 (BBa_J23117) promoter</b>. In addition, to test new gRNA sequences we created a fully synthetic biobrick, <b>BBa_K1723005</b>, which is a <b>mutated version of Bikard and al.'s promoter</b>.</h3></font>
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<h4>References</h4>
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<p>iGEM teams are encouraged to record references you use during the course of your research. They should be posted somewhere on your wiki so that judges and other visitors can see how you though about your project and what works inspired you.</p>
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<img src="https://static.igem.org/mediawiki/2015/2/25/EPF_Lausanne_Parts_dCas9-w.png" style="width:75%">
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<h4>Inspiration</h4>
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<p>See how other teams have described and presented their projects: </p>
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<h2>dCas9-ω</h2>
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<p>This part can be considered as an improvement of the biobrick dCas9-ω Activator (BBa_K1218014) . Our protein acts using sgRNAs (single guide RNA, such as BBa_K1723002) as guide RNAs [2], instead of tracrRNA/CRISPR array system. SgRNAs are more modular as they can be produced separately when needed in CRISPRi context. Also, the production of the complex is faster as less processing steps are needed. Finally, the sequences are shorter and facilitate the scalability.</p>
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<li><a href="https://2014.igem.org/Team:Imperial/Project"> Imperial</a></li>
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<li><a href="https://2014.igem.org/Team:UC_Davis/Project_Overview"> UC Davis</a></li>
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<a href="http://parts.igem.org/Part:BBa_K1723000"><b>BBa_K1723000</b> </a>
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<li><a href="https://2014.igem.org/Team:SYSU-Software/Overview">SYSU Software</a></li>
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<img src="https://static.igem.org/mediawiki/2015/1/1b/EPF_Lausanne_Parts_J23117.png" style="width:75%">
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<h2>PAM rich URS J23117 promoter</h2>
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<p>PAM rich URS J23117 is an improvement of the J23117 (BBa_J23117) weak promoter. This promoter is the promoter J23117 flanked with a PAM (PAM = NGG sequence) rich Upstream Regulatory Sequence (URS) to enable the use of protein dCas9-ω (BBa_K1723000) as a gene transcription regulator.</p>
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<a href="http://parts.igem.org/Part:BBa_K1723001"><b>BBa_K1723001</b></a>
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<img src="https://static.igem.org/mediawiki/2015/1/17/EPF_Lausanne_Parts_J23117Alt.png" style="width:75%">
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<h2>PAM rich URS J23117Alt promoter</h2>
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<p>PAM rich URS J23117Alt is a new fully synthetic promoter obtained by mutation of PAM rich URS J23117 promoter (BBa_K1723001). It acts the exactly same way as the PAM rich URS J23117 promoter but is targeted by others specific sgRNAS.</p>
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<a href="http://parts.igem.org/Part:BBa_K1723005"><b>BBa_K1723005</b></a>
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        <h3>References</h3>
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        <p>[1] Bikard, D., Jiang, W., Samai, P., Hochschild, A., Zhang, F., & Marraffini, L. A. (2013). Programmable repression and activation of bacterial gene expression using an engineered CRISPR-Cas system. Nucleic acids research, 41(15), 7429-7437.</p>
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{{:Team:EPF_Lausanne/Footer}}

Latest revision as of 20:13, 18 September 2015

EPFL 2015 iGEM bioLogic Logic Orthogonal gRNA Implemented Circuits EPFL 2015 iGEM bioLogic Logic Orthogonal gRNA Implemented Circuits

BIOBRICK IMPROVEMENTS

Bikard et al. used dCas9-ω in order to regulate gene expression [1]. Their dCas9 system works with tracRNAs, while our system works with simpler gRNAs. We also added to the iGEM Parts Registry Bikard's promoter, BBa_K1723001, which is an improved version of the J23117 (BBa_J23117) promoter. In addition, to test new gRNA sequences we created a fully synthetic biobrick, BBa_K1723005, which is a mutated version of Bikard and al.'s promoter.


dCas9-ω

This part can be considered as an improvement of the biobrick dCas9-ω Activator (BBa_K1218014) . Our protein acts using sgRNAs (single guide RNA, such as BBa_K1723002) as guide RNAs [2], instead of tracrRNA/CRISPR array system. SgRNAs are more modular as they can be produced separately when needed in CRISPRi context. Also, the production of the complex is faster as less processing steps are needed. Finally, the sequences are shorter and facilitate the scalability.






BBa_K1723000

PAM rich URS J23117 promoter

PAM rich URS J23117 is an improvement of the J23117 (BBa_J23117) weak promoter. This promoter is the promoter J23117 flanked with a PAM (PAM = NGG sequence) rich Upstream Regulatory Sequence (URS) to enable the use of protein dCas9-ω (BBa_K1723000) as a gene transcription regulator.






BBa_K1723001

PAM rich URS J23117Alt promoter

PAM rich URS J23117Alt is a new fully synthetic promoter obtained by mutation of PAM rich URS J23117 promoter (BBa_K1723001). It acts the exactly same way as the PAM rich URS J23117 promoter but is targeted by others specific sgRNAS.






BBa_K1723005

References

[1] Bikard, D., Jiang, W., Samai, P., Hochschild, A., Zhang, F., & Marraffini, L. A. (2013). Programmable repression and activation of bacterial gene expression using an engineered CRISPR-Cas system. Nucleic acids research, 41(15), 7429-7437.

EPFL 2015 iGEM bioLogic Logic Orthogonal gRNA Implemented Circuits