Difference between revisions of "Team:DTU-Denmark/Design"
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| + | <img src="https://static.igem.org/mediawiki/2019/6/6f/T--DTU-Denmark--designcrossfigure1.svg"> | ||
| + | <img src="https://static.igem.org/mediawiki/2019/d/df/T--DTU-Denmark--Designfigure1promoter.svg" class="df1promoter"> | ||
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| + | <div class="df2 df2promoter"><h2>Domestication</h2><p>Compatibility with different assembly methods is important, especially since we want to ensure that the promoters can be used as a new part within an existing design.</p></div> | ||
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| + | <div class="df2 df3promoter"><h2>Different promoter dynamics:</h2><p>By selecting different genes for the software to base the promoter designs on, it’s possible to create promoters with different dynamics. | ||
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| + | <div class="df2 df4promoter"><h2>Differentiated promoter strength:</h2><p>With proHMMoter, the software behind LEAP, it is possible to create promoters with varying strengths, but with similar promoter dynamics. | ||
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| + | <div class="df2 df5promoter"><h2>Cross species activity:</h2><p> | ||
| + | It was important that the generated promoters would be easily transferable among any selected group of organisms, which is why the fundamental design of the software was based on homology modeling. This allows the user to cast as wide a net as they want to, without compromising their core organisms. | ||
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Revision as of 23:18, 19 October 2019
Design
Multiple design decisions were made for the synthetic LEAP promoters created in this project. With software and models, we are able to create different synthetic promoters but to have value, these promoters must be usable for further work within industry or academia. To make sure our promoters would be of actual use in the real world, we contacted representatives from both biotech companies and research institutions as described on the integrated Human Practices page. Based on their feedback on which features it was important for promoters to have, we were able to define some important design criteria for our software, in order to produce promoters with the desired features. Some of the most important features of the synthetic LEAP promoters are shown in the figure below: .
Domestication
Compatibility with different assembly methods is important, especially since we want to ensure that the promoters can be used as a new part within an existing design.
Different promoter dynamics:
By selecting different genes for the software to base the promoter designs on, it’s possible to create promoters with different dynamics.
Differentiated promoter strength:
With proHMMoter, the software behind LEAP, it is possible to create promoters with varying strengths, but with similar promoter dynamics.
Cross species activity:
It was important that the generated promoters would be easily transferable among any selected group of organisms, which is why the fundamental design of the software was based on homology modeling. This allows the user to cast as wide a net as they want to, without compromising their core organisms.
Click here to read more about how we built a new test device for future iGEM teams to use in testing fungal promoters using Type IIS restriction enzymes. You can also read more about our different strategies for cloning and expressing our promoters in Aspergillus niger
Click here to read more about the requirements we defined for our promoters, and the reasoning behind them. You can also read about what genes the different LEAP promoters are based on, and what considerations we had for these selections.
Click here to read more about what design considerations were made for measuring our promoter output, and which experiments this let us to perform.
Click here to read more about the requirements we defined for our promoters, and the reasoning behind them. You can also read about what genes the different LEAP promoters are based on, and what considerations we had for these selections.
Click here to read more about how we built a new test device for future iGEM teams to use in testing fungal promoters using Type IIS restriction enzymes. You can also read more about our different strategies for cloning and expressing our promoters in Aspergillus niger
Click here to read more about what design considerations were made for measuring our promoter output, and which experiments this let us to perform.
(1) Siddiqui, S: Protein Production: Quality Control and Secretion Stress Response. New and Future Developments in Microbial Biotechnology and Bioengineering: Aspergillus System Properties and Applications, 2016. pp. 257-266
