Difference between revisions of "Part:BBa K342000:Design"
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===Design Notes=== | ===Design Notes=== | ||
We wanted to only synthesize the promoter with the site of regulation by csgD. After analyzing the sequence, we decided to begin our promoter 20bp before the csgD box, and to finish it on the +1bp of transcription. It corresponds to 71 bp.<br> | We wanted to only synthesize the promoter with the site of regulation by csgD. After analyzing the sequence, we decided to begin our promoter 20bp before the csgD box, and to finish it on the +1bp of transcription. It corresponds to 71 bp.<br> | ||
| − | We added a non-CDS (non coding sequence) prefix and suffix to our sequence, to fit with iGEM standards. | + | We added a non-CDS (non coding sequence) prefix and suffix to our sequence, to fit with iGEM standards.<br> |
| − | + | Need the part BBa_K342003 to be functional. | |
| − | + | ||
| − | + | ||
| − | + | ||
| − | + | ||
===Source=== | ===Source=== | ||
| − | + | <html> | |
| − | + | Our Curli promoter contains the CsgD box of the CsgBA promoter (see reference below for CsgD box discovery) of the strain PHL818 (MG1655 <i>ompR234</i>, see reference below for information about this strain). To design this sequence, we worked on an alignment of different <i>csgA-csgD</i> intergenic regions from various clinical isolated strains with <i>csgA-csgA</i> intergenic regions from PHL818 as a reference. This alignment work has been realized by UMR 5122 (unpublished works, corresponding author philippe.lejeune@insa-lyon.fr). <br/> | |
| + | </html> | ||
===References=== | ===References=== | ||
| + | <html> | ||
| + | "The curli biosynthesis regulator CsgD co-ordinates the expression of both positive and negative determinants for biofilm formation in <i>Escherichia coli</i>.", Brombacher E, Dorel C, Zehnder AJ, Landini P., Microbiology 2003.<br> | ||
| + | "Complex Regulatory Network Controls Initial Adhesion and Biofilm Formation in <i>Escherichia coli</i> via Regulation of the csgD Gene", Claire Prigent-Combaret, Eva Brombacher, Olivier Vidal, Arnaud Ambert, Philippe Lejeune, Paolo Landini, and Corinne Dorel, J Bacteriol. 2001 December<br> | ||
| + | </html> | ||
Latest revision as of 17:26, 7 November 2010
Curli Promoter induced by temperature, shaking speed and osmolarity,
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE WITH RFC[1000]
Design Notes
We wanted to only synthesize the promoter with the site of regulation by csgD. After analyzing the sequence, we decided to begin our promoter 20bp before the csgD box, and to finish it on the +1bp of transcription. It corresponds to 71 bp.
We added a non-CDS (non coding sequence) prefix and suffix to our sequence, to fit with iGEM standards.
Need the part BBa_K342003 to be functional.
Source
Our Curli promoter contains the CsgD box of the CsgBA promoter (see reference below for CsgD box discovery) of the strain PHL818 (MG1655 ompR234, see reference below for information about this strain). To design this sequence, we worked on an alignment of different csgA-csgD intergenic regions from various clinical isolated strains with csgA-csgA intergenic regions from PHL818 as a reference. This alignment work has been realized by UMR 5122 (unpublished works, corresponding author philippe.lejeune@insa-lyon.fr).
References
"The curli biosynthesis regulator CsgD co-ordinates the expression of both positive and negative determinants for biofilm formation in Escherichia coli.", Brombacher E, Dorel C, Zehnder AJ, Landini P., Microbiology 2003.
"Complex Regulatory Network Controls Initial Adhesion and Biofilm Formation in Escherichia coli via Regulation of the csgD Gene", Claire Prigent-Combaret, Eva Brombacher, Olivier Vidal, Arnaud Ambert, Philippe Lejeune, Paolo Landini, and Corinne Dorel, J Bacteriol. 2001 December