Difference between revisions of "Team:ETH Zurich/Parts"
| Line 230: | Line 230: | ||
</figure> | </figure> | ||
<p><strong>Organism:</strong> <span class="bacterium">FIXME FIXME FIXME</span></p> | <p><strong>Organism:</strong> <span class="bacterium">FIXME FIXME FIXME</span></p> | ||
| − | <p><strong>Based on:</strong> <a href="http://parts.igem.org/Part:BBa_K1847007">BBa_K1847007</a> ( | + | <p><strong>Based on:</strong> <a href="http://parts.igem.org/Part:BBa_K1847007">BBa_K1847007</a> (O1 and O2) and <a href="http://parts.igem.org/Part:BBa_R0062">BBa_R0062</a> (p<sub>Lux</sub>)</p> |
<p><strong>Source:</strong> gBlock</p> | <p><strong>Source:</strong> gBlock</p> | ||
<p><strong>Registry:</strong> <a href="http://parts.igem.org/Part:BBa_K2500010">BBa_K2500010</a></p> | <p><strong>Registry:</strong> <a href="http://parts.igem.org/Part:BBa_K2500010">BBa_K2500010</a></p> | ||
| Line 242: | Line 242: | ||
</figure> | </figure> | ||
<p><strong>Organism:</strong> <span class="bacterium">FIXME FIXME FIXME</span></p> | <p><strong>Organism:</strong> <span class="bacterium">FIXME FIXME FIXME</span></p> | ||
| − | <p><strong>Based on:</strong> <a href="http://parts.igem.org/Part:BBa_K1847007">BBa_K1847007</a> ( | + | <p><strong>Based on:</strong> <a href="http://parts.igem.org/Part:BBa_K1847007">BBa_K1847007</a> (O1 and O2) and <a href="http://parts.igem.org/Part:BBa_R0062">BBa_R0062</a> (p<sub>Lux</sub>)</p> |
<p><strong>Source:</strong> gBlock</p> | <p><strong>Source:</strong> gBlock</p> | ||
<p><strong>Registry:</strong> <a href="http://parts.igem.org/Part:BBa_K2500011">BBa_K2500011</a></p> | <p><strong>Registry:</strong> <a href="http://parts.igem.org/Part:BBa_K2500011">BBa_K2500011</a></p> | ||
| Line 254: | Line 254: | ||
</figure> | </figure> | ||
<p><strong>Organism:</strong> <span class="bacterium">FIXME FIXME FIXME</span></p> | <p><strong>Organism:</strong> <span class="bacterium">FIXME FIXME FIXME</span></p> | ||
| − | <p><strong>Based on:</strong> <a href="http://parts.igem.org/Part:BBa_K1847007">BBa_K1847007</a> ( | + | <p><strong>Based on:</strong> <a href="http://parts.igem.org/Part:BBa_K1847007">BBa_K1847007</a> (O1 and O2) and <a href="http://parts.igem.org/Part:BBa_R0062">BBa_R0062</a> (p<sub>Lux</sub>)</p> |
<p><strong>Source:</strong> gBlock</p> | <p><strong>Source:</strong> gBlock</p> | ||
<p><strong>Registry:</strong> <a href="http://parts.igem.org/Part:BBa_K2500012">BBa_K2500012</a></p> | <p><strong>Registry:</strong> <a href="http://parts.igem.org/Part:BBa_K2500012">BBa_K2500012</a></p> | ||
| Line 263: | Line 263: | ||
<p><strong>Design notes:</strong>FIXME FIXME FIXME</p> | <p><strong>Design notes:</strong>FIXME FIXME FIXME</p> | ||
<p><strong>Organism:</strong> <span class="bacterium">FIXME FIXME FIXME</span></p> | <p><strong>Organism:</strong> <span class="bacterium">FIXME FIXME FIXME</span></p> | ||
| − | <p><strong>Based on:</strong> FIXME <a href="http://parts.igem.org/Part:BBa_K1847007">BBa_K1847007</a> (LldR) and <a href="http://parts.igem.org/Part:BBa_R0062">BBa_R0062</a> (p<sub>Lux</sub>)</p> | + | <p><strong>Based on:</strong> FIXME <a href="http://parts.igem.org/Part:BBa_K1847007">BBa_K1847007</a> (LldP/LldR) and <a href="http://parts.igem.org/Part:BBa_R0062">BBa_R0062</a> (p<sub>Lux</sub>)</p> |
<p><strong>Source:</strong> FIXME</p> | <p><strong>Source:</strong> FIXME</p> | ||
<p><strong>Registry:</strong> <a href="http://parts.igem.org/Part:BBa_K2500013">BBa_K2500013</a></p> | <p><strong>Registry:</strong> <a href="http://parts.igem.org/Part:BBa_K2500013">BBa_K2500013</a></p> | ||
Revision as of 10:15, 30 October 2017
Parts
Overview
We submitted in total 14 new BioBricks to the iGEM registry! You can find all parts and their design below.
Basic Parts
| Part | Description | BioBrick |
|---|---|---|
| Bacterioferritin | Heme-deletion mutant of bacterial iron storage protein functioning as an MRI contrast agent | BBa_K2500000 |
| Azurin | Redox protein originating from P. aeruginosa with anti-cancer activity | BBa_K2500001 |
| p28 | Effector domain of azurin | BBa_K2500002 |
| pTlpA | Temperature-responsive promoter optimized for slight activation above 37°C and full activation at 45 °C | BBa_K2500003 |
| TlpA | Temperature-dependent transcriptional repressor of pTlpa | BBa_K2500004 |
| RBS_TlpA | Temperature-dependent transcriptional repressor of pTlpa and synthetic RBS | BBa_K2500005 |
| Protein E | Bacteria-lysing protein encoded by phage Phi X 17 | BBa_K2500006 |
| RBSeng_TlpA | Temperature-dependent transcriptional repressor of pTlpa with engineered RBS | BBa_K2500007 |
| RBSeng_ProteinE | Bacteria-lysing protein encoded by phage Phi X 174 with engineered RBS | BBa_K2500009 |
| AND Gate A | Synthetic promoter responsive to LldR and luxR | BBa_K2500010 |
| Best Basic Part: AND Gate B |
Synthetic promoter responsive to LldR and luxR | BBa_K2500011 |
| AND Gate C | Synthetic promoter responsive to LldR and luxR | BBa_K2500012 |
| pConst_RBS_LldP/ LldR_pConst_RBS_LuxR |
Expression cassette consisting of LuxR and LldP/LldR | BBa_K2500013 |
Composite Parts
| Part | Description | BioBrick |
|---|---|---|
| Best Composite Part: pConstRBSeng_TlpA |
Constitutively expressed temperature-dependent transcriptional repressor of pTlpa with engineered RBS | BBa_K2500008 |
Design
All parts were codon-optimized for expression in E. coli Nissle via Geneious software and modified to remove forbidden restriction sites.
BBa_K2500000: Bacterioferritin
Organism: Escherichia coli Nissle
Based on: BBa_K1438001
Source: gBlock
Registry: BBa_K2500000
BBa_K2500001: Azurin
Design notes: Native signalling peptide removed.
Organism: Pseudomonas aeruginosa
Based on: BBa_K835004
Source: gBlock
Registry: BBa_K2500001
BBa_K2500002: p28
Design notes: Designed by taking aminoacids 50 to 77 from azurin and adding a start codon (ATG) at the beginning and two stop codons (TAA TAA) at the end.
Organism: Pseudomonas aeruginosa
Based on: BBa_K2500001
Source: gBlock
Registry: BBa_K2500002
BBa_K2500003: pTlpA
Organism: Salmonella typhimurium
Based on: Piraner, Dan I., et al. Nature chemical biology 13.1 (2017): 75-80.
Source: oligonucleotide sequence
Registry: BBa_K2500003
BBa_K2500004: TlpA
Organism: Salmonella typhimurium
Based on: Piraner, Dan I., et al. Nature chemical biology 13.1 (2017): 75-80.
Source: gBlock
Registry: BBa_K2500004
BBa_K2500005: RBS_TlpA
Design notes: FIXME FIXME FIXME RBS info
Organism: Salmonella typhimurium
Based on: Piraner, Dan I., et al. Nature chemical biology 13.1 (2017): 75-80.
Source: gBlock
Registry: BBa_K2500005
BBa_K2500006: Protein E
Organism: phage Phi X 174
Based on: provided by dr. Irene Wüthrich from Panke lab at the D-BSSE of ETH Zurich
Source: plasmid provided by dr. Irene Wüthrich from Panke lab at the D-BSSE of ETH Zurich
Registry: BBa_K2500006
BBa_K2500007: RBSeng_TlpA
Design notes: FIXME FIXME FIXME RBS info
Organism: Salmonella typhimurium
Based on: Piraner, Dan I., et al. Nature chemical biology 13.1 (2017): 75-80.
Source: FIXME RedLibs + gBlock
Registry: BBa_K2500007
BBa_K2500008: pConst_RBSeng_TlpA
Design notes: FIXME FIXME FIXME RBS info
Organism: Salmonella typhimurium
Based on: BBa_J23104 (promoter) and Piraner, Dan I., et al. Nature chemical biology 13.1 (2017): 75-80. (TlpA)
Source: FIXME RedLibs + gBlock
Registry: BBa_K2500008
BBa_K2500009: RBSeng_ProteinE
Design notes: FIXME FIXME FIXME RBS info
Organism: phage Phi X 174
Based on: provided by dr. Irene Wüthrich from Panke lab at the D-BSSE of ETH Zurich
Source: FIXME RedLibs + plasmid provided by dr. Irene Wüthrich from Panke lab at the D-BSSE of ETH Zurich
Registry: BBa_K2500009
BBa_K2500010: AND Gate A
Design notes: In the absence of high concentrations of L-lactate, LldR inhibitor proteins bind to the binding sites O1 and O2 surrounding the pLux promoter leading to the formation of a DNA loop. The pLux promoter is sequestered and inaccessible for transcription. In design A, the distances between the intercalated promoter and the binding sites were taken from BBa_K1847007.
Organism: FIXME FIXME FIXME
Based on: BBa_K1847007 (O1 and O2) and BBa_R0062 (pLux)
Source: gBlock
Registry: BBa_K2500010
BBa_K2500011: AND Gate B
Design notes: In design B, each binding site was duplicated in order to achieve a potential zipper mechanism and stronger inhibition due to binding more LldR inhibitor proteins.
Organism: FIXME FIXME FIXME
Based on: BBa_K1847007 (O1 and O2) and BBa_R0062 (pLux)
Source: gBlock
Registry: BBa_K2500011
BBa_K2500012: AND Gate C
Design notes: In design C, an artificial spacer was embedded between the pLux promoter and the O2 binding site in order to influence the looping dynamics.
Organism: FIXME FIXME FIXME
Based on: BBa_K1847007 (O1 and O2) and BBa_R0062 (pLux)
Source: gBlock
Registry: BBa_K2500012
BBa_K2500013: pConst_RBS_LldP/LldR_pConst_RBS_LuxR
Design notes:FIXME FIXME FIXME
Organism: FIXME FIXME FIXME
Based on: FIXME BBa_K1847007 (LldP/LldR) and BBa_R0062 (pLux)
Source: FIXME
Registry: BBa_K2500013
