Difference between revisions of "Team:ETH Zurich/Parts"
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<td><img src="https://static.igem.org/mediawiki/2015/4/46/ETH15_promoter007.png"width="120%"></td> | <td><img src="https://static.igem.org/mediawiki/2015/4/46/ETH15_promoter007.png"width="120%"></td> | ||
<td>Promoter designed keeping the original architecture and changing the wild-type promoter by a strong Anderson promoter (<a href="http://parts.igem.org/Part:BBa_J23100">BBa_J23100</a>)</td> | <td>Promoter designed keeping the original architecture and changing the wild-type promoter by a strong Anderson promoter (<a href="http://parts.igem.org/Part:BBa_J23100">BBa_J23100</a>)</td> | ||
| − | <td><a href="http://parts.igem.org/Part: | + | <td><a href="http://parts.igem.org/Part:BBa_K1847007">BBa_K1847007</a></td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td><img src="https://static.igem.org/mediawiki/2015/6/67/ETH15_008promoter.png"width="120%"></td> | <td><img src="https://static.igem.org/mediawiki/2015/6/67/ETH15_008promoter.png"width="120%"></td> | ||
<td>Promoter designed keeping the original architecture and changing the wild-type promoter by a weak Anderson promoter (<a href="http://parts.igem.org/Part:BBa_J23117">BBa_J23117</a>)</td> | <td>Promoter designed keeping the original architecture and changing the wild-type promoter by a weak Anderson promoter (<a href="http://parts.igem.org/Part:BBa_J23117">BBa_J23117</a>)</td> | ||
| − | <td><a href="http://parts.igem.org/Part: | + | <td><a href="http://parts.igem.org/Part:BBa_K1847008">BBa_K1847008</a></td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td><img src="https://static.igem.org/mediawiki/2015/1/16/ETH15_009promoter.png"width="120%"></td> | <td><img src="https://static.igem.org/mediawiki/2015/1/16/ETH15_009promoter.png"width="120%"></td> | ||
<td>Promoter designed keeping the original architecture and changing the wild-type promoter by a medium Anderson promoter (<a href="http://parts.igem.org/Part:BBa_J23118">BBa_J23118</a>)</td> | <td>Promoter designed keeping the original architecture and changing the wild-type promoter by a medium Anderson promoter (<a href="http://parts.igem.org/Part:BBa_J23118">BBa_J23118</a>)</td> | ||
| − | <td><a href="http://parts.igem.org/Part: | + | <td><a href="http://parts.igem.org/Part:BBa_K1847009">BBa_K1847009</a></td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td><img src="https://static.igem.org/mediawiki/2015/d/d8/ETH15_005promoter.png"width="120%"></td> | <td><img src="https://static.igem.org/mediawiki/2015/d/d8/ETH15_005promoter.png"width="120%"></td> | ||
<td>Promoter designed substituting the promoter by a non-functional DNA sequence, with an Anderson promoter placed in front of the operators (<a href="http://parts.igem.org/Part:BBa_J23117">BBa_J23117</a>)</td> | <td>Promoter designed substituting the promoter by a non-functional DNA sequence, with an Anderson promoter placed in front of the operators (<a href="http://parts.igem.org/Part:BBa_J23117">BBa_J23117</a>)</td> | ||
| − | <td><a href="http://parts.igem.org/Part: | + | <td><a href="http://parts.igem.org/Part:BBa_K1847005">BBa_K1847005</a></td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td><img src="https://static.igem.org/mediawiki/2015/c/c6/ETH15_006promoter.png"width="120%"></td> | <td><img src="https://static.igem.org/mediawiki/2015/c/c6/ETH15_006promoter.png"width="120%"></td> | ||
<td>romoter designed substituting the promoter by a non-functional DNA sequence, with an Anderson promoter placed in front of the operators (<a href="http://parts.igem.org/Part:BBa_J23118">BBa_J23118</a>)</td> | <td>romoter designed substituting the promoter by a non-functional DNA sequence, with an Anderson promoter placed in front of the operators (<a href="http://parts.igem.org/Part:BBa_J23118">BBa_J23118</a>)</td> | ||
| − | <td><a href="http://parts.igem.org/Part: | + | <td><a href="http://parts.igem.org/Part:BBa_K1847006">BBa_K1847006 </a></td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
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<td><img src="https://static.igem.org/mediawiki/2015/1/13/ETH15_003promoter.png" width="120%"></td> | <td><img src="https://static.igem.org/mediawiki/2015/1/13/ETH15_003promoter.png" width="120%"></td> | ||
<td>In this design, the spacing between the two operator sites was removed, and the Anderson promoter was placed in front of the operators (<a href="http://parts.igem.org/Part:BBa_J23117">BBa_J23117</a>)</td> | <td>In this design, the spacing between the two operator sites was removed, and the Anderson promoter was placed in front of the operators (<a href="http://parts.igem.org/Part:BBa_J23117">BBa_J23117</a>)</td> | ||
| − | <td><a href="http://parts.igem.org/Part: | + | <td><a href="http://parts.igem.org/Part:BBa_K1847003">BBa_K1847003</a></td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td><img src="https://static.igem.org/mediawiki/2015/1/15/ETH15_004promoter.png"width="120%"></td> | <td><img src="https://static.igem.org/mediawiki/2015/1/15/ETH15_004promoter.png"width="120%"></td> | ||
<td>In this design, the spacing between the two operator sites was removed, and the Anderson promoter was placed in front of the operators (<a href="http://parts.igem.org/Part:BBa_J23118">BBa_J23118</a>)</td> | <td>In this design, the spacing between the two operator sites was removed, and the Anderson promoter was placed in front of the operators (<a href="http://parts.igem.org/Part:BBa_J23118">BBa_J23118</a>)</td> | ||
| − | <td><a href="http://parts.igem.org/Part: | + | <td><a href="http://parts.igem.org/Part:BBa_K1847004">BBa_K1847004</a></td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td><img src="https://static.igem.org/mediawiki/2015/c/c1/Promoter010.svg"width="120%"></td> | <td><img src="https://static.igem.org/mediawiki/2015/c/c1/Promoter010.svg"width="120%"></td> | ||
<td>The original P<sub>lldR</sub> was substituted by P<sub>lac</sub> and lacO.</td> | <td>The original P<sub>lldR</sub> was substituted by P<sub>lac</sub> and lacO.</td> | ||
| − | <td> <a href="http://parts.igem.org/Part: | + | <td> <a href="http://parts.igem.org/Part:BBa_K1847010">BBa_K1847010</a></td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td><img src="https://static.igem.org/mediawiki/2015/b/b1/Promoter011.svg"width="120%"></td> | <td><img src="https://static.igem.org/mediawiki/2015/b/b1/Promoter011.svg"width="120%"></td> | ||
<td>The original P<sub>lldR</sub> was substituted by P<sub>lacUV5</sub> and lacO.</td> | <td>The original P<sub>lldR</sub> was substituted by P<sub>lacUV5</sub> and lacO.</td> | ||
| − | <td> <a href="http://parts.igem.org/Part: | + | <td> <a href="http://parts.igem.org/Part:BBa_K1847011">BBa_K1847011</a></td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
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<td><img src="https://static.igem.org/mediawiki/2015/2/24/Promoter013.svg"width="120%"></td> | <td><img src="https://static.igem.org/mediawiki/2015/2/24/Promoter013.svg"width="120%"></td> | ||
<td>P<sub>lac</sub> and lacO</td> | <td>P<sub>lac</sub> and lacO</td> | ||
| − | <td> <a href="http://parts.igem.org/Part: | + | <td> <a href="http://parts.igem.org/Part:BBa_K1847013">BBa_K1847013</a></td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td><img src="https://static.igem.org/mediawiki/2015/a/a0/Promoter014.svg"width="120%"></td> | <td><img src="https://static.igem.org/mediawiki/2015/a/a0/Promoter014.svg"width="120%"></td> | ||
<td>P<sub>lacUV5</sub> and lacO</td> | <td>P<sub>lacUV5</sub> and lacO</td> | ||
| − | <td> <a href="http://parts.igem.org/Part: | + | <td> <a href="http://parts.igem.org/Part:BBa_K1847014">BBa_K1847014</a></td> |
</tr> | </tr> | ||
</table> | </table> | ||
| Line 160: | Line 160: | ||
<td>Synthetically designed hybrid promoter</td> | <td>Synthetically designed hybrid promoter</td> | ||
<td>Synthetic promoter inhibited by lactate and IPTG.</td> | <td>Synthetic promoter inhibited by lactate and IPTG.</td> | ||
| − | <td> <a href="http://parts.igem.org/Part: | + | <td> <a href="http://parts.igem.org/Part:BBa_K1847010">BBa_K1847010</a></td> |
</tr> | </tr> | ||
</table> | </table> | ||
Revision as of 20:24, 18 September 2015
- Project
- Modeling
- Lab
- Human
Practices - Parts
- About Us
Parts
For completing our project, we required of many parts. Some of these parts where used from the Registry, others were designed and cloned for this project. In the following section, you can see these parts.
Overview of our genetic design.
BBa_K1847010. Hybrid promoter that is responsive to both IPTG and lactate.
BBa_K2847008. Promoter that shows an improved performance when compared with the natural PlldR
Our part collection
We designed a promoter library based on the wild-type PlldR (BBa_K822000). You can check our results using this promoters here
Regulatory system design |
Content |
BioBrick |
|---|---|---|
 |
Promoter designed keeping the original architecture and changing the wild-type promoter by a strong Anderson promoter (BBa_J23100) | BBa_K1847007 |
 |
Promoter designed keeping the original architecture and changing the wild-type promoter by a weak Anderson promoter (BBa_J23117) | BBa_K1847008 |
 |
Promoter designed keeping the original architecture and changing the wild-type promoter by a medium Anderson promoter (BBa_J23118) | BBa_K1847009 |
 |
Promoter designed substituting the promoter by a non-functional DNA sequence, with an Anderson promoter placed in front of the operators (BBa_J23117) | BBa_K1847005 |
 |
romoter designed substituting the promoter by a non-functional DNA sequence, with an Anderson promoter placed in front of the operators (BBa_J23118) | BBa_K1847006 |
 |
In this design, the spacing between the two operator sites was removed, and the Anderson promoter was placed in front of the operators (BBa_J23100) | BBa_K1847002 |
 |
In this design, the spacing between the two operator sites was removed, and the Anderson promoter was placed in front of the operators (BBa_J23117) | BBa_K1847003 |
 |
In this design, the spacing between the two operator sites was removed, and the Anderson promoter was placed in front of the operators (BBa_J23118) | BBa_K1847004 |
 |
The original PlldR was substituted by Plac and lacO. | BBa_K1847010 |
 |
The original PlldR was substituted by PlacUV5 and lacO. | BBa_K1847011 |
 |
The original PlldR was substituted by a spacer and Plac and lacO were located in front of the promoter. | BBa_K1847012 |
 |
Plac and lacO | BBa_K1847013 |
 |
PlacUV5 and lacO | BBa_K1847014 |
Our new basic parts
In this section we present LldR and LldP, a regulator protein and a transporter protein, respectively, as well as a synthetically designed hybrid promoter responsive to lactate and IPTG.
Part |
Content |
Registry number |
|---|---|---|
| LldR | Sequence encoding the regulator protein LldR. | BBa_K1847001 |
| LldP-LldR | Sequence encoding the L-lactate permease LldP and the regulator protein LldR. | BBa_K1847016 |
| Synthetically designed hybrid promoter | Synthetic promoter inhibited by lactate and IPTG. | BBa_K1847010 |
Our new composite parts
Our composite parts are from our binding system to E. coli.You can read about our experiments with bacterial binding here.
Part |
Content |
Registry number |
|---|---|---|
| Annexin V | Promoter J23114-RBS B0034- Annexin V optimized for Escherichia coli | BBa_K1847000 |
| INP-Annexin V | Promoter J23114-RBS B0034- INP-Annexin V fusion protein | BBa_K1847015 |
Newly characterized parts of the Registry
Here we present the parts from the Registry where we improved the existing characterization.
Part Name |
Description |
Registry Number |
|---|---|---|
| aiiA | Autoinducer inactivation enzyme aiiA (enzyme that inactivates the acylhomoserine lactone (AHL) quorum-sensing signal). Check out our characterization for aiiA! | BBa_C0160 |
| pLldR | lldPRD operon promoter + RBS from E. coli. In the absence of L-lactate, lldR binds to two operator sites O1 and O2 in the promoter region and inhibits expression. Check out our characterization for pLldR! We also improved the existing promoter by removing the ArcA site and obtained an increased ON/OFF ratio by changing the promoter strength. | BBa_K822000 |
Used parts from of the Registry
In this section we present other parts from the Registry that we used during our project.
Part Name |
Description |
Registry Number |
INP-EYFP | Fusion of Ice Nucleation Protein (INP) and Enhanced Yellow Fluorescent Protein (EYFP). Check out our use of INP! | BBa_K523013 |
|---|---|---|
| lacI + LVA | lacI repressor from E. coli (+LVA) | BBa_C0012 |
| pLuxR | Promoter activated by the LuxR protein complexed with the autoinducer homoserine lactone (HSL) | BBa_R0062 |
| cI | cI repressor from E. coli phage lambda modified with an LVA tail for rapid degradation of the protein | BBa_C0051 |
| HylA | HlyA-tag+Secretion system, allows a protein to be secreted by means of the alpha-hemolysin secretion system in E. coli | BBa_K1166002 |
| InterLab 1 strong promoter | Anderson promoter J23101 from the Anderson collection | BBa_K823005 (BBa_J23101) |
| InterLab 2 medium-strong promoter | Anderson promoter J23106 from the Anderson collection | BBa_K823008 (BBa_J23106) |
| terminator | Transcription terminator for the E.coli RNA polymerase | BBa_B0012 |
| double terminator | Double terminator consisting of BBa_B0010 and BBa_B0012 | BBa_B0015 |
| very strong promoter | Strong member of the family of promoters J23100 through J23119 | BBa_J23100 |
| gfp (InterLab) | intermediate in screening plasmid construction containing GFP | BBa_I13504 |
| medium promoter | Medium member of the family of promoters J23100 through J23119 | BBa_J23118 |
| LuxI | autoinducer synthetase for acylhomoserine lactone (AHL), no LVA | BBa_C0161 |
| InterLab 3 weak promoter | Anderson promoter J23117 from the Anderson collection | BBa_K823013 (BBa_J23117) |
| promoter medium-weak | Medium-weak member of the family of promoters J23100 through J23119 | BBa_J23114 |
| RBS | RBS.3 (medium) derivative of BBa_0030 | BBa_B0032 |
| promoter plus GFP (InterLab control) | J23151 inserted in the Promoter MeasKit | BBa_I20270 |
| terminator | Artificial terminator, estimated %T~>90% | BBa_B1006 |
We would like to thank our sponsors
