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{{ETH_Zurich}} | {{ETH_Zurich}} | ||
+ | {{:Template:ETH_Zurich/math}} | ||
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</ul> | </ul> | ||
− | <div class="sec page_title"> | + | <div class="sec page_title" id="top"> |
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<h1>REPORTER MODULE</h1> | <h1>REPORTER MODULE</h1> | ||
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<div> | <div> | ||
<h2>OVERVIEW</h2> | <h2>OVERVIEW</h2> | ||
+ | <div class="image_box" style="max-width: 400px;"> | ||
+ | <a href="https://static.igem.org/mediawiki/2016/6/68/T--ETH_Zurich--model_structure_reporter.svg"> | ||
+ | <img src="https://static.igem.org/mediawiki/2016/6/68/T--ETH_Zurich--model_structure_reporter.svg"> | ||
+ | </a> | ||
+ | <p><b>Figure 1:</b> Schematic of the reporter of our circuit.</p> | ||
+ | </div> | ||
+ | <p>The reporter is the component of the circuit that enables readout of the stored information. The state of the switch is displayed by two different fluorescent proteins: sfGFP is expressed by DNA that has been switched, while DNA that didn't switch expresses mNectarine.</p> | ||
+ | <p>In order to implement multiplexing, the reporter proteins are expressed only when they are induced by the same candidate marker that triggered the switch.</p> | ||
+ | </div> | ||
+ | </div> | ||
+ | <div class="sec white three_columns paddingless"> | ||
+ | <div class="quicklinks"> | ||
+ | <div> | ||
+ | <ul> | ||
+ | <li class="outline_item"><a href="#goals"> | ||
+ | <img src="https://static.igem.org/mediawiki/2016/7/72/T--ETH_Zurich--arrow.svg">GOALS</a> | ||
+ | </li> | ||
+ | </ul> | ||
+ | </div> | ||
+ | <div> | ||
+ | <ul> | ||
+ | <li class="outline_item"><a href="#model"> | ||
+ | <img src="https://static.igem.org/mediawiki/2016/7/72/T--ETH_Zurich--arrow.svg">MODEL</a> | ||
+ | </li> | ||
+ | </ul> | ||
+ | </div> | ||
+ | <div style="padding-bottom:12px;"> | ||
+ | <ul> | ||
+ | <li class="outline_item"><a href="#results"> | ||
+ | <img src="https://static.igem.org/mediawiki/2016/7/72/T--ETH_Zurich--arrow.svg">RESULTS</a> | ||
+ | </li> | ||
+ | </ul> | ||
+ | </div> | ||
</div> | </div> | ||
</div> | </div> | ||
− | <div class="sec light_grey" id="goals"> | + | <div class="sec light_grey title_only" id="goals"> |
<div> | <div> | ||
<h2>GOALS</h2> | <h2>GOALS</h2> | ||
+ | </div> | ||
+ | </div> | ||
+ | <div class="sec light_grey two_columns content_only"> | ||
+ | <div> | ||
+ | <div> | ||
+ | <ul> | ||
+ | <li>Assist the design of the reporter.</li> | ||
+ | </ul> | ||
+ | </div> | ||
+ | <div> | ||
+ | <ul> | ||
+ | <li>Characterize the reporter proteins.</li> | ||
+ | </ul> | ||
+ | </div> | ||
</div> | </div> | ||
</div> | </div> | ||
Line 34: | Line 82: | ||
<div> | <div> | ||
<h2>MODEL</h2> | <h2>MODEL</h2> | ||
+ | <p>Our reporter system consist in two fluorenscent proteins that show the state of the switch. After induction, a switched plasmid expresses GFP, while a plasmid in it's original state expresses mNectarine. </p> | ||
+ | <div class="image_box full_size" style="max-width:500px;"> | ||
+ | <a href="https://static.igem.org/mediawiki/2016/d/dd/T--ETH_Zurich--reporter_design.svg"> | ||
+ | <img src="https://static.igem.org/mediawiki/2016/d/dd/T--ETH_Zurich--reporter_design.svg"> | ||
+ | </a> | ||
+ | <p><b>Figure 2:</b> Biological implementation of the integrase reporter. The figure shows both the switched and non switched state. Expression of the reporter proteins is repressed by default and induced in presence of the candidate marker.</p> | ||
+ | </div> | ||
+ | <p>The following section describes the species and reactions involved:</p> | ||
+ | </div> | ||
+ | </div> | ||
+ | <div class="sec white two_columns content_only"> | ||
+ | <div> | ||
+ | <div> | ||
+ | <h4>REACTIONS</h4> | ||
+ | \begin{align*} | ||
+ | 1) & P_{mNect} & \rightarrow P_{mNect} + mRNA_{mNect} \\ | ||
+ | 2) & P_{sfGFP} & \rightarrow P_{sfGFP} + mRNA_{sfGFP} \\ | ||
+ | 3) & mRNA_{mNect} & \rightarrow mRNA_{mNect} + mNect \\ | ||
+ | 4) & mRNA_{sfGFP} & \rightarrow mRNA_{sfGFP} + sfGFP \\ | ||
+ | 5) & mRNA_{mNect} & \rightarrow \\ | ||
+ | 6) & mRNA_{sfGFP} & \rightarrow \\ | ||
+ | 7) & mNect & \rightarrow \\ | ||
+ | 8) & sfGFP & \rightarrow \\ | ||
+ | \end{align*} | ||
+ | </div> | ||
+ | |||
+ | <div> | ||
+ | <h4>SPECIES</h4> | ||
+ | <table> | ||
+ | <tr> | ||
+ | <th>Name </th> | ||
+ | <th>Description </th> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td>P<sub>mNect</sub></td> | ||
+ | <td>Non switched promoter, facing the mNect gene.</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td>P<sub>sfGFP</sub></td> | ||
+ | <td>Switched promoter, facing the sfGFP gene.</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td>mRNA<sub>mNect</sub></td> | ||
+ | <td>mRNA of the mNectarine protein.</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td>mRNA<sub>sfGFP</sub></td> | ||
+ | <td>mRNA of the sfGFP protein.</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td>mNect</td> | ||
+ | <td>mNectarine fluorescent protein.</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td>sfGFP</td> | ||
+ | <td>Superfolder GFP protein.</td> | ||
+ | </tr> | ||
+ | </table> | ||
+ | </div> | ||
+ | </div> | ||
+ | </div> | ||
+ | <div class="sec white two_columns content_only"> | ||
+ | <div> | ||
+ | <div> | ||
+ | <h4>ODEs:</h4> | ||
+ | \begin{align*} | ||
+ | |||
+ | P_{mNect} & \rightarrow P_{mNect} + mRNA_{mNect} \\ | ||
+ | P_{sfGFP} & \rightarrow P_{sfGFP} + mRNA_{sfGFP} \\ | ||
+ | mRNA_{mNect} & \rightarrow mRNA_{mNect} + mNect \\ | ||
+ | mRNA_{sfGFP} & \rightarrow mRNA_{sfGFP} + sfGFP \\ | ||
+ | mRNA_{mNect} & \rightarrow \\ | ||
+ | mRNA_{sfGFP} & \rightarrow \\ | ||
+ | mNect & \rightarrow \\ | ||
+ | sfGFP & \rightarrow \\ | ||
+ | \end{align*} | ||
+ | </div> | ||
+ | |||
+ | <div> | ||
+ | <h4>PARAMETERS</h4> | ||
+ | <table> | ||
+ | <tr> | ||
+ | <th>Name </th> | ||
+ | <th>Description </th> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td>P<sub>mNect</sub></td> | ||
+ | <td>Non switched promoter, facing the mNect gene.</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td>P<sub>sfGFP</sub></td> | ||
+ | <td>Switched promoter, facing the sfGFP gene.</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td>mRNA<sub>mNect</sub></td> | ||
+ | <td>mRNA of the mNectarine protein.</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td>mRNA<sub>sfGFP</sub></td> | ||
+ | <td>mRNA of the sfGFP protein.</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td>mNect</td> | ||
+ | <td>mNectarine fluorescent protein.</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td>sfGFP</td> | ||
+ | <td>Superfolder GFP protein.</td> | ||
+ | </tr> | ||
+ | </table> | ||
+ | </div> | ||
</div> | </div> | ||
</div> | </div> | ||
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<div> | <div> | ||
<h2>RESULTS</h2> | <h2>RESULTS</h2> | ||
+ | <h3></h3> | ||
+ | <p></p> | ||
</div> | </div> | ||
</div> | </div> |
Revision as of 22:38, 15 October 2016
REPORTER MODULE
OVERVIEW
The reporter is the component of the circuit that enables readout of the stored information. The state of the switch is displayed by two different fluorescent proteins: sfGFP is expressed by DNA that has been switched, while DNA that didn't switch expresses mNectarine.
In order to implement multiplexing, the reporter proteins are expressed only when they are induced by the same candidate marker that triggered the switch.
GOALS
- Assist the design of the reporter.
- Characterize the reporter proteins.
MODEL
Our reporter system consist in two fluorenscent proteins that show the state of the switch. After induction, a switched plasmid expresses GFP, while a plasmid in it's original state expresses mNectarine.
Figure 2: Biological implementation of the integrase reporter. The figure shows both the switched and non switched state. Expression of the reporter proteins is repressed by default and induced in presence of the candidate marker.
The following section describes the species and reactions involved:
REACTIONS
\begin{align*} 1) & P_{mNect} & \rightarrow P_{mNect} + mRNA_{mNect} \\ 2) & P_{sfGFP} & \rightarrow P_{sfGFP} + mRNA_{sfGFP} \\ 3) & mRNA_{mNect} & \rightarrow mRNA_{mNect} + mNect \\ 4) & mRNA_{sfGFP} & \rightarrow mRNA_{sfGFP} + sfGFP \\ 5) & mRNA_{mNect} & \rightarrow \\ 6) & mRNA_{sfGFP} & \rightarrow \\ 7) & mNect & \rightarrow \\ 8) & sfGFP & \rightarrow \\ \end{align*}SPECIES
Name | Description |
---|---|
PmNect | Non switched promoter, facing the mNect gene. |
PsfGFP | Switched promoter, facing the sfGFP gene. |
mRNAmNect | mRNA of the mNectarine protein. |
mRNAsfGFP | mRNA of the sfGFP protein. |
mNect | mNectarine fluorescent protein. |
sfGFP | Superfolder GFP protein. |
ODEs:
\begin{align*} P_{mNect} & \rightarrow P_{mNect} + mRNA_{mNect} \\ P_{sfGFP} & \rightarrow P_{sfGFP} + mRNA_{sfGFP} \\ mRNA_{mNect} & \rightarrow mRNA_{mNect} + mNect \\ mRNA_{sfGFP} & \rightarrow mRNA_{sfGFP} + sfGFP \\ mRNA_{mNect} & \rightarrow \\ mRNA_{sfGFP} & \rightarrow \\ mNect & \rightarrow \\ sfGFP & \rightarrow \\ \end{align*}PARAMETERS
Name | Description |
---|---|
PmNect | Non switched promoter, facing the mNect gene. |
PsfGFP | Switched promoter, facing the sfGFP gene. |
mRNAmNect | mRNA of the mNectarine protein. |
mRNAsfGFP | mRNA of the sfGFP protein. |
mNect | mNectarine fluorescent protein. |
sfGFP | Superfolder GFP protein. |
RESULTS