|
|
Line 24: |
Line 24: |
| <div class="modal-close"></div> | | <div class="modal-close"></div> |
| <div class="modal-content"> | | <div class="modal-content"> |
− | <h1>Description</h1> | + | <h1>Proof</h1> |
− | <p></p> | + | <p>The proof of SynDrop’s concept consists of several critical steps:</p> |
− | <p></p>
| + | <ul> |
− | <h2>What is SynORI?</h2>
| + | <li>We have specified the parameters for cell-sized liposome (5-30 µm) synthesis by using our COMSOL model.</li> |
− | <p>SynORI stands for synthetic origin of replication. It is a framework designed to make working with single
| + | </ul> |
− | and multi-plasmid systems precise, easy and on top of that - more functional.</p>
| + | |
− | <p>The SynORI framework enables scientists to build a multi-plasmid system in a standardized manner by:</p>
| + | |
− | <ol>
| + | |
− | <li>Selecting the number of plasmid groups</li>
| + | |
− | <li>Choosing the copy number of each group</li>
| + | |
− | <li>Picking the type of copy number control (specific to one group or regulating all of them at once).</li>
| + | |
| | | |
− | </ol>
| + | <p>We have concluded that modifications to microfluidic channels affect our system the most (5 µm change in width increased liposome diameter by almost 6 µm), while viscosity and flow rate regulations proved to be an efficient way to fine-tune liposome size in a range of few micrometers (Fig. 1). Moreover, critical value of flow rate ratio was found (Q = 0.7), at which liposomes stopped forming. |
− | </p>
| + | </p> |
| | | |
− | <p></p>
| + | <div class="image-container"> |
− | <p>The framework also includes a possibility of adding a selection system that reduces the usage of antibiotics
| + | <img src="https://static.igem.org/mediawiki/2018/e/ed/T--Vilnius-Lithuania--dv_fig1a_Model.gif" style="max-width:100%" /> |
− | (only 1 antibiotic for up to 5 different plasmids!) and an active partitioning system to make sure that low
| + | <p><strong>Fig. 1 </strong> Visual representation of liposome formation based on baseline experimental parametric values. Phase variables A, B and C here have values of 1, 2 and 3 respectively.</p> |
− | copy number plasmid groups are not lost during the division.
| + | </div> |
− | </p>
| + | |
− | <p></p>
| + | |
− | <div class="img-cont">
| + | |
− | <img src="https://static.igem.org/mediawiki/parts/8/84/Collect.png" alt="img">
| + | |
− | <div class="img-label">
| + | |
− | </div>
| + | |
− | </div>
| + | |
− | <h2>Applications</h2>
| + | |
− | <p>
| + | |
− | <h5>Everyday lab work</h5>
| + | |
− | <p>
| + | |
− | A multi-plasmid system that is easy to assemble and control. With our framework the need to limit your
| + | |
− | research to a particular plasmid copy number just because there are not enough right replicons to
| + | |
− | choose from, is eliminated. With SynORI you can easily create a vector with a desired copy number that
| + | |
− | suits your needs.</li>
| + | |
− | </p>
| + | |
− | <h5>Biological computing</h5>
| + | |
− | <p>
| + | |
− | The ability to choose a wide range of copy number options and their control types will make the
| + | |
− | synthetic biology engineering much more flexible and predictable. Introduction of plasmid copy number
| + | |
− | regulation is equivalent to adding a global parameter to a computer system. It enables the coordination
| + | |
− | of multiple gene group expression.
| + | |
− | </p>
| + | |
− | <h5>Smart assembly of large protein complexes</h5>
| + | |
− | <p>
| + | |
− | The co-expression of multi-subunit complexes using different replicons brings incoherency to an already
| + | |
− | chaotic cell system. This can be avoided by using SynORI, as in this framework every plasmid group uses
| + | |
− | the same type of control, and in addition can act in a group-specific manner.</p>
| + | |
− | | + | |
− | <h5>Metabolic engineering</h5>
| + | |
− | <p>
| + | |
− | A big challenge for heterologous expression of multiple gene pathways is to accurately adjust the
| + | |
− | levels of each enzyme to achieve optimal production efficiency. Precise promoter tuning in
| + | |
− | transcriptional control and synthetic ribosome binding sites in translational control are already
| + | |
− | widely used to maintain expression levels. In addition to current approaches, our framework allows a
| + | |
− | simultaneous multiple gene control. Furthermore, an inducible regulation that we offer, can make the
| + | |
− | search for perfect conditions a lot easier.
| + | |
− | | + | |
− | | + | |
− | | + | |
− | </p>
| + | |
− | | + | |
− | | + | |
− | </p>
| + | |
− | <p>
| + | |
− | </p>
| + | |
− | <table style="width:100%">
| + | |
− | <thead>
| + | |
− | <td align='center'>Species sign in ODE system</td>
| + | |
− | <td align='center'>Species</td>
| + | |
− | <td align='center'>Initial concentration (M)</td>
| + | |
− | </thead>
| + | |
− | <tbody>
| + | |
− | <tr>
| + | |
− | <td align='center'>A</td>
| + | |
− | <td align='center'>pDNA+RNA I+RNAII early</td>
| + | |
− | <td align='center'>0</td>
| + | |
− | </tr>
| + | |
− | <tr>
| + | |
− | <td align='center'>B</td>
| + | |
− | <td align='center'>pDNA+RNA II short</td>
| + | |
− | <td align='center'>0</td>
| + | |
− | </tr>
| + | |
− | <tr>
| + | |
− | <td align='center'>RNAI</td>
| + | |
− | <td align='center'>RNA I</td>
| + | |
− | <td align='center'>1E-6</td>
| + | |
− | </tr>
| + | |
− | <tr>
| + | |
− | <td align='center'>D</td>
| + | |
− | <td align='center'>pDNA+RNA II long</td>
| + | |
− | <td align='center'>0</td>
| + | |
− | </tr>
| + | |
− | <tr>
| + | |
− | <td align='center'>E</td>
| + | |
− | <td align='center'>pDNA+RNAII primer</td>
| + | |
− | <td align='center'>0</td>
| + | |
− | </tr>
| + | |
− | <tr>
| + | |
− | <td align='center'>F</td>
| + | |
− | <td align='center'>RNA II long</td>
| + | |
− | <td align='center'>0</td>
| + | |
− | </tr>
| + | |
− | <tr>
| + | |
− | <td align='center'>G</td>
| + | |
− | <td align='center'>pDNA</td>
| + | |
− | <td align='center'>4E-8*</td>
| + | |
− | </tr>
| + | |
− | <tr>
| + | |
− | <td align='center'>H</td>
| + | |
− | <td align='center'>pDNA+RNA II+RNA I late</td>
| + | |
− | <td align='center'>0</td>
| + | |
− | </tr>
| + | |
− | <tr>
| + | |
− | <td align='center'>RNA II</td>
| + | |
− | <td align='center'>RNA II</td>
| + | |
− | <td align='center'>0</td>
| + | |
− | </tr>
| + | |
− | <tr>
| + | |
− | <td align='center'>J</td>
| + | |
− | <td align='center'>RNAI+RNAII</td>
| + | |
− | <td align='center'>0</td>
| + | |
− | </tr>
| + | |
− | </tbody>
| + | |
− | </table> | + | |
| </div> | | </div> |
| </div> | | </div> |