Difference between revisions of "Team:Marburg"

 
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    setTimeout(function () {
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        $(".glitch").removeClass("glitch");
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      }, 1500);
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<div class="column full_size" >
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    function inViewport(element) {
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<h1> Welcome to iGEM 2019! </h1>
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      var bb = element.getBoundingClientRect();
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<p>Your team has been approved and you are ready to start the iGEM season! </p>
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      return !(bb.top > (innerHeight - 150) || bb.bottom < 50);
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    }
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    document.querySelector(".main").addEventListener("scroll", function (event) {
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<img src="https://placehold.it/1080x320">
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      var strain = document.querySelector(".main").querySelector("#strain");
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      var toolbox = document.querySelector(".main").querySelector("#toolbox");
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      var measurement = document.querySelector(".main").querySelector("#measurement");
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</div>
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      var automation = document.querySelector(".main").querySelector("#automation");
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      var awards = document.querySelector(".main").querySelector("#awards");
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      strain.style.opacity = inViewport(strain) ? "1" : "0";
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<div class="column full_size" >
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      toolbox.style.opacity = inViewport(toolbox) ? "1" : "0";
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      measurement.style.opacity = inViewport(measurement) ? "1" : "0";
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<h3>Before you start</h3>
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      automation.style.opacity = inViewport(automation) ? "1" : "0";
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<p> Please read the following pages:</p>
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      awards.style.opacity = inViewport(awards) ? "1" : "0";
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<ul>
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    })
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<li> <a href="https://2019.igem.org/Competition">Competition Hub</a> </li>
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  </script>
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<li> <a href="https://2019.igem.org/Competition/Deliverables/Wiki">Wiki Requirements page</a></li>
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  <div>
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<li> <a href="https://2019.igem.org/Resources/Template_Documentation">Template documentation</a></li>
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    <div class="hero-wrapper">
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</ul>
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      <video playsinline autoplay muted loop>
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</div>
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        <source src="https://static.igem.org/mediawiki/2019/5/5f/T--Marburg--hero_video.mp4" type="video/mp4">
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      </video>
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      <div class="words">
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<div class="clear extra_space"></div>
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        <p class="word glitch" data-text="F A S T E S T .">
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          F A S T E S T .
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        </p>
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        <p class="word glitch" data-text="P H O T O T R O P H I C .">
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          P H O T O T R O P H I C .
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        </p>
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<div class="column full_size" >
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        <p class="word glitch" data-text="O R G A N I S M .">
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<h3> Styling your wiki </h3>
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          O R G A N I S M .
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<p>You may style this page as you like or you can simply leave the style as it is. You can easily keep the styling and edit the content of these default wiki pages with your project information and completely fulfill the requirement to document your project.</p>
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        </p>
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<p>While you may not win Best Wiki with this styling, your team is still eligible for all other awards. This default wiki meets the requirements, it improves navigability and ease of use for visitors, and you should not feel it is necessary to style beyond what has been provided.</p>  
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      </div>
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      <img class="bobbel" src="https://static.igem.org/mediawiki/2019/a/a6/T--Marburg--bobbel.svg"
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</div>
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        onclick="$('.main').animate({ scrollTop: window.innerHeight - 52 }, 500);">
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    </div>
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    <div class="hero-text">
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      <p class="hero-first">
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        By providing the fastest growing phototrophic chassis to the community, we are paving the way for other
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<div class="clear extra_space"></div>
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        phototrophic organisms in Synthetic Biology.
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      </p>
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      <hr class="line" style="transform: unset;">
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      <p class="hero-second">
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<div class="column third_size" >
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        We created an easy to use toolbox for <i>Synechococcus elongatus</i> UTEX 2973 to empower rapid design
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        testing, including genome engineering tools, self-replicating plasmid systems, natural competence and a Golden
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<h3> Uploading pictures and files </h3>
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        Gate-based part library. By providing the fastest growing phototrophic chassis with a doubling time of <b>under 80 minutes</b> to the community, we are paving the way
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<p> You must upload any pictures and files to the iGEM 2019 server. Remember to keep all your pictures and files within your team's namespace or at least include your team's name in the file name. </p>
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        for other phototrophic organisms in Synthetic Biology.
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      </p>
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    </div>
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<p>When you upload, set the "Destination Filename" to <b> T--YourOfficialTeamName--NameOfFile.jpg</b>. (If you don't do this, someone else might upload a different file with the same "Destination Filename", and your file would be erased!)</p>
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    <div>
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      <div class="box-light">
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<div class="button_link">
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        <img id="strain" src="https://static.igem.org/mediawiki/2019/9/91/T--Marburg--hero_strain.jpg"
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<a href="https://2019.igem.org/Special:Upload">
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          alt="Strain Engineering Photo" style="margin-top: unset !important;">
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UPLOAD FILES
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      </div>
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</a>
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      <div class="box-dark left">
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</div>
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        <img src="https://static.igem.org/mediawiki/2019/6/6f/T--Marburg--logo_strain.svg" class="logo"
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          alt="Strain Engineering Logo">
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</div>
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        <h1 class="heading">
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          S T R A I N
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<div class="column third_size" >
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          <br><br>
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<h3> Wiki template information </h3>
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          E N G I N E E R I N G
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<p>We have created these wiki template pages to help you get started and to help you think about how your team will be evaluated. You can find a list of all the pages tied to awards here at the <a href="https://2019.igem.org/Judging/Pages_for_Awards">Pages for awards</a> link. You must edit these pages to be evaluated for medals and awards, but ultimately the design, layout, style and all other elements of your team wiki is up to you!</p>
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        </h1>
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        <hr class="line">
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</div>  
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        <p class="text">
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          We created an "easy to use" phototrophic chassis by restoring the natural competence of <i>S. elongatus</i>
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          UTEX 2973 in order to enormously simplify the transformation process. We established a genome modification
−
 
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          system via the CRISPR/Cas12a and enabled the usage of self-replicating plasmids overcoming the drawbacks of time
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<div class="column third_size" >
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          intensive genome integration for genetic design testing.
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<div class="highlight decoration_B_full">
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        </p>
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<h3> Editing your wiki </h3>
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      </div>
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<p>On this page you can document your project, introduce your team members, document your progress and share your iGEM experience with the rest of the world! </p>  
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    </div>
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<p>Use WikiTools - Edit in the black menu bar to edit this page</p>
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    <div>
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      <div class="box-light">
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<div class="button_link">
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        <img id="toolbox" src="https://static.igem.org/mediawiki/2019/c/ca/T--Marburg--hero_toolbox.jpg" alt="Toolbox Photo">
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<a href="https://2019.igem.org/wiki/index.php?title=Team:Marburg&action=edit">  
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      </div>
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EDIT PAGE
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      <div class="box-dark right">
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</a>
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        <img src="https://static.igem.org/mediawiki/2019/a/a9/T--Marburg--logo_toolbox.svg" class="logo" alt="Toolbox Logo">
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</div>
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        <h1 class="heading">
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          T O O L B O X
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        </h1>
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</div>
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        <hr class="line">
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</div>
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        <p class="text">
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          We constructed the green expansion, a set of biobricks to accompany our new chassis. It contains the first
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          MoClo compatible shuttle vector for cyanobacteria. Additionally users can design plasmids for genomic
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          integrations using novel rationally designed integration sites. To improve standardization in phototrophic
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          research we deliver standardized measurement entry vectors to test BioBricks in cyanobacteria.
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        </p>
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<div class="clear extra_space"></div>
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      </div>
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<div class="line_divider"></div>
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    </div>
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<div class="clear extra_space"></div>
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    <div>
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      <div class="box-light">
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        <img id="measurement" src="https://static.igem.org/mediawiki/2019/c/c3/T--Marburg--hero_measurement.jpg"
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          alt="Measurement Photo">
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<div class="column two_thirds_size" >
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      </div>
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<h3>Tips</h3>
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      <div class="box-dark left">
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<p>This wiki will be your team’s first interaction with the rest of the world, so here are a few tips to help you get started: </p>
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        <img src="https://static.igem.org/mediawiki/2019/8/8a/T--Marburg--logo_measurement.svg" class="logo"
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<ul>
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          alt="Measurement Logo">
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<li>State your accomplishments! Tell people what you have achieved from the start. </li>
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        <h1 class="heading" style="margin-top: 3em;">
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<li>Be clear about what you are doing and how you plan to do this.</li>
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          M E A S U R E M E N T
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<li>You have a global audience! Consider the different backgrounds that your users come from.</li>
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        </h1>
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<li>Make sure information is easy to find; nothing should be more than 3 clicks away.  </li>
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        <hr class="line">
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<li>Avoid using very small fonts and low contrast colors; information should be easy to read.  </li>
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        <p class="text">
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<li>Start documenting your project as early as possible; don’t leave anything to the last minute before the Wiki Freeze. For a complete list of deadlines visit the <a href="https://2019.igem.org/Calendar">iGEM 2019 calendar</a> </li>
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          Following the call for long needed standardization in the cyanobacterial community, we ventured out to rationalize important measurements hugely affecting the growth of our cultures. As using fluorescence for part characterization proves difficult in self-fluorescent cyanobacteria, we showed that the use of bioluminescence reporters as well as the use of flow cytometry offer promising alternatives to improve these characterizations.
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<li>Have lots of fun! </li>
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        </p>
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</ul>  
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      </div>
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</div>
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    </div>
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    <div>
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      <div class="box-light">
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<div class="column third_size">
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        <img id="automation" src="https://static.igem.org/mediawiki/2019/f/f9/T--Marburg--hero_automation.jpg"
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<div class="highlight decoration_A_full">
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          alt="Automation Photo">
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<h3>Inspiration</h3>
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      </div>
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<p> You can also view other team wikis for inspiration! Here are some examples:</p>
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      <div class="box-dark right">
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<ul>
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        <img src="https://static.igem.org/mediawiki/2019/3/3f/T--Marburg--logo_automation.svg" class="logo"
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<li> <a href="https://2014.igem.org/Team:SDU-Denmark/"> 2014 SDU Denmark </a> </li>
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          alt="Automation Logo">
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<li> <a href="https://2014.igem.org/Team:Aalto-Helsinki">2014 Aalto-Helsinki</a> </li>
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        <h1 class="heading">
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<li> <a href="https://2014.igem.org/Team:LMU-Munich">2014 LMU-Munich</a> </li>
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          A U T O M A T I O N
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<li> <a href="https://2014.igem.org/Team:Michigan"> 2014 Michigan</a></li>
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        </h1>
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<li> <a href="https://2014.igem.org/Team:ITESM-Guadalajara">2014 ITESM-Guadalajara </a></li>
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        <hr class="line">
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<li> <a href="https://2014.igem.org/Team:SCU-China"> 2014 SCU-China </a></li>
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        <p class="text">
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</ul>
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          The goal of the automation lab was to completely automate the process of cloning using OT-2 Pipetting robots. This was achieved using a state of the art faster-RCNN neural network and a self made camera module and light table for colony picking. We also automated large scale purification of plasmids. Our
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</div>
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          software as well as the hardware blueprints are published on GitHub to give everybody access to scalable and affordable automation.
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</div>
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        </p>
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      </div>
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    </div>
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    <div id="awards" class="box-light awards" onclick="window.location.href = '/Team:Marburg/MedalCriteria'">
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      <h1 class="award-title title">Achievements</h1>
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      <img class="award" src="https://static.igem.org/mediawiki/2019/a/ae/T--Marburg--medal_bronze.svg">
 +
      <img class="award" src="https://static.igem.org/mediawiki/2019/c/cc/T--Marburg--medal_silver.svg">
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      <img class="award" src="https://static.igem.org/mediawiki/2019/6/6f/T--Marburg--medal_gold.svg">
 +
      <img class="award" src="https://static.igem.org/mediawiki/2019/b/bd/T--Marburg--medal_special.svg">
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    </div>
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  </div>
 
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</html>
 
{{Marburg/footer}}
 
{{Marburg/footer}}

Latest revision as of 17:00, 11 December 2019

F A S T E S T .

P H O T O T R O P H I C .

O R G A N I S M .

By providing the fastest growing phototrophic chassis to the community, we are paving the way for other phototrophic organisms in Synthetic Biology.

We created an easy to use toolbox for Synechococcus elongatus UTEX 2973 to empower rapid design testing, including genome engineering tools, self-replicating plasmid systems, natural competence and a Golden Gate-based part library. By providing the fastest growing phototrophic chassis with a doubling time of under 80 minutes to the community, we are paving the way for other phototrophic organisms in Synthetic Biology.

Strain Engineering Photo

S T R A I N

E N G I N E E R I N G

We created an "easy to use" phototrophic chassis by restoring the natural competence of S. elongatus UTEX 2973 in order to enormously simplify the transformation process. We established a genome modification system via the CRISPR/Cas12a and enabled the usage of self-replicating plasmids overcoming the drawbacks of time intensive genome integration for genetic design testing.

Toolbox Photo

T O O L B O X

We constructed the green expansion, a set of biobricks to accompany our new chassis. It contains the first MoClo compatible shuttle vector for cyanobacteria. Additionally users can design plasmids for genomic integrations using novel rationally designed integration sites. To improve standardization in phototrophic research we deliver standardized measurement entry vectors to test BioBricks in cyanobacteria.

Measurement Photo

M E A S U R E M E N T

Following the call for long needed standardization in the cyanobacterial community, we ventured out to rationalize important measurements hugely affecting the growth of our cultures. As using fluorescence for part characterization proves difficult in self-fluorescent cyanobacteria, we showed that the use of bioluminescence reporters as well as the use of flow cytometry offer promising alternatives to improve these characterizations.

Automation Photo

A U T O M A T I O N

The goal of the automation lab was to completely automate the process of cloning using OT-2 Pipetting robots. This was achieved using a state of the art faster-RCNN neural network and a self made camera module and light table for colony picking. We also automated large scale purification of plasmids. Our software as well as the hardware blueprints are published on GitHub to give everybody access to scalable and affordable automation.

Achievements