Difference between revisions of "Team:Uppsala/Worm Culturing/Experiment"

(Created page with "{{Uppsala/javascript/iGemRemoval_js}} {{Uppsala/css_removal}} {{Uppsala/main_template}} {{Uppsala/scroll-button}} {{Uppsala/javascript/scroll-button}} {{Uppsala/javascript/red...")
 
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{{Uppsala/javascript/redirect_js}}
 
{{Uppsala/javascript/redirect_js}}
  
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<html>
 +
    <head>
 +
        <style type="text/css">
  
  
−
<html>
 
−
<head>
 
  
−
<!-- TODO: ADD FOOTER AND NAV -->
 
  
  
−
<!--<meta name="viewport" content="width=device-width, initial-scale=1">-->
 
  
  
−
<style type="text/css">
 
  
−
</style>
 
−
</head>
 
  
  
−
     <div class="body">
+
          /*     CSS FOR FLOWCHART        */
−
        <div class="parallax"></div>
+
−
       
+
−
        <!-- The Text "Wormbuster" is displayed on the main image -->
+
  
 +
            #lab-content{
 +
                padding: 3em;
 +
            }
 +
 +
            .flowchart{
 +
                display: grid;
 +
                grid-template-columns: repeat(auto-fit, 100px);
 +
                grid-gap: 0.5em;
 +
            }
 +
 +
 +
            .flowchart > div.card {
 +
                /* background-color: var(--primary);
 +
                border-radius: 8px; */
 +
                height: 100px;
 +
                width: 100px;
 +
            }
 +
  
−
                <div class="sv">
 
  
−
              <svg version="1.1" id="Layer_1" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink" x="0px" y="0px"
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            /*ARROW STUFF */
−
                            viewBox="0 0 909 133" style="enable-background:new 0 0 909 133;" xml:space="preserve">
+
 +
            .arrowed {
 +
                position: relative;
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                /*height: 50px; width: 50px;*/
 +
                margin: 5%;
 +
                /* border: 1px solid rgba(0,0,0,1); */
 +
            }
 +
 +
            /* Just centering the examples */
 +
            .arrowed div {
 +
                position: absolute;
 +
                top: 0; bottom: 0; left: 0; right: 0;
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                margin: auto;
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            }
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            .arrow-5 {
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                /* more triangle */
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                position: relative;
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                height: 0px; width: 0px;
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                border: 12px solid;
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                border-color:
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                    black
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                    black
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                    transparent
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                    transparent;
  
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          /** End of Arrow Stuff**/
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        <div class="under-heading"><h1>Uppsala iGEM 2018</h1></div>
 
−
        <div class="igem-icon"><a href="https://2018.igem.org/Main_Page"><img src="https://static.igem.org/mediawiki/2018/b/b0/T--Uppsala--graylogo.png"></a></div>
 
  
  
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            /*    CLICKABLE LINK FOR FLOW CHART  */
  
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            <div class ="content-text" id="scrolldown" >
 
  
  
  
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<style/>
  
  
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            }
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                <p>Nematode parasites of the strongyle family cause the agricultural industry substantial losses and grief each year due to the detrimental effects they have on livestock. Common issues include severe health damage in the host animal as well as resistance development to anthelmintics in the most commonly occurring strongyles. There are currently no easy methods for diagnosing these parasites. By reprogramming a smart bacterium to detect and report the presence of the parasites, we aim to develop a simple diagnostic method. This will provide the tools necessary to help farmers both to make decisions on whether to treat their animals and to prevent infection to begin with. </p>
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                /* The image used */
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            }
  
−
              <div class="card-holder">
+
            .sub-header{
−
                    <div class="content-card-heading"><h1>Our Targets:</h1></div>
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                    <div class="content-card content-card-2">
+
−
                        <div class="inner-card left-card">
+
−
                            <h2>Small Strongyles</h2>
+
−
                            <br>
+
−
                            <div class="inner-card-text">
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                                <!-- start slipsum code -->
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                                <p>Small strongyles <i>(Cyathostominae)</i> are among the most common equine parasites with more than 52 species in their family. Horses are exposed when they graze on infested pastures, where they consume the worms in their larval stage. The strongyles move to the horses’ intestines, gathering into cysts in the intestinal wall and usually reach very large numbers.  These cysts eventually burst and the developed worms moves up towards the intestinal lumen where they become adult worms. The release of the larvae from the cysts can lead to lesions, diarrhea, and potential weight loss in the animal, a condition called cyathostominosis. When untreated, the mortality rate of a small strongyle infection can reach up to 50%. </p>
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                            </div>
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                            <img class="content-card-img" src="https://static.igem.org/mediawiki/2018/4/49/T--Uppsala--smallandlarge.jpg">
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                            <!-- end slipsum code -->
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                        </div>
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                        <div class="inner-card right-card">
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                            <h2>Large Strongyles</h2>
+
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                            <br>
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                            <div class="inner-card-text">
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                                <!-- start slipsum code -->
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                                <p><i>Strongylus vulgaris</i> is the most pathogenic parasite in horses, posing a significant threat to the health of the animal. They, like small strongyles, live in the grass and infect the horse after being ingested. During the larval stages inside the animal, the parasite enters the intestinal blood vessels as a part of their life cycle. This causes them to commonly avoid deworming and detection measures. When the worms migrate in the arteries they cause inflammation in the arterial wall and induce the formation of blood clots. These blood clots may travel in the blood vessels and block smaller passages, inhibiting oxygen and nutrient supply to the surrounding tissues, and may result in colic or in the worst case, death.  </p>
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                background-position: center;
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                background-size: cover;
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                 font-size: 60;
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                text-align: center;
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                position:absolute;
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                left:0;
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                right:0;
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                margin-left:auto;
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                margin-right: auto;
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−
  <h1>The Worm Busters</h1>
+
            h1, h2{
−
                <p>One approach for designing a diagnostic system against the strongyles is to engineer a “smart” bacterium which will live in the intestinal tract and is capable of reacting to the presence of the parasite by emitting a quantifiable signal. This biosensor may, for instance, induce the production of a detectable fluorescent protein in the feces of the animal. Large strongyles, however, are more elusive and are less frequently present in the intestine during an infection. Here it would be suitable to instead try and detect the presence of the parasite on the pastures as to avoid infection altogether, by developing bacteria responding to the parasite outside of the animal body.  </p>
+
−
<br>
+
  
−
<p> Our work is dependent on finding one or more genes in <i>E.coli</i> which will, exclusively, be highly expressed when the cell is exposed to the parasitic worms. This is done by co-culturing <i>E.coli</i> in liquid medium along with live strongyles, which are harvested from feces and sterilized. From here, the E.coli cells are separated from the solution and their entire transcriptomic suite is extracted and sequenced to detect genes of interest. Any found genes which display promise will have to be validated by qPCR (which is a similar method) in a second run to confirm that they are only expressed due to the strongyle presence. Another approach to tackle our challenge is to screen for interaction between the surface proteins on the strongyle and short peptides. Through affinity screening of a random peptide library displayed on the surface of phages, we can select a peptide with a high affinity to the nematodes surface.  </p>
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                margin: auto;
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</g>
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</div>
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    </head>
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    <div class="body">
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        <div class="parallax"></div>
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        <div class="igem-icon"><a href="https://2018.igem.org/Main_Page"><img src="https://static.igem.org/mediawiki/2018/b/b0/T--Uppsala--graylogo.png"></a></div>
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        <div class ="scroll-down-button">
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            <section id="section02" class="demo">
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                <h1></h1>
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                <a href="#scrolldown"><span></span></a>
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            </section>
 
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                <!-- FROM THIS POINT DOWNWARDS YOU START ADDING YOUR STUFF -->
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<h1> Design
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</h1>
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<p>The main goal of our project has been the creation of a diagnostic tool for detecting the level of infestation of small strongyles (cyathostomins) in horse faeces. For this purpose, transcriptomics and phage display analysis have been performed. These techniques, however, require large amounts of clean sterilized strongyles.
 +
For this reason, the first part of our project has been the recovery and the processing of the nematodes, to obtain samples usable for the following segments of the project. <br><br>
 +
 
 +
While dealing with this task, however, many times our group has faces one problem: the lack of information. Not much, in fact, has been published about strongyles and techniques to handle them. For this reason, this first part of the project often involved the adaptation of a pre-existing protocol or the creation of entirely new ones.
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</p>
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                <!-- HERE ENDS THE PORTION WHERE YOU PUT IN YOUR CONTENT-->
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                <div style="height:5em;"></div>
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Revision as of 13:14, 15 October 2018