Difference between revisions of "Team:Dundee Schools/Proof"

 
(12 intermediate revisions by 2 users not shown)
Line 1: Line 1:
 
<html>
 
<html>
 +
 
<style>
 
<style>
  
Line 6: Line 7:
 
#sideMenu, #top_title {display:none;}
 
#sideMenu, #top_title {display:none;}
 
#content { padding:0px; width:1000px; margin-top:-7px; margin-left:0px;}
 
#content { padding:0px; width:1000px; margin-top:-7px; margin-left:0px;}
 +
body {background-color:#bcc8dd; }
 +
#bodyContent h1, #bodyContent h2, #bodyContent h3, #bodyContent h4, #bodyContent h5 { margin-bottom: 0px; }
  
−
 
+
/********************************* MENU ********************************/
−
/********************************* RESPONSIVE STYLING ********************************/
+
−
 
+
−
/* IF THE SCREEN IS LESS THAN 1000PX */
+
−
 
+
−
@media only screen and (max-width: 1000px) {
+
−
 
+
−
#content {width:100%; }
+
−
.menu_wrapper {width:15%;}
+
−
.content_wrapper {margin-left: 15%;}
+
−
.menu_item {display:block;}
+
−
.icon {display:none;}
+
−
.highlight {padding:10px 0px;}
+
−
}
+
−
 
+
−
 
+
−
/* IF THE SCREEN IS LESS THAN 680PX */
+
−
 
+
−
@media only screen and (max-width: 680px) {
+
−
.collapsable_menu_control { display:block;}
+
−
.menu_item {display:none;}
+
−
.menu_wrapper { width:100%; height: 15%; position:relative;}
+
−
.content_wrapper {width:100%; margin-left:0px;}
+
−
.column.half_size {width:100%; }
+
−
.column img { width: 100%; padding: 5px 0px;}
+
−
.icon {display:block;}
+
−
.highlight {padding:15px 5px;}
+
−
}
+
−
 
+
−
 
+
−
</style>
+
−
 
+
−
<!-------------------------------------------------OWN CODE--------------------------------------------------------->
+
−
 
+
−
<!--iGEM HS Wiki HTML:Proof-->
+
−
<!--Darryl Sime, started 2/8/16-->
+
−
 
+
−
<head>
+
−
  <meta name="viewport" content="width=device-width, initial-scale=1">
+
−
  <title>Dundee Schools: Proof</title>
+
−
</head>
+
−
 
+
−
<body>
+
−
  <!--CSS-->
+
−
  <style>
+
 
/* Wrapper for the menu */
 
/* Wrapper for the menu */
 
.menu_wrapper {  
 
.menu_wrapper {  
−
width:16vw;  
+
width:150px;  
 
height:100vh;  
 
height:100vh;  
 
position:fixed;  
 
position:fixed;  
 
padding:0px;
 
padding:0px;
 
float:left;  
 
float:left;  
−
background-color:#ffffff;  
+
background-color:#a8bce1;  
 
text-align:left;
 
text-align:left;
 
}
 
}
Line 68: Line 27:
 
margin:-2px 0px 0px -20px;  
 
margin:-2px 0px 0px -20px;  
 
padding: 10px 10px;   
 
padding: 10px 10px;   
−
border-bottom: 1px solid #d3d3d3;  
+
border-bottom: 1px solid white;  
 
font-weight:bold;
 
font-weight:bold;
−
color:#2d305a;  
+
color:white;  
 
cursor: pointer;  
 
cursor: pointer;  
 
}
 
}
Line 76: Line 35:
 
/* when hovering on a menu item */
 
/* when hovering on a menu item */
 
.menu_item:hover {  
 
.menu_item:hover {  
−
color:#2d305a;  
+
color:#000000;  
−
background-color: #f1f89b;
+
background-color: #c4d1e9;
 
}
 
}
  
Line 110: Line 69:
 
padding: 15px 0px 15px 15px ;  
 
padding: 15px 0px 15px 15px ;  
 
display:block;
 
display:block;
−
border-bottom: 1px solid #34878f;   
+
border-bottom: 1px solid #d3d3d3;   
 
text-align:left;  
 
text-align:left;  
 
font-weight:bold;
 
font-weight:bold;
 
text-decoration:none;  
 
text-decoration:none;  
−
color:#2d305a;  
+
color:white;  
 
list-style-type:none;  
 
list-style-type:none;  
 
cursor:pointer;  
 
cursor:pointer;  
Line 128: Line 87:
 
padding: 11px 90px 12px 20px;
 
padding: 11px 90px 12px 20px;
 
text-decoration: none;
 
text-decoration: none;
−
color:#2d305a;
+
color:white;
 
}
 
}
  
 
/* When hovering on a menu item */
 
/* When hovering on a menu item */
 
.menu_items li:hover {  
 
.menu_items li:hover {  
−
background-color:#26d2c6;
+
background-color:#a8bce1;
−
color: #2d305a;
+
color: #000000;
 
}
 
}
  
Line 166: Line 125:
 
padding: 5px 10px;  
 
padding: 5px 10px;  
 
display: inline-block;
 
display: inline-block;
−
border-bottom: 1px solid #d3d3d3;
+
border-bottom: 1px solid white;
−
background-color:white;  
+
background-color:#c1cfe8;  
 
text-decoration:none;
 
text-decoration:none;
−
color:#2d305a;  
+
color:white;  
 
}
 
}
  
Line 175: Line 134:
  
 
.submenu li a:hover  {
 
.submenu li a:hover  {
−
background-color:#26d2c6;  
+
background-color:#a3b6d7;  
−
color: #ffffff;
+
color:black;
 
}
 
}
  
Line 201: Line 160:
 
background-color: #72c9b6;
 
background-color: #72c9b6;
 
color:#000000;   
 
color:#000000;   
 +
}
 +
 +
/********************************* CONTENT OF THE PAGE ********************************/
 +
 +
/* Wrapper for the content */
 +
.content_wrapper {
 +
width: 85%;
 +
margin-left:150px;
 +
padding:10px 0px;
 +
float:left;
 +
background-color:white;
 +
}
 +
 +
/*LAYOUT */
 +
.column  {
 +
padding: 10px 0px;
 +
float:left;
 +
background-color:white;
 +
}
 +
 +
.full_size {
 +
width:100%;
 +
}
 +
 +
.full_size img {
 +
padding: 10px 15px;
 +
width:96.5%;
 +
}
 +
 +
.half_size {
 +
width: 50%;
 +
}
 +
.half_size img {
 +
padding: 10px 15px;
 +
width: 93%;
 +
}
 +
 +
 +
.clear {
 +
clear:both;
 +
}
 +
 +
.highlight {
 +
width: 90%;
 +
margin: auto;
 +
padding: 15px 5px;
 +
background-color: #f2f2f2;
 +
}
 +
 +
 +
/*STYLING */
 +
 +
/* styling for the titles */
 +
.content_wrapper h1, .content_wrapper h2 {
 +
padding:5px 15px;
 +
border-bottom:0px;
 +
color:#72c9b6;
 +
 +
}
 +
.content_wrapper h3, .content_wrapper h4, .content_wrapper h5, .content_wrapper h6 {
 +
padding:5px 15px;
 +
border-bottom:0px;
 +
color: #000000; 
 +
}
 +
 +
 +
/* font and text */
 +
.content_wrapper p {
 +
padding:0px 15px;
 +
font-size: 13px;
 +
font-family:Tahoma, Geneva, sans-serif;
 +
}
 +
 +
/* Links */
 +
.content_wrapper a {
 +
font-weight: bold;
 +
text-decoration: underline;
 +
text-decoration-color:#72c9b6;
 +
color: #72c9b6;
 +
-webkit-transition: all 0.4s ease;
 +
-moz-transition: all 0.4s ease;
 +
-ms-transition: all 0.4s ease;
 +
-o-transition: all 0.4s ease;
 +
transition: all 0.4s ease;
 +
}
 +
 +
/* hover for the links */
 +
.content_wrapper a:hover {
 +
text-decoration:none;
 +
color:#000000;
 +
}
 +
 +
/* non numbered lists */
 +
.content_wrapper ul {
 +
padding:0px 20px;
 +
font-size: 13px;
 +
font-family:Tahoma, Geneva, sans-serif;
 +
}
 +
 +
/* numbered lists */
 +
.content_wrapper ol {
 +
padding:0px;
 +
font-size: 13px;
 +
font-family:Tahoma, Geneva, sans-serif;
 +
}
 +
 +
/* Table */
 +
.content_wrapper table {
 +
width: 97%;
 +
margin:15px 10px;
 +
border: 1px solid #d3d3d3;
 +
border-collapse: collapse;
 +
}
 +
 +
/* table cells */
 +
.content_wrapper  td {
 +
padding: 10px;
 +
vertical-align: text-top;
 +
border: 1px solid #d3d3d3;
 +
border-collapse: collapse;
 +
}
 +
 +
/* table headers */
 +
.content_wrapper th {
 +
padding: 10px;
 +
vertical-align: text-top;
 +
border: 1px solid #d3d3d3;
 +
border-collapse: collapse;
 +
background-color:#f2f2f2;
 +
}
 +
 +
/* Button class */
 +
.button_click {
 +
margin: 10px auto;
 +
padding: 15px; width:12%; 
 +
text-align:center;
 +
font-weight:bold;
 +
background-color: #72c9b6;
 +
cursor:pointer; 
 +
-webkit-transition: all 0.4s ease;
 +
-moz-transition: all 0.4s ease;
 +
-ms-transition: all 0.4s ease;
 +
-o-transition: all 0.4s ease;
 +
transition: all 0.4s ease;
 +
}
 +
 +
/* button class on hover */
 +
.button_click:hover { 
 +
background-color:#000000;
 +
color:#72c9b6;
 +
}
 +
 +
/********************************* RESPONSIVE STYLING ********************************/
 +
 +
/* IF THE SCREEN IS LESS THAN 1000PX */
 +
 +
@media only screen and (max-width: 1000px) {
 +
 +
#content {width:100%; }
 +
.menu_wrapper {width:15%;}
 +
.content_wrapper {margin-left: 15%;}
 +
.menu_item {display:block;}
 +
.icon {display:none;}
 +
.highlight {padding:10px 0px;}
 +
}
 +
 +
 +
/* IF THE SCREEN IS LESS THAN 680PX */
 +
 +
@media only screen and (max-width: 680px) {
 +
.collapsable_menu_control { display:block;}
 +
.menu_item {display:none;}
 +
.menu_wrapper { width:100%; height: 15%; position:relative;}
 +
.content_wrapper {width:100%; margin-left:0px;}
 +
.column.half_size {width:100%; }
 +
.column img { width: 100%; padding: 5px 0px;}
 +
.icon {display:block;}
 +
.highlight {padding:15px 5px;}
 
}
 
}
  
Line 206: Line 343:
  
  
−
<!--HTML-->
+
 
 +
 
 +
<!--- THIS IS WHERE THE HTML BEGINS --->
 +
 
 +
 
 +
<!-- This tells the browser that your page is responsive -->
 +
 
 +
<head>
 +
<meta name="viewport" content="width=device-width, initial-scale=1">
 +
</head>
 +
 
 +
 
 +
 
  
 
<div class="menu_wrapper" >
 
<div class="menu_wrapper" >
Line 222: Line 371:
 
<li class="menu_item"> <div class="icon plus"></div> TEAM
 
<li class="menu_item"> <div class="icon plus"></div> TEAM
 
<ul class="submenu">
 
<ul class="submenu">
−
<li> <a href=" https://2016.igem.org/Team:Dundee_Schools/Team"> Team  </a> </li>
+
<li> <a href=" https://2016.igem.org/Team:Dundee_Schools/Team"> Meet the Agents  </a> </li>
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Collaborations">★  Collaborations </a> </li>
+
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Collaborations"> Collaborations </a> </li>
 
                     </ul>
 
                     </ul>
 
                 </li>
 
                 </li>
Line 229: Line 378:
 
<li class="menu_item"> <div class="icon plus"></div> PROJECT   
 
<li class="menu_item"> <div class="icon plus"></div> PROJECT   
 
<ul class="submenu">
 
<ul class="submenu">
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Description"> ★  Description </a></li>
+
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Description">   Description </a></li>
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Design"> ★ Design </a></li>
+
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Design"> Design </a></li>
 
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Experiments"> Experiments </a></li>
 
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Experiments"> Experiments </a></li>
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Proof"> ★ Proof of Concept </a></li>
+
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Proof"> Proof of Concept </a></li>
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Demonstrate"> ★ Demonstrate </a></li>
+
 
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Results"> Results </a></li>
 
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Results"> Results </a></li>
 
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Notebook"> Notebook </a></li>
 
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Notebook"> Notebook </a></li>
Line 242: Line 390:
 
<ul class="submenu">
 
<ul class="submenu">
 
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Parts">Parts </a></li>
 
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Parts">Parts </a></li>
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Basic_Part"> ★ Basic Parts </a></li>
+
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Basic_Part"> Basic Parts </a></li>
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Composite_Part"> ★ Composite Parts </a></li>
+
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Composite_Part"> Composite Parts </a></li>
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Part_Collection"> ★ Part Collection </a></li>
+
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Part_Collection"> Part Collection </a></li>
 
                     </ul>
 
                     </ul>
 
                 </li>
 
                 </li>
Line 252: Line 400:
  
  
−
<li class="menu_item"> <a href="https://2016.igem.org/Team:Dundee_Schools/Attributions">★  ATTRIBUTIONS </a></li>
+
<li class="menu_item"> <a href="https://2016.igem.org/Team:Dundee_Schools/Attributions"> ATTRIBUTIONS </a></li>
  
  
Line 258: Line 406:
 
<ul class="submenu">
 
<ul class="submenu">
 
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Human_Practices"> Human Practices </a></li>
 
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Human_Practices"> Human Practices </a></li>
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/HP/Silver">★ Silver </a></li>
+
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/HP/Silver"> Silver </a></li>
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/HP/Gold">★ Gold </a></li>
+
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/HP/Gold">Gold </a></li>
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Integrated_Practices"> ★ Integrated Practices </a></li>
+
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Integrated_Practices"> Integrated Practices </a></li>
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Engagement">★ Engagement </a></li>
+
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Engagement"> Engagement </a></li>
 
                     </ul>
 
                     </ul>
 
                 </li>
 
                 </li>
Line 268: Line 416:
 
<li class="menu_item"> <div class="icon plus"></div> AWARDS  
 
<li class="menu_item"> <div class="icon plus"></div> AWARDS  
 
<ul class="submenu">
 
<ul class="submenu">
−
<li><a href="https://2016.igem.org/Team:Dundee_Schools/Entrepreneurship"> ★ Entrepreneurship </a></li>
+
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Model">Modelling </a></li>
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Hardware"> ★ Hardware </a></li>
+
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Medals">Medals</a></li>
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Software">★ Software </a></li>
+
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Measurement">★  Measurement </a></li>
+
−
<li> <a href="https://2016.igem.org/Team:Dundee_Schools/Model">★ Model </a></li>
+
−
 
+
 
                     </ul>
 
                     </ul>
 
                 </li>
 
                 </li>
Line 280: Line 424:
 
</div>
 
</div>
  
−
</body>
+
 
 +
 
 +
 
 +
 
 +
<div class="content_wrapper">
 +
 
 +
 
 +
 
 +
<h1 id="team_name"> Dundee Schools </h1>
 +
<h4 id="page_name"> Proof of Concept </h4>
 +
 
 +
 
 +
<h5>S.O.R.D.</h5>
 +
 
 +
<p>We designed S.O.R.D. as an RNA secretion device. It is comprised of osmY (protein naturally secreted by <i>E. coli</i>) and Hfq (RNA binding protein) fused together. This device is what will transport our spiRNA out of our <i>E. coli</i> and to the target bacteria.<br></br>
 +
 
 +
In the labs we wanted to test if S.O.R.D. could be secreted, so we used a western blot to do so.
 +
 
 +
<img class="half_size" src="https://static.igem.org/mediawiki/2016/3/3a/T--Dundee_Schools--compositepart2.png"/>
 +
<img class="half_size" src="https://static.igem.org/mediawiki/2016/a/ae/T--Dundee_Schools--compositepart3.png"/>
 +
<img class="half_size" src="https://static.igem.org/mediawiki/2016/4/40/T--Dundee_Schools--proof1.png"/>
 +
 
 +
<p><a href="https://2016.igem.org/Team:Dundee_Schools/Results">Western blotting indicated that our S.O.R.D. was being secreted entirely</a>. This meant for future plans that S.O.R.D. should theoretically secrete and be capable of carrying RNA on its journey out of the cell.</p>
 +
 
 +
<h5>spiRNA</h5>
 +
 
 +
<p>Our RNA silencing agent spiRNA is what will attach to a specific gene on an mRNA strand in the target cell. We decided to test spiRNA by targeting the <i>fliC</i> gene which forms the FliC protein. This is the repeating subunit of the flagellum. By targeting this gene the bacterium’s motility should be greatly decreased and therefore easy to see if our device works. We did this by expressing a spiRNA containing a <i>fliC</i> targeting sequence inside a target bacterium.</p>
 +
 
 +
<h5>Result:</h5>
 +
<img class="half_size" src="https://static.igem.org/mediawiki/2016/3/39/T--Dundee_Schools--proof2.png"/>
 +
<p><a href="https://2016.igem.org/Team:Dundee_Schools/Results">Our results showed that the bacteria became less motile</a> as there wasn’t as much expansion on the plate as the control experiment. This is strong indication that spiRNA effectively targeted <i>fliC</i> mRNA and reduced its translation, proving the principle of it being able to target specific genes with downstream functional effects. This means that by changing the targeting sequence, in theory we could target any gene at will.</p>
 +
 
 +
</div>
 +
 
 +
 
 +
 
 +
 
 +
 
 +
 
 +
 
 
<script>
 
<script>
  
Line 341: Line 524:
 
});
 
});
  
−
if( ($(location).attr('href')).indexOf("submit") >= 0  ) {
+
 
−
$(".menu_wrapper").css( { "position": "absolute", "height": "auto"});
+
−
$("#wpTextbox1").css( 'margin-top', '440px');
+
−
}
+
  
  
 
</script>
 
</script>
 +
  
 
</html>
 
</html>

Latest revision as of 02:12, 20 October 2016

MENU ▤

Dundee Schools

Proof of Concept

S.O.R.D.

We designed S.O.R.D. as an RNA secretion device. It is comprised of osmY (protein naturally secreted by E. coli) and Hfq (RNA binding protein) fused together. This device is what will transport our spiRNA out of our E. coli and to the target bacteria.

In the labs we wanted to test if S.O.R.D. could be secreted, so we used a western blot to do so.

Western blotting indicated that our S.O.R.D. was being secreted entirely. This meant for future plans that S.O.R.D. should theoretically secrete and be capable of carrying RNA on its journey out of the cell.

spiRNA

Our RNA silencing agent spiRNA is what will attach to a specific gene on an mRNA strand in the target cell. We decided to test spiRNA by targeting the fliC gene which forms the FliC protein. This is the repeating subunit of the flagellum. By targeting this gene the bacterium’s motility should be greatly decreased and therefore easy to see if our device works. We did this by expressing a spiRNA containing a fliC targeting sequence inside a target bacterium.

Result:

Our results showed that the bacteria became less motile as there wasn’t as much expansion on the plate as the control experiment. This is strong indication that spiRNA effectively targeted fliC mRNA and reduced its translation, proving the principle of it being able to target specific genes with downstream functional effects. This means that by changing the targeting sequence, in theory we could target any gene at will.