Team:Edinburgh

From 2008.igem.org

(Difference between revisions)
 
(44 intermediate revisions not shown)
Line 1: Line 1:
-
<html>
+
<div id="header">{{Template:Team:Edinburgh/Templates/Header}}</div>
-
<head>
+
-
<title>Edinburgh iGEM 2008</title>
+
-
<script type="text/javascript">
+
-
//Drop Down Tabs Menu- Author: Dynamic Drive (http://www.dynamicdrive.com)
+
-
//Created: May 16th, 07'
+
-
var tabdropdown={
+
<br />
-
disappeardelay: 200, //set delay in miliseconds before menu disappears onmouseout
+
'''''Welcome to the University of Edinburgh 2008 iGEM Team Wiki!'''''
-
disablemenuclick: false, //when user clicks on a menu item with a drop down menu, disable menu item's link?
+
<br /><br />
-
enableiframeshim: 1, //1 or 0, for true or false
+
-
//No need to edit beyond here////////////////////////
+
[[Image:Edinburgh-Panorama.jpg]]
-
dropmenuobj: null, ie: document.all, firefox: document.getElementById&&!document.all, previousmenuitem:null,
+
----
-
currentpageurl: window.location.href.replace("http://"+window.location.hostname, "").replace(/^\//, ""), //get current page url (minus hostname, ie: http://www.dynamicdrive.com/)
+
== Introduction: Global problems ==
-
getposOffset:function(what, offsettype){
+
* It has been predicted that by 2015 supplies of easy-to-access oil and natural gas will no longer keep up with demand. This prediction is based on the current rate of consumption, but this is expect to increase. The repercussions of this are already being felt on a global level with food prices rising.
-
var totaloffset=(offsettype=="left")? what.offsetLeft : what.offsetTop;
+
-
var parentEl=what.offsetParent;
+
-
while (parentEl!=null){
+
-
totaloffset=(offsettype=="left")? totaloffset+parentEl.offsetLeft : totaloffset+parentEl.offsetTop;
+
-
parentEl=parentEl.offsetParent;
+
-
}
+
-
return totaloffset;
+
-
},
+
-
showhide:function(obj, e, obj2){ //obj refers to drop down menu, obj2 refers to tab menu item mouse is currently over
+
* The burning of fossil fuels is also fuelling global warming. This is having negative effects on crop yields worldwide, with longer droughts occurring year on year, especially in Africa and Australia. The melting of the polar ice-caps which accompanies this will raise sea-levels, inundating currently arable land, reducing the land available for an ever enlarging world population.
-
if (this.ie || this.firefox)
+
-
this.dropmenuobj.style.left=this.dropmenuobj.style.top="-500px"
+
-
if (e.type=="click" && obj.visibility==hidden || e.type=="mouseover"){
+
-
if (obj2.parentNode.className.indexOf("default")==-1) //if tab isn't a default selected one
+
-
obj2.parentNode.className="selected"
+
-
obj.visibility="visible"
+
-
}
+
-
else if (e.type=="click")
+
-
obj.visibility="hidden"
+
-
},
+
-
iecompattest:function(){
+
* At present the major alternative to fossil fuel use for transport comes from ethanol fermented from starch and sugar in sugar cane and soy bean. These biofuel crops are being grown in areas previously used for food crops or in previously pristine natural environments, and thus are unsustainable.<br />
-
return (document.compatMode && document.compatMode!="BackCompat")? document.documentElement : document.body
+
<br />
-
},
+
All this is burdening the global economy and destroying lives, and worse is likely to come.<br />
 +
<br />
 +
'''Wouldn't it be brilliant if we could do something to counter this trend?'''<br />
 +
<br />
 +
This is what the Edinburgh 2008 iGEM team have been trying to do. - The rising cost of food coupled to the current unsustainability of human activity makes this the perfect time to contemplate the restructuring of global agriculture.<br />
-
clearbrowseredge:function(obj, whichedge){
+
== Primary Objective: A single sustainable bacterial solution ==
-
var edgeoffset=0
+
-
if (whichedge=="rightedge"){
+
-
var windowedge=this.ie && !window.opera? this.standardbody.scrollLeft+this.standardbody.clientWidth-15 : window.pageXOffset+window.innerWidth-15
+
-
this.dropmenuobj.contentmeasure=this.dropmenuobj.offsetWidth
+
-
if (windowedge-this.dropmenuobj.x < this.dropmenuobj.contentmeasure)  //move menu to the left?
+
-
edgeoffset=this.dropmenuobj.contentmeasure-obj.offsetWidth
+
-
}
+
-
else{
+
-
var topedge=this.ie && !window.opera? this.standardbody.scrollTop : window.pageYOffset
+
-
var windowedge=this.ie && !window.opera? this.standardbody.scrollTop+this.standardbody.clientHeight-15 : window.pageYOffset+window.innerHeight-18
+
-
this.dropmenuobj.contentmeasure=this.dropmenuobj.offsetHeight
+
-
if (windowedge-this.dropmenuobj.y < this.dropmenuobj.contentmeasure){ //move up?
+
-
edgeoffset=this.dropmenuobj.contentmeasure+obj.offsetHeight
+
-
if ((this.dropmenuobj.y-topedge)<this.dropmenuobj.contentmeasure) //up no good either?
+
-
edgeoffset=this.dropmenuobj.y+obj.offsetHeight-topedge
+
-
}
+
-
this.dropmenuobj.firstlink.style.borderTopWidth=(edgeoffset==0)? 0 : "1px" //Add 1px top border to menu if dropping up
+
-
}
+
-
return edgeoffset
+
-
},
+
-
dropit:function(obj, e, dropmenuID){
+
[[Image:Edinburgh-MicroMaize.jpg|thumb|150px|right|A false-colour SEM of MicroMaize cells.]]
-
if (this.dropmenuobj!=null){ //hide previous menu
+
-
this.dropmenuobj.style.visibility="hidden" //hide menu
+
-
if (this.previousmenuitem!=null && this.previousmenuitem!=obj){
+
-
if (this.previousmenuitem.parentNode.className.indexOf("default")==-1) //If the tab isn't a default selected one
+
-
this.previousmenuitem.parentNode.className=""
+
-
}
+
-
}
+
-
this.clearhidemenu()
+
-
if (this.ie||this.firefox){
+
-
obj.onmouseout=function(){tabdropdown.delayhidemenu(obj)}
+
-
obj.onclick=function(){return !tabdropdown.disablemenuclick} //disable main menu item link onclick?
+
-
this.dropmenuobj=document.getElementById(dropmenuID)
+
-
this.dropmenuobj.onmouseover=function(){tabdropdown.clearhidemenu()}
+
-
this.dropmenuobj.onmouseout=function(e){tabdropdown.dynamichide(e, obj)}
+
-
this.dropmenuobj.onclick=function(){tabdropdown.delayhidemenu(obj)}
+
-
this.showhide(this.dropmenuobj.style, e, obj)
+
-
this.dropmenuobj.x=this.getposOffset(obj, "left")
+
-
this.dropmenuobj.y=this.getposOffset(obj, "top")
+
-
this.dropmenuobj.style.left=this.dropmenuobj.x-this.clearbrowseredge(obj, "rightedge")+"px"
+
-
this.dropmenuobj.style.top=this.dropmenuobj.y-this.clearbrowseredge(obj, "bottomedge")+obj.offsetHeight+1+"px"
+
-
this.previousmenuitem=obj //remember main menu item mouse moved out from (and into current menu item)
+
-
this.positionshim() //call iframe shim function
+
-
}
+
-
},
+
-
contains_firefox:function(a, b) {
+
We have been investigating engineering bacteria to '''produce starch from the cellulose in waste biomass''' (that is agricultural waste, wood chippings, waste from paper production etc.). This starch could be:
-
while (b.parentNode)
+
# sold to the biofuels industry for conversion to ethanol
-
if ((b = b.parentNode) == a)
+
# used as feed for livestock
-
return true;
+
# used as a starch supplement in the human diet if needed.
-
return false;
+
This will reduce our dependence on fossil fuels and free up agricultural land for the growth of food crops, ultimately putting less strain on ecosystems.
-
},
+
-
dynamichide:function(e, obj2){ //obj2 refers to tab menu item mouse is currently over
+
== Secondary Objective: Solving vitamin A deficiency in the developing world ==
-
var evtobj=window.event? window.event : e
+
-
if (this.ie&&!this.dropmenuobj.contains(evtobj.toElement))
+
-
this.delayhidemenu(obj2)
+
-
else if (this.firefox&&e.currentTarget!= evtobj.relatedTarget&& !this.contains_firefox(evtobj.currentTarget, evtobj.relatedTarget))
+
-
this.delayhidemenu(obj2)
+
-
},
+
-
delayhidemenu:function(obj2){
+
We have also been continuing the work of [https://2007.igem.org/Edinburgh/Yoghurt our 2007 team] in engineering ''Escherichia coli'' to '''produce the vitamin A precursor β-carotene'''. Vitamin A is required for vision and a healthy immune system. 250,000-500,000 children in the developing world lose their vision each year, half of them dying within 12 months of this ([http://www.who.int/nutrition/topics/vad/en/ WHO]).
-
this.delayhide=setTimeout(function(){tabdropdown.dropmenuobj.style.visibility='hidden'; if (obj2.parentNode.className.indexOf('default')==-1) obj2.parentNode.className=''},this.disappeardelay) //hide menu
+
-
},
+
-
 
+
-
clearhidemenu:function(){
+
-
if (this.delayhide!="undefined")
+
-
clearTimeout(this.delayhide)
+
-
},
+
-
 
+
-
positionshim:function(){ //display iframe shim function
+
-
if (this.enableiframeshim && typeof this.shimobject!="undefined"){
+
-
if (this.dropmenuobj.style.visibility=="visible"){
+
-
this.shimobject.style.width=this.dropmenuobj.offsetWidth+"px"
+
-
this.shimobject.style.height=this.dropmenuobj.offsetHeight+"px"
+
-
this.shimobject.style.left=this.dropmenuobj.style.left
+
-
this.shimobject.style.top=this.dropmenuobj.style.top
+
-
}
+
-
this.shimobject.style.display=(this.dropmenuobj.style.visibility=="visible")? "block" : "none"
+
-
}
+
-
},
+
-
 
+
-
hideshim:function(){
+
-
if (this.enableiframeshim && typeof this.shimobject!="undefined")
+
-
this.shimobject.style.display='none'
+
-
},
+
-
 
+
-
isSelected:function(menuurl){
+
-
var menuurl=menuurl.replace("http://"+menuurl.hostname, "").replace(/^\//, "")
+
-
return (tabdropdown.currentpageurl==menuurl)
+
-
},
+
-
 
+
-
init:function(menuid, dselected){
+
-
this.standardbody=(document.compatMode=="CSS1Compat")? document.documentElement : document.body //create reference to common "body" across doctypes
+
-
var menuitems=document.getElementById(menuid).getElementsByTagName("a")
+
-
for (var i=0; i<menuitems.length; i++){
+
-
if (menuitems[i].getAttribute("rel")){
+
-
var relvalue=menuitems[i].getAttribute("rel")
+
-
document.getElementById(relvalue).firstlink=document.getElementById(relvalue).getElementsByTagName("a")[0]
+
-
menuitems[i].onmouseover=function(e){
+
-
var event=typeof e!="undefined"? e : window.event
+
-
tabdropdown.dropit(this, event, this.getAttribute("rel"))
+
-
}
+
-
}
+
-
if (dselected=="auto" && typeof setalready=="undefined" && this.isSelected(menuitems[i].href)){
+
-
menuitems[i].parentNode.className+=" selected default"
+
-
var setalready=true
+
-
}
+
-
else if (parseInt(dselected)==i)
+
-
menuitems[i].parentNode.className+=" selected default"
+
-
}
+
-
}
+
-
 
+
-
}
+
-
</script>
+
-
<style>
+
-
.ddcolortabs{
+
-
padding: 0;
+
-
width: 100%;
+
-
background: transparent;
+
-
voice-family: "\"}\"";
+
-
voice-family: inherit;
+
-
}
+
-
 
+
-
.ddcolortabs ul{
+
-
font: normal 11px Arial, Verdana, sans-serif;
+
-
margin:0;
+
-
padding:0;
+
-
list-style:none;
+
-
}
+
-
 
+
-
.ddcolortabs li{
+
-
display:inline;
+
-
margin:0 2px 0 0;
+
-
padding:0;
+
-
text-transform:uppercase;
+
-
}
+
-
 
+
-
 
+
-
.ddcolortabs a{
+
-
float:left;
+
-
color: white;
+
-
background: black url(media/color_tabs_left.gif) no-repeat left top;
+
-
margin:0 2px 0 0;
+
-
padding:0 0 1px 3px;
+
-
text-decoration:none;
+
-
letter-spacing: 1px;
+
-
}
+
-
 
+
-
.ddcolortabs a span{
+
-
float:left;
+
-
display:block;
+
-
background: transparent url(media/color_tabs_right.gif) no-repeat right top;
+
-
padding: 4px 8px 2px 7px;
+
-
}
+
-
 
+
-
.ddcolortabs a span{
+
-
float:none;
+
-
}
+
-
 
+
-
.ddcolortabs a:hover{
+
-
background-color: #591f20;
+
-
}
+
-
 
+
-
.ddcolortabs a:hover span{
+
-
background-color: #591f20;
+
-
}
+
-
 
+
-
.ddcolortabs .selected a, #ddcolortabs .selected a span{ /*currently selected tab*/
+
-
background-color: #591f20;
+
-
}
+
-
 
+
-
.ddcolortabsline{
+
-
clear: both;
+
-
padding: 0;
+
-
width: 100%;
+
-
height: 8px;
+
-
line-height: 8px;
+
-
background: black;
+
-
border-top: 1px solid #fff; /*Remove this to remove border between bar and tabs*/
+
-
}
+
-
 
+
-
/* ######### Style for Drop Down Menu ######### */
+
-
 
+
-
.dropmenudiv_a{
+
-
position:absolute;
+
-
top: 0;
+
-
border: 1px solid black; /*THEME CHANGE HERE*/
+
-
border-top-width: 8px; /*Top border width. Should match height of .ddcolortabsline above*/
+
-
border-bottom-width: 0;
+
-
font:normal 12px Arial;
+
-
line-height:18px;
+
-
z-index:100;
+
-
background-color: white;
+
-
width: 200px;
+
-
visibility: hidden;
+
-
}
+
-
 
+
-
 
+
-
.dropmenudiv_a a{
+
-
width: auto;
+
-
display: block;
+
-
text-indent: 5px;
+
-
border-top: 0 solid #678b3f;
+
-
border-bottom: 1px solid #678b3f; /*THEME CHANGE HERE*/
+
-
padding: 2px 0;
+
-
text-decoration: none;
+
-
color: black;
+
-
}
+
-
 
+
-
* html .dropmenudiv_a a{ /*IE only hack*/
+
-
width: 100%;
+
-
}
+
-
 
+
-
.dropmenudiv_a a:hover{ /*THEME CHANGE HERE*/
+
-
background-color: #8a3c3d;
+
-
color: white;
+
-
}
+
-
</style>
+
-
</head>
+
-
 
+
-
<!-- CSS for Drop Down Tabs Menu #1 -->
+
-
<link rel="stylesheet" type="text/css" href="ddcolortabs.css" />
+
-
 
+
-
<div id="colortab" class="ddcolortabs">
+
-
<ul>
+
-
<li><a href="https://2008.igem.org/Team:Edinburgh" title="Home"><span>Home</span></a></li>
+
-
<li><a href="https://2008.igem.org/Team:Edinburgh/Project" title="Project" rel="dropmenu1_a"><span>The Project</span></a></li>
+
-
<li><a href="https://2008.igem.org/Team:Edinburgh/Team" title="Team" ><span>The Team</span></a></li>
+
-
<li><a href="http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2008&group=Edinburgh" title="Project" rel="dropmenu1_a"><span>BioBrick Parts</span></a></li>
+
-
<li><a href="https://2008.igem.org/Team:Edinburgh/Modeling" title="Modelling" rel="dropmenu2_a"><span>Modelling</span></a></li>
+
-
<li><a href="https://2008.igem.org/Team:Edinburgh/Notebook" title="Notebook"><span>Notebook</span></a></li>
+
-
</ul>
+
-
</div>
+
-
<div class="ddcolortabsline">&nbsp;</div>
+
-
<div id="dropmenu1_a" class="dropmenudiv_a">
+
-
<a href="https://2008.igem.org/Team:Edinburgh/Team">Overview</a>
+
-
<a href="https://2008.igem.org/Team:Edinburgh/Team">Step1</a>
+
-
<a href="https://2008.igem.org/Team:Edinburgh/Team">Step2</a>
+
-
</div>
+
-
<script type="text/javascript">
+
-
//SYNTAX: tabdropdown.init("menu_id", [integer OR "auto"])
+
-
tabdropdown.init("colortab", 3)
+
-
</script>
+
-
</html>
+
-
 
+
-
[[Image:Edinburgh-UniversityLogo.jpg|thumb|150px|left]] [[Image:Edinburgh-Logo4.jpg|thumb|100px|right|Our bacteria could even render the livelihoods of TV chefs redundant.]]
+
-
 
+
-
'''''Welcome to the University of Edinburgh 2008 iGEM Team Wiki!'''''
+
-
歡迎光臨愛丁堡大學2008年iGEM隊之維基!
+
== Further Considerations ==
-
==Introduction==
+
In the pursuit of our project, as well as the biological aspects, we:
-
The rising cost of food coupled to the apparent unsustainability of the human race at its current size and with current land use and technologies makes this the perfect time to contemplate the restructuring of global agriculture. With this in mind, the Edinburgh '08 iGEM team are investigating the possibility of engineering bacteria to synthesise starch from waste biomass, either for use as a food-source or an energy-source, the latter freeing up the land currently being used for biocrops for the growth of food crops.
+
* considered aspects of [https://2008.igem.org/Team:Edinburgh/Modelling scale-up], including the [https://2008.igem.org/Team:Edinburgh/ELSI ethical, legal and social implications] of our potential final product, MicroMaize,
 +
* programmed [https://2008.igem.org/Team:Edinburgh/Software a new piece of software] for use in metabolic modelling,
 +
* [https://2008.igem.org/Team:Edinburgh/Protocols developed and tested a number of new techniques] to make the process of creating BioBricks<sup>TM</sup> that little bit easier,
 +
* collaborated with [https://2008.igem.org/Team:Guelph the University of Guelph team], sharing carotenoid synthesis genes, flux modulators, and gram positive plasmids.

Latest revision as of 10:48, 7 July 2010


Welcome to the University of Edinburgh 2008 iGEM Team Wiki!

Edinburgh-Panorama.jpg


Contents

Introduction: Global problems

  • It has been predicted that by 2015 supplies of easy-to-access oil and natural gas will no longer keep up with demand. This prediction is based on the current rate of consumption, but this is expect to increase. The repercussions of this are already being felt on a global level with food prices rising.
  • The burning of fossil fuels is also fuelling global warming. This is having negative effects on crop yields worldwide, with longer droughts occurring year on year, especially in Africa and Australia. The melting of the polar ice-caps which accompanies this will raise sea-levels, inundating currently arable land, reducing the land available for an ever enlarging world population.
  • At present the major alternative to fossil fuel use for transport comes from ethanol fermented from starch and sugar in sugar cane and soy bean. These biofuel crops are being grown in areas previously used for food crops or in previously pristine natural environments, and thus are unsustainable.


All this is burdening the global economy and destroying lives, and worse is likely to come.

Wouldn't it be brilliant if we could do something to counter this trend?

This is what the Edinburgh 2008 iGEM team have been trying to do. - The rising cost of food coupled to the current unsustainability of human activity makes this the perfect time to contemplate the restructuring of global agriculture.

Primary Objective: A single sustainable bacterial solution

A false-colour SEM of MicroMaize cells.

We have been investigating engineering bacteria to produce starch from the cellulose in waste biomass (that is agricultural waste, wood chippings, waste from paper production etc.). This starch could be:

  1. sold to the biofuels industry for conversion to ethanol
  2. used as feed for livestock
  3. used as a starch supplement in the human diet if needed.

This will reduce our dependence on fossil fuels and free up agricultural land for the growth of food crops, ultimately putting less strain on ecosystems.

Secondary Objective: Solving vitamin A deficiency in the developing world

We have also been continuing the work of our 2007 team in engineering Escherichia coli to produce the vitamin A precursor β-carotene. Vitamin A is required for vision and a healthy immune system. 250,000-500,000 children in the developing world lose their vision each year, half of them dying within 12 months of this ([http://www.who.int/nutrition/topics/vad/en/ WHO]).

Further Considerations

In the pursuit of our project, as well as the biological aspects, we: