"
Team:UCSF/Project/Background2
From 2013.igem.org
(Difference between revisions)
| Line 5: | Line 5: | ||
<style type="text/css"> | <style type="text/css"> | ||
/*** | /*** | ||
| - | Minimal header: | + | Minimal header: |
| - | + | Thanks a lot to 2012 Calgary team for snippets of their code! | |
| - | Thanks a lot to | + | |
Check out their wikis at: | Check out their wikis at: | ||
| - | + | https://2012.igem.org/Team:Calgary | |
| - | https://2012.igem.org/Team: | + | |
***/ | ***/ | ||
| Line 147: | Line 145: | ||
text-decoration:underline; | text-decoration:underline; | ||
} | } | ||
| - | |||
| - | |||
| - | |||
| - | |||
/***Body styling***/ | /***Body styling***/ | ||
| Line 223: | Line 217: | ||
</style> | </style> | ||
| + | |||
| + | <!------------------------------Context Styles--------------------------------> | ||
<style> | <style> | ||
#mission {width: 500px; float:left; background-color: #F5F5F5; margin-left:8px; padding: 10px; margin-top:8px;} | #mission {width: 500px; float:left; background-color: #F5F5F5; margin-left:8px; padding: 10px; margin-top:8px;} | ||
| Line 228: | Line 224: | ||
#rightcontent {width:800px; float:right; background-color: #F5F5F5; margin-left: 8px; margin-top:10px;} | #rightcontent {width:800px; float:right; background-color: #F5F5F5; margin-left: 8px; margin-top:10px;} | ||
#photos {float:left; background-color: #FFFFFF; margin-left: 15px; margin-top:5px;} | #photos {float:left; background-color: #FFFFFF; margin-left: 15px; margin-top:5px;} | ||
| - | # | + | #leftcontenttext{float:left; background-color: #FFFFFF; margin-left: 15px; margin-top:5px;} |
#rightcontenttext {float:right; background-color: #FFFFFF; margin-left:15px; padding:10px; margin-top:0px;} | #rightcontenttext {float:right; background-color: #FFFFFF; margin-left:15px; padding:10px; margin-top:0px;} | ||
//#flickr{width:755px; float:right;} | //#flickr{width:755px; float:right;} | ||
| Line 234: | Line 230: | ||
| - | <!--------------------------------------------------------------------------> | + | <!---------------------------------Sidebar------------------------------------------> |
| - | <!---- | + | <!--Thanks a lot to 2012 SJTU-BioX-Shanghai team for snippets of their code! |
| + | Check out their wikis at: | ||
| + | https://2012.igem.org/Team:SJTU-BioX-Shanghai | ||
| + | --> | ||
| + | |||
| + | <!--Sidebar Scripts--> | ||
<script type="text/javascript" > | <script type="text/javascript" > | ||
function SDMenu(id) { | function SDMenu(id) { | ||
| Line 267: | Line 268: | ||
var states = match[1].split(""); | var states = match[1].split(""); | ||
for (var i = 0; i < states.length; i++) | for (var i = 0; i < states.length; i++) | ||
| - | this.submenus[i].className = (states[i] == 0 ? "collapsed" : ""); | + | this.submenus[i].className = (states[i] == 0 ? "collapsed" : ""); |
| + | } | ||
} | } | ||
}; | }; | ||
| Line 360: | Line 362: | ||
}; | }; | ||
</script> | </script> | ||
| - | |||
| - | <!---- | + | <!--End Sidebar Scripts--> |
| + | |||
| + | <!--Sidebar Styles--> | ||
<style type="text/css"> | <style type="text/css"> | ||
div.sdmenu { | div.sdmenu { | ||
| Line 410: | Line 413: | ||
} | } | ||
</style> | </style> | ||
| - | |||
<style type="text/css"> | <style type="text/css"> | ||
| Line 434: | Line 436: | ||
</script> | </script> | ||
| - | + | ||
</head> | </head> | ||
<body> | <body> | ||
| + | |||
| + | <!------------------------------------Sidebar-------------------------------------> | ||
<div class="floatbox" id="12SJTU_floatnav" style="top:200px; left:2px;"> | <div class="floatbox" id="12SJTU_floatnav" style="top:200px; left:2px;"> | ||
<table border="0" width="150" cellspacing="0" cellpadding="0"> | <table border="0" width="150" cellspacing="0" cellpadding="0"> | ||
| Line 443: | Line 447: | ||
<td width="100%"> | <td width="100%"> | ||
| - | |||
<script type="text/javascript"> | <script type="text/javascript"> | ||
| Line 458: | Line 461: | ||
</script> | </script> | ||
| - | |||
<div style="float: left" id="my_menu" class="sdmenu"> | <div style="float: left" id="my_menu" class="sdmenu"> | ||
<div class="collapsed"> | <div class="collapsed"> | ||
| Line 476: | Line 478: | ||
</div> | </div> | ||
| - | |||
| - | |||
| - | |||
| - | |||
</tr> | </tr> | ||
</table> | </table> | ||
| Line 512: | Line 510: | ||
</script> | </script> | ||
| + | <!------------------------------------End Sidebar-------------------------------------> | ||
| + | |||
| + | <!------------------------------------Comtext-------------------------------------> | ||
<div id="box1" align="justify"> | <div id="box1" align="justify"> | ||
<h1><center> Operation CRISPR: Deploying precision guided tools to target unique species in a complex microbiome </center></h1> | <h1><center> Operation CRISPR: Deploying precision guided tools to target unique species in a complex microbiome </center></h1> | ||
| - | <div id=" | + | <div id="leftcontenttext" style = "width: 740px;height:170px"> |
<p2>Rarely in nature do bacterial strains exist in isolation; they form complex microbial communities that interact with various organisms. We ourselves contain a major microbial community in our digestive tract that has shown to directly affect our health and well-being. As shown on the left, to improve and maintain healthly living it would be useful to have the ability to change the microbial community. For example, if a large of amount of a certain sugar was present in your gut ("signal #1") you might want to slow the growth of a certain bacterial populations . In another scenario ("signal #2") it might be useful to increase the growth of other specific bacteria in your gut. But targeting precise bacterial community strains and controlling their growth, activity, and outputs is difficult and requires many new tools.</p2> | <p2>Rarely in nature do bacterial strains exist in isolation; they form complex microbial communities that interact with various organisms. We ourselves contain a major microbial community in our digestive tract that has shown to directly affect our health and well-being. As shown on the left, to improve and maintain healthly living it would be useful to have the ability to change the microbial community. For example, if a large of amount of a certain sugar was present in your gut ("signal #1") you might want to slow the growth of a certain bacterial populations . In another scenario ("signal #2") it might be useful to increase the growth of other specific bacteria in your gut. But targeting precise bacterial community strains and controlling their growth, activity, and outputs is difficult and requires many new tools.</p2> | ||
</div> | </div> | ||
| Line 523: | Line 524: | ||
</div> | </div> | ||
| - | <div id=" | + | <div id="leftcontenttext" style = "width:740px; height:280px"> |
<p2>At the beginning of this summer, we asked ourselves a question: "What could we introduce to a microbiome which would allow targeting and eventual gene expression changes in a specific bacteria?" The difficulty faced with this situation is in:</p2> | <p2>At the beginning of this summer, we asked ourselves a question: "What could we introduce to a microbiome which would allow targeting and eventual gene expression changes in a specific bacteria?" The difficulty faced with this situation is in:</p2> | ||
<p2> 1. Introduce a targeting system into a defined mixture of bacteria such that you can select and introduce manipulations without negatively affecting other bacteria. </p2> | <p2> 1. Introduce a targeting system into a defined mixture of bacteria such that you can select and introduce manipulations without negatively affecting other bacteria. </p2> | ||
| Line 541: | Line 542: | ||
</div> | </div> | ||
| - | <div id=" | + | <div id="leftcontenttext" style = "width:300px; height:20px; margin-left:55px; margin-top:-5px" align="justify"> |
<p3><center>Amended from: http://www.cell.com/abstract/S0092-8674(13)00211-0?script=true</center></p3> | <p3><center>Amended from: http://www.cell.com/abstract/S0092-8674(13)00211-0?script=true</center></p3> | ||
</div> | </div> | ||
| Line 552: | Line 553: | ||
src="https://static.igem.org/mediawiki/2013/8/8b/Conjugation_Bkgrd_UCSF-1.png"> </center><br></div> | src="https://static.igem.org/mediawiki/2013/8/8b/Conjugation_Bkgrd_UCSF-1.png"> </center><br></div> | ||
| - | <div id=" | + | <div id="leftcontenttext" style = "width:740px; height:80px; margin-top:10px"align="justify"> |
<p1><center>The combination of conjugation and CRISPRi allows us to create a system capable of both transferring genetic instructions from one cell to another as well as targeting unique species in a microbial community through a specific gene. </center></p1> | <p1><center>The combination of conjugation and CRISPRi allows us to create a system capable of both transferring genetic instructions from one cell to another as well as targeting unique species in a microbial community through a specific gene. </center></p1> | ||
</div> | </div> | ||
| - | <div id=" | + | <div id="leftcontenttext" style = "width:740px; height:200px"> |
<h3>2. Creating scalable CRISPRi circuits that can choose between outcomes based on the input</h3> | <h3>2. Creating scalable CRISPRi circuits that can choose between outcomes based on the input</h3> | ||
<p2>In addition to our conjugation project, we have developed a <a href="https://2013.igem.org/Team:UCSF/Project/Circuit/Design" >CRISPRi circuit</a><span>, which could be delivered by the same conjugation system, that could apply to future regulatory applications (upregulation of bacterial growth, bacterial activity and behavior, gene expression, and other bacterial processes, etc.). Our circuit is multi-functional, eliciting different responses with the presence of different inducers and is scalable by incorporating additional designed plasmids or guide RNAs. The circuit relies on the use of CRISPRi gRNAs to provide scalability - several genes can be targeted for silencing, upregulation, or other needs. </p2> | <p2>In addition to our conjugation project, we have developed a <a href="https://2013.igem.org/Team:UCSF/Project/Circuit/Design" >CRISPRi circuit</a><span>, which could be delivered by the same conjugation system, that could apply to future regulatory applications (upregulation of bacterial growth, bacterial activity and behavior, gene expression, and other bacterial processes, etc.). Our circuit is multi-functional, eliciting different responses with the presence of different inducers and is scalable by incorporating additional designed plasmids or guide RNAs. The circuit relies on the use of CRISPRi gRNAs to provide scalability - several genes can be targeted for silencing, upregulation, or other needs. </p2> | ||
Revision as of 09:36, 28 October 2013
Operation CRISPR: Deploying precision guided tools to target unique species in a complex microbiome
1. Introducing CRISPRi to a bacterial community
1. CRISPRi utilizes gRNAs which are highly specific and customizable.
2. In principle it could be used to take advantage of unique DNA sequences to target specific bacterial species.
