Difference between revisions of "Team:IIT Kharagpur/Parts"

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{{IIT_Kharagpur}}
 
 
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<h2> Part Documentation</h2>
 
  
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<p>Each team will make new parts during iGEM and will submit them to the Registry of Standard Biological Parts. The iGEM software provides an easy way to present the parts your team has created. The <code>&lt;groupparts&gt;</code> tag (see below) will generate a table with all of the parts that your team adds to your team sandbox.</p>
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<style>
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<p>Remember that the goal of proper part documentation is to describe and define a part, so that it can be used without needing to refer to the primary literature. Registry users in future years should be able to read your documentation and be able to use the part successfully. Also, you should provide proper references to acknowledge previous authors and to provide for users who wish to know more.</p>
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#contentSub, #search-controls, .firstHeading, #footer-box, #catlinks, #p-logo {
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<h4>Note</h4>
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<p>Note that parts must be documented on the <a href="http://parts.igem.org/Main_Page"> Registry</a>. This page serves to <i>showcase</i> the parts you have made. Future teams and other users and are much more likely to find parts by looking in the Registry than by looking at your team wiki.</p>
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<h4>Adding parts to the registry</h4>
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<p>You can add parts to the Registry at our <a href="http://parts.igem.org/Add_a_Part_to_the_Registry">Add a Part to the Registry</a> link.</p>
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<p>We encourage teams to start completing documentation for their parts on the Registry as soon as you have it available. The sooner you put up your parts, the better you will remember all the details about your parts. Remember, you don't need to send us the DNA sample before you create an entry for a part on the Registry. (However, you <b>do</b> need to send us the DNA sample before the Jamboree. If you don't send us a DNA sample of a part, that part will not be eligible for awards and medal criteria.)</p>
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<head>
  
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<h4>What information do I need to start putting my parts on the Registry?</h4>
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<link rel="stylesheet" href="https://2015.igem.org/Team:IIT_Kharagpur/bootstrap?action=raw&amp;ctype=text/css" type="text/css" />
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<p>The information needed to initially create a part on the Registry is:</p>
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<link rel="stylesheet" href="https://2015.igem.org/Team:IIT_Kharagpur/style?action=raw&amp;ctype=text/css" type="text/css">
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<ul>
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<script src="https://2015.igem.org/Team:IIT_Kharagpur/bootstrapjs?action=raw&amp;ctype=text/javascript"></script>
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<li>Part Name</li>
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<li>Part type</li>
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<li>Creator</li>
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<li>Sequence</li>
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<li>Short Description (60 characters on what the DNA does)</li>
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<li>Long Description (Longer description of what the DNA does)</li>
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<li>Design considerations</li>
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</ul>
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<p>
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</head>
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We encourage you to put up <em>much more</em> information as you gather it over the summer. If you have images, plots, characterization data and other information, please also put it up on the part page. </p>
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<div class="jumbotron jumbo-home">
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<div class="menu">
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        <ul>
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          <li class="menu-logo"><a href="https://2015.igem.org/Team:IIT_Kharagpur"><img class='menu-logo-img' src='https://static.igem.org/mediawiki/2015/5/59/IIT_Kharagpur_menu_team_logo.png'/><div class="menu-logo-text">IGEM IIT </br> Kharagpur</div></a></li>
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          <li class="menu-li"><a href="https://2015.igem.org/Team:IIT_Kharagpur"><img class='menu-img' src='https://static.igem.org/mediawiki/2015/6/66/IIT_Kharagpur_menu_home.png'/><div class="menu-text">Home</div></a></li>
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          <li class="menu-li"><a href="https://2015.igem.org/Team:IIT_Kharagpur/project"><img class="menu-project-img menu-img" src="https://static.igem.org/mediawiki/2015/6/61/IIT_Kharagpur_menu_project.png" /><div class="menu-text">Project</div></a>
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          <ul>
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                  <li><a href="https://2015.igem.org/Team:IIT_Kharagpur/project">About</li>
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                  <li><a href="https://2015.igem.org/Team:IIT_Kharagpur/parts">Parts</li>
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                  <li><a href="https://2015.igem.org/Team:IIT_Kharagpur/modeling">Modeling</a></li>
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            </ul>
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          </li>
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          <li class="menu-li"><a href="https://2015.igem.org/Team:IIT_Kharagpur/team"><img class="menu-team-img menu-img" src="https://static.igem.org/mediawiki/2015/2/2d/IIT_Kharagpur_menu_team.png" /><div class="menu-text">Team</div></a></li>
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          <li class="menu-li"><a href="https://2015.igem.org/Team:IIT_Kharagpur/notebook"><img class="menu-notebook-img menu-img" src="https://static.igem.org/mediawiki/2015/f/f6/IIT_Kharagpur_menu_notebook.png" /><div class="menu-text">Notebook</div></a></li>
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          <li class="menu-li"><a href="https://2015.igem.org/Team:IIT_Kharagpur/practices"><img class="menu-modeling-img menu-img" src="https://static.igem.org/mediawiki/2015/7/7e/IIT_Kharagpur_menu_modeling.png" /><div class="menu-text">Practices</div></a>
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          </li>
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          <li class="menu-li"><a href="https://2015.igem.org/Team:IIT_Kharagpur/safety"><img class="menu-achievements-img menu-img" src="https://static.igem.org/mediawiki/2015/2/2f/IIT_Kharagpur_menu_safety.png" /><div class="menu-text">Safety</div></a></li>
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          <li class="menu-li"><a href="https://2015.igem.org/Team:IIT_Kharagpur/blog.html"><img class="menu-safety-img menu-img" src="https://static.igem.org/mediawiki/2015/2/27/IIT_Kharagpur_menu_blog.png" /><div class="menu-text">Blog</div></a></li>
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        </ul>
  
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<h4>Inspiration</h4>
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      </div>
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<p>We have a created  a <a href="http://parts.igem.org/Well_Documented_Parts">collection of well documented parts</a> that can help you get started.</p>
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<p> You can also take a look at how other teams have documented their parts in their wiki:</p>
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<div class="logo">
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<ul>
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<img class="team-logo-outer"src="https://static.igem.org/mediawiki/2015/3/3e/IIT_Khargpur_home_team_logo_outer.png" />
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<li><a href="https://2014.igem.org/Team:MIT/Parts"> 2014 MIT </a></li>
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<img class="team-logo-inner"src="https://static.igem.org/mediawiki/2015/b/b5/IIT_Kharagpur_home_team_logo_inner.png" />
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<li><a href="https://2014.igem.org/Team:Heidelberg/Parts"> 2014 Heidelberg</a></li>
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<li><a href="https://2014.igem.org/Team:Tokyo_Tech/Parts">2014 Tokyo Tech</a></li>
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</ul>
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<img class="home-text"src="https://static.igem.org/mediawiki/2015/d/d3/IIT_Kharagpur_home-text.png" />
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</div>
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<img class="home-text-icon"src="https://static.igem.org/mediawiki/2015/7/74/IIT_Khargpur_home_text_icon.png" />
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</div>
  
  
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<h4>Part Table </h4>
 
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<groupparts>iGEM015 Example</groupparts>
 
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<div class="container main-mid1" id="main-mid1">
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<div class="row">
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<div class="project-heading">
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<h2>Overview</h2>
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</div>
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</div>
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<div class="row">
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<div class="col-lg-6 col-md-6 project-description">
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The gene involved in lycopene expression: crtEBI and autoinducer detector: luxR gene  are cloned into pSB1C3.The final construct involves:</br></br>
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1. Part A: luxpR+reporter gene </br>
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2. Part B: luxpL+luxR </br>
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3. Vector backbone</br>
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Individual composite parts and the final construct are built using standard assembly method.
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</div>
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<div class="col-lg-6 col-md-6 col-sm-12 project-pic1">
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<img src="img/project_1.jpg"/>
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</div>
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</div>
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<h2>Standard Bio Brick Assembly Used</h2>
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<h2>BBa_K274100 aka The Reporter Gene:</h2>
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<div class="row">
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<div class="col-lg-6 col-md-6 project-description">
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We are using the biobrick part - BBa_K274100 as our reporter gene. This part contains three other genes: BBa_K118014, BBa_K118006 and BBa_K118005. These three sub-parts are responsible for the enzymes CrtE, CrtB and CrtI respectively. This whole assembly is obtained on an ampicillin resistant plasmid pSB1A2. These three enzymes together form a red lycopene pigment with farnesyl pyrophosphate as a substrate. All these three genes have their respective ribosome binding sites before their sequence. This composite biobrick is put under constitutive promoter R0011 and arabinose-inducible promoter I0500 transformed and has been tested in E.coli strain MG1655
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</div>
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<div class="col-lg-6 col-md-6 col-sm-12">
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<img src="img/project_2.gif"/>
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</div>
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</div>
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<h2>BBa_K546003 aka The LuxR Gene</h2>
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<div class="row">
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<div class="col-lg-6 col-md-6 project-description">
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For the LuxR gene we have used the biobrick part - BBa_K546003. This whole part consists of LuxR + lux pR promoter which is regulated by the promoter lux pL. It acts as a binding site for RNA polymerase for the transcription of gene LuxR.
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</div>
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<div class="col-lg-6 col-md-6 col-sm-12">
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<img src="img/project_2.gif"/>
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</div>
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</div>
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<h2>Standard Assembly method</h2>
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<div class="row">
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<div class="col-lg-6 col-md-6 project-description">
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One of the biobricks is isolated by cleavage with restriction enzymes EcoRI and SpeI. The vector with second biobrick is linearized using double digestion at two very close sites of EcoRI and XbaI. After gel purification, the insert is then ligated into the linearized vector at sticky ends of EcoRI and compatible XbaI and SpeI.</br></br>
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Enzymes used for digestions are EcoRI,XbaI, SpeI and PstI.
 +
</div>
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<div class="col-lg-6 col-md-6 col-sm-12">
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<img src="img/project_2.gif"/>
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</div>
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</div>
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</div>
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<div class="container-fluid footer1">
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<div class="row">
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<div class="footer-content">
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<div class="col-lg-4">
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<a href="http://iitkgp.ac.in"><img src="https://static.igem.org/mediawiki/2015/2/25/IIT_Khargpur_iit_logo.png"></a>
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</div>
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<div class="col-lg-4" style="margin-top:34px;">
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<a href="">Department of Biotechnology </br>
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IIT Kharagpur</a>
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</div>
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<div class="col-lg-4">
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<h3>Connect</h3>
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<a target="_blank" href="https://www.facebook.com/iGEMIITKharagpur"><img class="social" src="https://static.igem.org/mediawiki/2015/5/56/IIT_Kharagpur_facebook.png"></a>
 +
<a target="_blank" href="https://twitter.com/igem_iitkgp"><img class="social" src="https://static.igem.org/mediawiki/2015/f/f5/IIT_Kharagpur_twitter.png"></a>
 +
<a target="_blank" href="https://www.youtube.com/channel/UC2NUjcEMwVyNxdLtsti3VRw"><img class="social" src="https://static.igem.org/mediawiki/2015/d/db/IIT_Kharagpur_youtube.png"></a>
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<button type="button" class="btn btn-default mail-button"><a href="mailto:someone@example.com?Subject=Hello%20again" target="_top">Mail Us</a></button>
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</div>
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</div>
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<div class="container-fluid footer2">
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<div class="col-lg-12">
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<div class="footer-cr">
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&copy 2015-2016 Team IIT_KHARAGPUR, All rights reserved.
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</div>
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</div>
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Revision as of 08:56, 18 September 2015

Overview

The gene involved in lycopene expression: crtEBI and autoinducer detector: luxR gene are cloned into pSB1C3.The final construct involves:

1. Part A: luxpR+reporter gene
2. Part B: luxpL+luxR
3. Vector backbone
Individual composite parts and the final construct are built using standard assembly method.

Standard Bio Brick Assembly Used

BBa_K274100 aka The Reporter Gene:

We are using the biobrick part - BBa_K274100 as our reporter gene. This part contains three other genes: BBa_K118014, BBa_K118006 and BBa_K118005. These three sub-parts are responsible for the enzymes CrtE, CrtB and CrtI respectively. This whole assembly is obtained on an ampicillin resistant plasmid pSB1A2. These three enzymes together form a red lycopene pigment with farnesyl pyrophosphate as a substrate. All these three genes have their respective ribosome binding sites before their sequence. This composite biobrick is put under constitutive promoter R0011 and arabinose-inducible promoter I0500 transformed and has been tested in E.coli strain MG1655

BBa_K546003 aka The LuxR Gene

For the LuxR gene we have used the biobrick part - BBa_K546003. This whole part consists of LuxR + lux pR promoter which is regulated by the promoter lux pL. It acts as a binding site for RNA polymerase for the transcription of gene LuxR.

Standard Assembly method

One of the biobricks is isolated by cleavage with restriction enzymes EcoRI and SpeI. The vector with second biobrick is linearized using double digestion at two very close sites of EcoRI and XbaI. After gel purification, the insert is then ligated into the linearized vector at sticky ends of EcoRI and compatible XbaI and SpeI.

Enzymes used for digestions are EcoRI,XbaI, SpeI and PstI.
Department of Biotechnology
IIT Kharagpur

Connect

&copy 2015-2016 Team IIT_KHARAGPUR, All rights reserved.