Difference between revisions of "Team:BGU ISRAEL/Parts"

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                    <a class="navbar-brand" href="https://2016.igem.org/Team:BGU_ISRAEL"><img class="OurLogo" alt="bgu_logo_plasticure" src="https://static.igem.org/mediawiki/2016/b/b2/White_plasticure_for_bar_site.png">
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                    </a>
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                        <li class="dropdown" id="HomeB"><a class="dropdown-toggle" href="https://2016.igem.org/Team:BGU_ISRAEL">Home</a>
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                        <li class="dropdown" id="projectB"><a class="dropdown-toggle" href="https://2016.igem.org/Team:BGU_ISRAEL/Project">Project</a>
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                            <ul class="dropdown-menu submenubgu">
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Description">Description</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Design">Design</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Experiments">Experiments</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Results">Results</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Protocols">Protocols</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Notebook">Notebook</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Achievements">Achievements</a></li>
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                            </ul>
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                        </li>
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                        <li class="dropdown" id="teamB"><a href="https://2016.igem.org/Team:BGU_ISRAEL/Team">Team</a>
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                            <ul class="dropdown-menu submenubgu">
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/TeamMembers">Members</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/MeetUniversity">Meet Our University</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/MeetTown">Meet Our Town</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Collaborations">Collaborations</a></li>
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                            </ul>
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                        </li>
  
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                        <li class="dropdown" id="partsB" style="background-color: #77DD77;"><a class="dropdown-toggle" href="https://2016.igem.org/Team:BGU_ISRAEL/Parts">Parts</a>
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                            <ul class="dropdown-menu submenubgu">
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Parts#Overview">Overview</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Basic_Part">Basic Parts</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/ImprovedParts">Improved Parts</a></li>
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                            </ul>
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                        </li>
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                        <li class="dropdown" id="humanB"><a class="dropdown-toggle" href="https://2016.igem.org/Team:BGU_ISRAEL/Integrated_Practices">Human Practices</a>
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                            <ul class="dropdown-menu submenubgu">
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Integrated_Practices">Integrated Practices</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/PlasticArt">Plastic Art</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/EthicsAndSafety">Ethics & Safety</a></li>
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                            </ul>
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                        </li>
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                        <li class="dropdown" id="attributionsB"><a class="dropdown-toggle" href="https://2016.igem.org/Team:BGU_ISRAEL/Attributions">Attributions</a></li>
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                        <li class="dropdown" id="awardsB"><a class="dropdown-toggle" href="https://2016.igem.org/Team:BGU_ISRAEL/Awards">Awards</a>
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                            <ul class="dropdown-menu submenubgu">
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Entrepreneurship">Entrepreneurship</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Measurements">Measurements</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Proof">Proof Of Concept</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Demonstrate">Demonstrate</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/HP/Silver">HP - Silver</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/HP/Gold">HP - Gold</a></li>
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                                <li><a href="https://2016.igem.org/Team:BGU_ISRAEL/Engagement">Engagements</a></li>
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                            </ul>
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                        </li>
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                    </ul>
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                            <div class="col-lg-8">
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                                <p class="bigAssHeader">Overview</p>
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                                <div class="partOverviewText">
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                                    <p>
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                                        We have decided to submit 9 new BioBricks this year, which are separated into 2 categories:
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                                    </p>
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                                    <ol>
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                                        <li>
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                                            The chassis for our project is based on the <i>Pseudomonas putida</i> bacterium, for its ability to utilize aromatic molecules, mainly focusing on protocatechuate. We have decided to contribute the the iGEM part repository by submitting the genes encoding the enzymes participating in the protocatechuate degradation pathway, in which Protocatechuate, a toxic molecule for most bacteria, is converted to 3-oxoadipate. One of the genes, pcaB, had 4 PstI restriction cut sites and we did not have enough time to introduce silent mutations to the sequence, hence we did not clone and submit it. All 4 other genes were cloned into the pSB1C3 vector and submitted. 
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                                        </li>
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                                        <li>
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                                            Another part of our project involves engineering of the LC-Cutinase protein. We have chosen the LC-Cutinase protein as a target for rational mutagenesis for its PET degrading activity, and using the PROSS algorithm produced 4 mutants.
 +
                                            We have also designed a codon optimized version of the W.T. protein.
 +
                                            We have cloned and submitted all 5 LC-Cutinase variants.
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                                        </li>
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                                    </ol>
  
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                                <img class="partOverviewPic" src="https://static.igem.org/mediawiki/2016/b/b6/BioBrick_overviewBGU.png">
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                                <br>
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                                        <a href="https://2016.igem.org/Team:BGU_ISRAEL/Basic_Part" class="btn btn-primary infobtn" role="button">Basic Parts</a>
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                                    </div>
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                                    <div class='col-lg-5'>
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                                        <a href="https://2016.igem.org/Team:BGU_ISRAEL/ImprovedParts" class="btn btn-primary infobtn" role="button">Improved Parts</a>
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                                    </div>
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                                </div>
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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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            <a href="#" class="back-to-top">
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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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                    <h4>Address:</h4>
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                        Ben-Gurion University of the Negev<br>
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                        Ben Gurion 1, Beer Sheva 8410501, Israel
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<h5>Note</h5>
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                    </p>
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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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                    <h5>
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</div>
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                        <b><u>Mail:</u></b> igembgu2016@gmail.com
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                    </h5>
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                </div>
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                    <h4>Connect With Us!</h4>
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<h5>Adding parts to the registry</h5>
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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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                                <div class="col-lg-4 socialWrapper">
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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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                                    <a href="https://www.facebook.com/iGEMBGU/?fref=ts" target="_blank"><img class="socialMediaIcon" src="https://static.igem.org/mediawiki/2016/7/7d/FacebookFlatIcon.png" alt="facebook"></a>
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                                    <a href="https://twitter.com/igembgu2016" target="_blank"><img class="socialMediaIcon" src="https://static.igem.org/mediawiki/2016/3/34/TwitterFlatIcon.png" alt="twitter"></a>
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<h5>What information do I need to start putting my parts on the Registry?</h5>
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                        </div>
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<p>The information needed to initially create a part on the Registry is:</p>
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                    </div>
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<ul>
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                </div>
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<li>Part Name</li>
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            </div>
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<li>Part type</li>
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        </div>
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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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−
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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<h5>Inspiration</h5>
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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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−
<ul>
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−
<li><a href="https://2014.igem.org/Team:MIT/Parts"> 2014 MIT </a></li>
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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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<h5>Part Table </h5>
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<groupparts>iGEM2016 Example</groupparts>
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Latest revision as of 14:54, 19 October 2016

PlastiCure

Overview

We have decided to submit 9 new BioBricks this year, which are separated into 2 categories:

  1. The chassis for our project is based on the Pseudomonas putida bacterium, for its ability to utilize aromatic molecules, mainly focusing on protocatechuate. We have decided to contribute the the iGEM part repository by submitting the genes encoding the enzymes participating in the protocatechuate degradation pathway, in which Protocatechuate, a toxic molecule for most bacteria, is converted to 3-oxoadipate. One of the genes, pcaB, had 4 PstI restriction cut sites and we did not have enough time to introduce silent mutations to the sequence, hence we did not clone and submit it. All 4 other genes were cloned into the pSB1C3 vector and submitted.
  2. Another part of our project involves engineering of the LC-Cutinase protein. We have chosen the LC-Cutinase protein as a target for rational mutagenesis for its PET degrading activity, and using the PROSS algorithm produced 4 mutants. We have also designed a codon optimized version of the W.T. protein. We have cloned and submitted all 5 LC-Cutinase variants.

Basic Parts
Improved Parts

Address:

Ben-Gurion University of the Negev
Ben Gurion 1, Beer Sheva 8410501, Israel

Mail: igembgu2016@gmail.com

Connect With Us!