Difference between revisions of "Team:Pretoria UP"

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    <h2>Notebook</h2>
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<!--<img id="Banner" alt="Banner By Natascha Muller" src="/wiki/images/5/54/Team_Pretoria_UP_banner.jpg" />
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<h4 id="description">SYNCHRONIZED, CONDITIONAL, IRREVERSIBLE CHEMOTAXIS PROGRAMMING...</h4>
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<h3 style="clear:both;"> Project Description </h3>
 
  
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<h4>Before you start: </h4>
 
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<p> Please read the following pages:</p>
 
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<li>  <a href="https://2015.igem.org/Requirements">Requirements page </a> </li>
 
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            <th class="AJR_TH"> <h4>Type</h4> </th>
 +
        <th class="AJR_TH"> <h4 style="width:160px; text-align: center;">Date</h4> </th>
 +
            <th class="AJR_TH"> <h4 style="text-align: center;"> Activity</h4> </b></th>
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            <th class="AJR_TH"> <h4 style="text-align: center;">Participants </h4> </b></th>
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        <tr class="" ><td class="AJR_TD" ></td><img id="Banner" alt="Hand" src="/wiki/images/7/73/Up_human.png" /> <td class="AJR_TD" > 2015-03-03 </td> <td class="AJR_TD" > Introduction to iGEM by advisor Steven Hussey.
 +
                Examples of successful iGEM projects were discussed.
 +
                Started to think about project ideas. </td> <td class="AJR_TD" > Interested parties and advisor Steven Hussey </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-03-24 </td> <td class="AJR_TD" > Participation criteria for iGEM team discussion.
 +
                Attendance by 19 interested students, final team size will be 8.
 +
                Applications for Pretoria UP iGEM team by 13 April. </td> <td class="AJR_TD" > Interested parties and advisor Steven Hussey </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-04-21 </td> <td class="AJR_TD" > The iGEM kit arrived </td> <td class="AJR_TD" > </td> </tr>
  
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-04-24 </td> <td class="AJR_TD" > Selection of final team members:
 +
                Axel Ind
 +
                Ricu Claassens
 +
                Vaughn Barendsen
 +
                Nomakula Zim
 +
                Thabang Msimango
 +
                Modjadji Makwela
 +
                Gert Pietersen
 +
                Brad Querl </td> <td class="AJR_TD" > Interested parties and advisor Steven Hussey </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-04-28 </td> <td class="AJR_TD" > First meeting as the UP iGEM team 2015
 +
                Registration of team with iGEM HQ
 +
                Shortlisting of project ideas from which we would choose the best one to work on as a team
 +
                Introduction to BioBricks and how the repository works </td> <td class="AJR_TD" > Interested parties and advisor Steven Hussey </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-05-09 </td> <td class="AJR_TD" > Brainstorming workshop
 +
                We decided to build on WITS_CSIR’s Chemotactic “Biotweet” design
 +
                Discussed 5 potential improvements we could add:
 +
                1) E.coli torrents (information collation)
 +
                2) Travel history
 +
                3) ”Mob-coli”
 +
                4) Trade routes visualisation of motile E. coli
 +
                5) Conditional “Reply Tweet” </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-05-19 </td> <td class="AJR_TD" > 2015 iGEM project proposal
 +
                Prototype Circuit design:
 +
            </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-05-30 </td> <td class="AJR_TD" > Split the team into smaller groups to work in parallel on each functional module in the prototype, researching previous iGEM projects with similar components and browsing the iGEM BioBrick repository for desired BioBricks </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-06-05 </td> <td class="AJR_TD" > The team was now at the stage where it could decide on which components to test and how
 +
                Recap on the different BioBrick assembly methods
 +
                Developed procedure for characterising our constructs deciding on aspects such as choice of vector, experimental conditions and competition requirements.
 +
                Refinement of switch: adoption of a permanent genetic switch
 +
            </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-06-12 </td> <td class="AJR_TD" > Decided on focusing our efforts on two modules and split the team in two groups to work on the separate modules:
 +
                Cre recombinase switch
 +
                AND gate
 +
                Whatsapp and Facebook groups were created for communication purposes.
 +
                A Google drive account was also created for the team to store all the work in one place.
 +
                Identified possible complications with the Cre recombinase system. </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-06-25 </td> <td class="AJR_TD" > The two initial designs for the modules that are being characterised:
 +
                AND logic gate
 +
                Recombinase Switch design </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-06-29 </td> <td class="AJR_TD" > Discussed the possibility of attending the jamboree and how we could go about acquiring funding before September. </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-06-30 </td> <td class="AJR_TD" > Discussed the inverter switch mechanism and confirmed our design of the parts required to characterise this module.
 +
                BioBrick specifications were discussed in context of the assembly standard 10. </td> <td class="AJR_TD" > </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-07-02 </td> <td class="AJR_TD" > Concerns raised about which plasmids to use for the experimental work to follow – multiple antibiotic resistance genes would be required.
 +
                It was decided that the parts would be cloned into pSB plasmids for the characterisation.
 +
                Decided that we would not have time to test the “AND” gate </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-07-06 </td> <td class="AJR_TD" > Discussed obtaining team shirts
 +
                Logo discussed to represent our team
 +
                Experimental procedures, as well as which track we are going to complete in in the jamboree. </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-07-20 </td> <td class="AJR_TD" > Finished compiling the sequences for gBlock synthesis and placed the order at IDT. </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-07-21 </td> <td class="AJR_TD" > The whole team is back from the holidays  and ready for the final stretch before the Jamboree </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-07-28 </td> <td class="AJR_TD" > A budget for travel, residence, living expenses and registration for the Jamboree was compiled </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-07-29 </td> <td class="AJR_TD" > Email was sent to our iGEM HQ representative  about the progress we are making and the current status of our project. </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
 +
        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-07-31 </td> <td class="AJR_TD" > The teams financial position and important decisions regarding the future directions
 +
                ·        Funding for the whole team to attend the giant jamboree would be impossible for 2015
 +
                ·        Two representatives and our academic representative would attend the jamboree
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                ·        A formal nomination and election process was held to chose representatives
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                gBlock synthesis order placed from IDT - promotion
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                Much of the wiki content already developed offline </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
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        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-08-01 </td> <td class="AJR_TD" > First labwork completed: transformations for the GFP and RFP positive control constructs
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                Finally decide on a team name for our project: ”Switch Coli” </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
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        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-08-07 </td> <td class="AJR_TD" > Submission of abstract for the team’s project </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
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        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-08-14 </td> <td class="AJR_TD" > Our team logo with the help of a qualified graphic designer – Marilyn Ekoka.
  
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                Prioritised content for the wiki </td> <td class="AJR_TD" > UP iGEM team 2015 and graphic designer Marilyn Ekoka </td> </tr>
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<h4> Styling your wiki </h4>
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        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-08-28 </td> <td class="AJR_TD" > Completed the iGEM safety form
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<p>You may style this page as you like or you can simply leave the style as it is. You can easily keep the styling and edit the content of these default wiki pages with your project information and completely fulfill the requirement to document your project.</p>
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                Developed a survey which will be completed as part of the human practices aspect of our project </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
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<p>While you may not win Best Wiki with this styling, your team is still eligible for all other awards. This default wiki meets the requirements, it improves navigability and ease of use for visitors, and you should not feel it is necessary to style beyond what has been provided.</p>  
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        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-08-29 </td> <td class="AJR_TD" > We received our six gBlocks fragments and started cloning our BioBricks </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
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        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-09-04 </td> <td class="AJR_TD" > We participate in our first community outreach, at Lehlabile secondary School in Mamelodi. Gave a presentation on synthetic biology to Grade 11 science pupils, discussed synthetic biology innovation, and asked them to fill out our survey. </td> <td class="AJR_TD" > Lehlabile secondary School in Mamelodi grade 11 pupils and UP iGEM team 2015 </td> </tr>
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        <tr class="" ><td class="AJR_TD" ></td> <td class="AJR_TD" > 2015-09-06 </td> <td class="AJR_TD" > First set of content added to wiki </td> <td class="AJR_TD" > UP iGEM team 2015 </td> </tr>
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    </table>
  
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<h4>Tips</h4>
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<li>You have a global audience! Consider the different backgrounds that your users come from.</li>
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<li>Avoid using very small fonts and low contrast colors; information should be easy to read.  </li>
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<li>Start documenting your project as early as possible; don’t leave anything to the last minute before the Wiki Freeze. For a complete list of deadlines visit the <a href="https://2015.igem.org/Calendar_of_Events">iGEM 2015 calendar</a> </li>
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<li>Have lots of fun! </li>
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<li> <a href="https://2014.igem.org/Team:LMU-Munich">2014 LMU-Munich</a> </li>
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<li> <a href="https://2014.igem.org/Team:Michigan"> 2014 Michigan</a></li>
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<li> <a href="https://2014.igem.org/Team:ITESM-Guadalajara">2014 ITESM-Guadalajara </a></li>
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<li> <a href="https://2014.igem.org/Team:SCU-China"> 2014 SCU-China </a></li>
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Revision as of 21:19, 12 September 2015

Notebook



Type

Date

Activity

Participants

2015-03-03 Introduction to iGEM by advisor Steven Hussey. Examples of successful iGEM projects were discussed. Started to think about project ideas. Interested parties and advisor Steven Hussey
2015-03-24 Participation criteria for iGEM team discussion. Attendance by 19 interested students, final team size will be 8. Applications for Pretoria UP iGEM team by 13 April. Interested parties and advisor Steven Hussey
2015-04-21 The iGEM kit arrived
2015-04-24 Selection of final team members: Axel Ind Ricu Claassens Vaughn Barendsen Nomakula Zim Thabang Msimango Modjadji Makwela Gert Pietersen Brad Querl Interested parties and advisor Steven Hussey
2015-04-28 First meeting as the UP iGEM team 2015 Registration of team with iGEM HQ Shortlisting of project ideas from which we would choose the best one to work on as a team Introduction to BioBricks and how the repository works Interested parties and advisor Steven Hussey
2015-05-09 Brainstorming workshop We decided to build on WITS_CSIR’s Chemotactic “Biotweet” design Discussed 5 potential improvements we could add: 1) E.coli torrents (information collation) 2) Travel history 3) ”Mob-coli” 4) Trade routes visualisation of motile E. coli 5) Conditional “Reply Tweet” UP iGEM team 2015
2015-05-19 2015 iGEM project proposal Prototype Circuit design: UP iGEM team 2015
2015-05-30 Split the team into smaller groups to work in parallel on each functional module in the prototype, researching previous iGEM projects with similar components and browsing the iGEM BioBrick repository for desired BioBricks UP iGEM team 2015
2015-06-05 The team was now at the stage where it could decide on which components to test and how Recap on the different BioBrick assembly methods Developed procedure for characterising our constructs deciding on aspects such as choice of vector, experimental conditions and competition requirements. Refinement of switch: adoption of a permanent genetic switch UP iGEM team 2015
2015-06-12 Decided on focusing our efforts on two modules and split the team in two groups to work on the separate modules: Cre recombinase switch AND gate Whatsapp and Facebook groups were created for communication purposes. A Google drive account was also created for the team to store all the work in one place. Identified possible complications with the Cre recombinase system. UP iGEM team 2015
2015-06-25 The two initial designs for the modules that are being characterised: AND logic gate Recombinase Switch design UP iGEM team 2015
2015-06-29 Discussed the possibility of attending the jamboree and how we could go about acquiring funding before September. UP iGEM team 2015
2015-06-30 Discussed the inverter switch mechanism and confirmed our design of the parts required to characterise this module. BioBrick specifications were discussed in context of the assembly standard 10.
2015-07-02 Concerns raised about which plasmids to use for the experimental work to follow – multiple antibiotic resistance genes would be required. It was decided that the parts would be cloned into pSB plasmids for the characterisation. Decided that we would not have time to test the “AND” gate UP iGEM team 2015
2015-07-06 Discussed obtaining team shirts Logo discussed to represent our team Experimental procedures, as well as which track we are going to complete in in the jamboree. UP iGEM team 2015
2015-07-20 Finished compiling the sequences for gBlock synthesis and placed the order at IDT. UP iGEM team 2015
2015-07-21 The whole team is back from the holidays and ready for the final stretch before the Jamboree UP iGEM team 2015
2015-07-28 A budget for travel, residence, living expenses and registration for the Jamboree was compiled UP iGEM team 2015
2015-07-29 Email was sent to our iGEM HQ representative about the progress we are making and the current status of our project. UP iGEM team 2015
2015-07-31 The teams financial position and important decisions regarding the future directions · Funding for the whole team to attend the giant jamboree would be impossible for 2015 · Two representatives and our academic representative would attend the jamboree · A formal nomination and election process was held to chose representatives gBlock synthesis order placed from IDT - promotion Much of the wiki content already developed offline UP iGEM team 2015
2015-08-01 First labwork completed: transformations for the GFP and RFP positive control constructs Finally decide on a team name for our project: ”Switch Coli” UP iGEM team 2015
2015-08-07 Submission of abstract for the team’s project UP iGEM team 2015
2015-08-14 Our team logo with the help of a qualified graphic designer – Marilyn Ekoka. Prioritised content for the wiki UP iGEM team 2015 and graphic designer Marilyn Ekoka
2015-08-28 Completed the iGEM safety form Developed a survey which will be completed as part of the human practices aspect of our project UP iGEM team 2015
2015-08-29 We received our six gBlocks fragments and started cloning our BioBricks UP iGEM team 2015
2015-09-04 We participate in our first community outreach, at Lehlabile secondary School in Mamelodi. Gave a presentation on synthetic biology to Grade 11 science pupils, discussed synthetic biology innovation, and asked them to fill out our survey. Lehlabile secondary School in Mamelodi grade 11 pupils and UP iGEM team 2015
2015-09-06 First set of content added to wiki UP iGEM team 2015