Difference between revisions of "Team:Pretoria UP/Notebook"

Latest revision as of 21:42, 18 September 2015

Notebook

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 designed.	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.	Gert, Nomakula and various team members
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
2015-07-28	Ligation of gBlocks into pUC	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.	Gert, Nomakula and various team members
2015-07-29	Transformation of E. coli with biobricks	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
2015-09-08	Restriction digest of biobricks and vector( pSBC and pSBA) and ligation of biobricks into pSB vectors for submission and experimentation	UP iGEM team 2015
2015-09-12	Transformation of double-digest plasmids into cell lines	UP iGEM team 2015

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                      <th class="AJR_TH">	 	</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>
+                 <th class="AJR_TH">	 <h4 style="text-align: center;"> Activity</h4>	</th>
-                 <th class="AJR_TH">	 <h4 style="text-align: center;">Participants </h4>	</b></th>
+                 <th class="AJR_TH">	 <h4 style="text-align: center;">Participants </h4>	</th>
                  </tr>
@@ Line 263: / Line 272: @@
                  <tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/3/3e/Up_design.png" /></td>		<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" ><img id="Banner" alt="Hand" src="/wiki/images/3/3e/Up_design.png" /></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" ><img id="Banner" alt="Hand" src="/wiki/images/c/c6/Up_lab.png" /></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" ><img id="Banner" alt="Hand" src="/wiki/images/c/c6/Up_lab.png" /></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" ><img id="Banner" alt="Hand" src="/wiki/images/3/3e/Up_design.png" /></td>	<td class="AJR_TD" >					2015-04-24	</td>	<td class="AJR_TD" >		Selection of final team members:
                          Axel Ind
@@ Line 276: / Line 285: @@
                  <tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/3/3e/Up_design.png" /></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:
+                         Discussed 5 potential improvements we could add:		<br>
 ) E.coli torrents (information collation)
 ) Travel history
@@ Line 282: / Line 291: @@
 ) Trade routes visualisation of motile E. coli
 ) Conditional “Reply Tweet”		</td>	<td class="AJR_TD" >	UP iGEM team 2015	</td>	</tr>
-                 <tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/c/c6/Up_lab.png" /></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" ><img id="Banner" alt="Hand" src="/wiki/images/c/c6/Up_lab.png" /></td>	<td class="AJR_TD" >					2015-05-19	</td>	<td class="AJR_TD" >		2015 iGEM project proposal						Prototype Circuit designed.					</td>	<td class="AJR_TD" >	UP iGEM team 2015	</td>	</tr>
                  <tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/3/3e/Up_design.png" /></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" ><img id="Banner" alt="Hand" src="/wiki/images/c/c6/Up_lab.png" /></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
@@ Line 300: / Line 309: @@
                  <tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/c/c6/Up_lab.png" /></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>
+                         BioBrick specifications were discussed in context of the assembly standard 10.		</td>	<td class="AJR_TD" >-</td>	</tr>
                  <tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/c/c6/Up_lab.png" /></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.
@@ Line 308: / Line 317: @@
                          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" ><img id="Banner" alt="Hand" src="/wiki/images/c/c6/Up_lab.png" /></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" >	Gert, Nomakula and various team members
-	</td>	</tr>
+                    </td>	</tr>
                  <tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/7/73/Up_human.png" /></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" ><img id="Banner" alt="Hand" src="/wiki/images/3/3e/Up_design.png" /></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" ><img id="Banner" alt="Hand" src="/wiki/images/c/c6/Up_lab.png" /></td>	<td class="AJR_TD" >					2015-07-28	</td>	<td class="AJR_TD" >		Ligation of gBlocks into pUC
-		</td>	<td class="AJR_TD" >	UP iGEM team 2015	</td>	</tr>
+                    </td>	<td class="AJR_TD" >	UP iGEM team 2015	</td>	</tr>
                  <tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/3/3e/Up_design.png" />	</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" >	Gert, Nomakula and various team members
-	</td>	</tr>
+                    </td>	</tr>
-                 <tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/c/c6/Up_lab.png" />	</td><td class="AJR_TD" >					2015-07-29	</td>	<td class="AJR_TD" >		Transformation of E. coli with biobricks
+                 <tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/c/c6/Up_lab.png" />	</td><td class="AJR_TD" >					2015-07-29	</td>	<td class="AJR_TD" >		Transformation of E. coli with biobricks
-		</td>	<td class="AJR_TD" >	UP iGEM team 2015	</td>	</tr>
+                    </td>	<td class="AJR_TD" >	UP iGEM team 2015	</td>	</tr>
                  <tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/3/3e/Up_design.png" /></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
@@ Line 335: / Line 344: @@
                  <tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/7/73/Up_human.png" /></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>
                  <tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/8/86/Up_wiki.png" /></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>
                  <tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/c/c6/Up_lab.png" /></td>	<td class="AJR_TD" >					2015-09-08	</td>	<td class="AJR_TD" >		Restriction digest of biobricks and vector( pSBC and pSBA) and ligation of biobricks into pSB vectors for submission and experimentation		</td>	<td class="AJR_TD" >	UP iGEM team 2015	</td>	</tr>
-<tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/c/c6/Up_lab.png" /></td>	<td class="AJR_TD" >					2015-09-12	</td>	<td class="AJR_TD" >		Transformation of double-digest plasmids into cell lines		</td>	<td class="AJR_TD" >	UP iGEM team 2015	</td>	</tr>
+                <tr class="" ><td class="AJR_TD" ><img id="Banner" alt="Hand" src="/wiki/images/c/c6/Up_lab.png" /></td>	<td class="AJR_TD" >					2015-09-12	</td>	<td class="AJR_TD" >		Transformation of double-digest plasmids into cell lines		</td>	<td class="AJR_TD" >	UP iGEM team 2015	</td>	</tr>
              </table>