Difference between revisions of "Team:Purdue/Notebook"

(Prototype team page)
 
(Added Experiment Log)
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<h2>Notebook</h2>
 
<h2>Notebook</h2>
−
 
+
<br><br>
−
<p> Document the dates you worked on your project.</p>
+
<h2>Experiment Log</h2>
−
 
+
<table>
−
<h5>What should this page have?</h5>
+
<tr>
−
<ul>
+
<td><h5>Experiment:</h5></td>
−
<li>Chronological notes of what your team is doing.</li>
+
<td><h5>Name(s)</h5></td>
−
<li> Brief descriptions of daily important events.</li>
+
<td><h5>Date</h5></td>
−
<li>Pictures of your progress. </li>
+
</tr>
−
<li>Mention who participated in what task.</li>
+
<tr>
−
</ul>
+
<td>Miniprep of yeast backbones from E. coli culture (pRS313, pRS315, pRS316)</td>
−
 
+
<td>Everyone (and the high schoolers)</td>
−
 
+
<td>6/15/2015</td>
−
<h4>Inspiration</h4>
+
<tr>
−
<p>You can see what others teams have done to organize their notes:</p>
+
<td>Preparation of competent E. coli</td>
−
 
+
<td>Mark, Lexi</td>
−
<ul>  
+
<td>6/19/2015</td>
−
<li><a href="https://2014.igem.org/Team:ATOMS-Turkiye/Notebook">2014 ATOMS-Turkiye</a></li>
+
</tr>
−
<li><a href="https://2014.igem.org/Team:Tec-Monterrey/ITESM14_project.html#tab_notebook">2014 Tec Monterrey</a></li>
+
<tr>
−
<li><a href="https://2014.igem.org/Team:Kyoto/Notebook/Magnetosome_Formation#title">2014 Kyoto</a></li>
+
<td>Transformation of backbones into yeast culture</td>
−
<li><a href="https://2014.igem.org/Team:Cornell/notebook">2014 Cornell</a></li>
+
<td>Tony, Bo</td>
−
</ul>
+
<td>6/22/2015</td>
 +
</tr>
 +
<tr>
 +
<td>3A Assembly of killswitch promoter to RBS </td>
 +
<td>Everyone</td>
 +
<td>6/23/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Transformation of GFP into E. coli to test competency of cells we made ourselves</td>
 +
<td>Bo, Lexi</td>
 +
<td>6/24/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Digestion of promoter, rbs, lysing agent, and terminator </td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>6/24/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Ligation and transformation of promoter rbs lysing agent and terminator</td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>6/25/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR of G-Block Fragments</td>
 +
<td>Mark, Melissa, Erich, Suraj, Jill</td>
 +
<td>6/25/2015</td>
 +
</tr>
 +
<tr>
 +
<td> </td>
 +
<td></td>
 +
<td>//2015</td>
 +
</tr>
 +
<tr>
 +
<td>Resuspension and Dilution of G-Blocks and Primers </td>
 +
<td>Mark, Melissa, Erich, Suraj, Jill</td>
 +
<td>6/25/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR (3 replicates) of LiP1 and LiP2</td>
 +
<td>Mark, Melissa, Erich, Suraj, Jill</td>
 +
<td>6/26/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR (3 replicates) of Lac1 and Lac2</td>
 +
<td>Mark, Melissa, Erich, Jill</td>
 +
<td>6/26/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Run a gel to check digestion of promoter rbs lysing agent and terminator</td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>6/26/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR (3 replicates) of MnP1 and MnP2</td>
 +
<td>Mark, Melissa, Jill</td>
 +
<td>6/29/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR (3 replicates) of AKR1, VP1, VP2 </td>
 +
<td>Melissa</td>
 +
<td>6/30/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR (3 replicates) of AKR2, Tyr1, Tyr2</td>
 +
<td>Melissa, Erich</td>
 +
<td>7/1/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel of Lac1, Lac2, MnP1, MnP2, VP1 </td>
 +
<td>Mark, Jill</td>
 +
<td>7/1/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR (3 replicates) of all gBlocks</td>
 +
<td>Mark, Melissa, Jill, Erich</td>
 +
<td>7/1/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Miniprep of promoter, rbs, lysing agent, and terminator </td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>7/6/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Digestion of promoter with rbs and lysing agent, with terminator </td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>7/7/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR Purification (of MnP1&2, AKR1&2, VP1&2, and Tyr1) </td>
 +
<td>Suraj, Melissa</td>
 +
<td>7/7/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR of all G-Block Fragments </td>
 +
<td>Jill, Mark, Erich</td>
 +
<td>7/7/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Inoculation of liquid yeast cultures </td>
 +
<td>Mark</td>
 +
<td>7/7/2015</td>
 +
</tr>
 +
<tr>
 +
<td>LB Agar with Amp plates </td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>7/8/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel of LiP1, LiP2, Lac1, Lac2, Tyr2 </td>
 +
<td>Mark, Melissa, Erich, Suraj, Jill </td>
 +
<td>7/8/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gibson Assembly with PCR purified gBlocks (Mn1+Mn2, AKR1+AKR2, VP1+VP2) </td>
 +
<td>Mark</td>
 +
<td>7/8/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel of LiP1, LiP2, Lac1, Lac2, Tyr2 (of second PCR attempt) </td>
 +
<td>Mark, Melissa, Erich, Suraj, Jill</td>
 +
<td>7/8/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR Purification of LiP1 and LiP2 </td>
 +
<td>Jill, Erich, Melissa, Suraj</td>
 +
<td>7/8/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gibson Assembly with PCR purified gBlocks (LiP1 + LiP2) </td>
 +
<td>Jill, Erich, Melissa, Suraj</td>
 +
<td>7/8/2015</td>
 +
</tr>
 +
<tr>
 +
<td>E. Coli Transformation of Promoter-RBS and LysingAgent-Terminator Ligations </td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>7/8/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Yeast Transformation of backbones pRS313, pRS315, and pRS316 </td>
 +
<td>Mark, Tony</td>
 +
<td>7/8/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel of Gibson Results LiP, MnP, AKR, VP </td>
 +
<td>Erich, Suraj, Melissa</td>
 +
<td>7/9/2015</td>
 +
</tr>
 +
<tr>
 +
<td>LB broth with amp </td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>7/9/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Ligation of promoter+rbs and lysing agent+terminator </td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>7/9/2015</td>
 +
</tr>
 +
<tr>
 +
<td>E. Coli Transformation of Promoter-RBS and LysingAgent-Terminator Ligations </td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>7/10/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gibson Assembly of PCR purified VP1 + VP2 </td>
 +
<td>Jill, Erich, Melissa, Suraj</td>
 +
<td>7/10/2015</td>
 +
</tr>
 +
<tr>
 +
<td> Gel of Gibson Results VP</td>
 +
<td>Jill, Erich, Melissa, Suraj</td>
 +
<td>7/10/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Ethanol Precipitation of VP1 and VP2 </td>
 +
<td>Jill, Erich, Melissa, Suraj, Mark</td>
 +
<td>7/10/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Non-inoculated yeast plates test </td>
 +
<td>Tony</td>
 +
<td>7/10/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Inoculation of Promoter+RBS and LysingAgent+Terminator E. Coli </td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>7/12/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Preparation of Yeast glycerol stocks for long-term storage </td>
 +
<td>Mark, Erich</td>
 +
<td>7/13/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Miniprep of promoter+rbs and lysing agent+terminator </td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>7/13/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gibson Assembly of Ethanol Precipitated VP1+VP2 </td>
 +
<td>Jill, Erich, Melissa, Suraj</td>
 +
<td>7/13/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel of Gibson Results VP </td>
 +
<td>Jill, Erich, Melissa, Suraj</td>
 +
<td>7/13/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Inoculation of liquid yeast cultures </td>
 +
<td>Mark</td>
 +
<td>7/13/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Second inoculation of liquid yeast cultures for competent cell preparation </td>
 +
<td>Mark</td>
 +
<td>7/14/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Transformation of second diluted yeast cultures with pRS313 </td>
 +
<td>Mark, Jill, Erich, Melissa, Suraj</td>
 +
<td>7/14/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Inoculation of liquid yeast cultures</td>
 +
<td>Mark</td>
 +
<td>7/14/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Dilution (10x, 25x, 50x, 100x) of inoculated yeast cultures </td>
 +
<td>Mark</td>
 +
<td>7/15/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Miniprep of promoter+rbs and lysing agent+terminator</td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>7/15/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Digestion of promoter+rbs and lysing agent+terminator </td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>7/15/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Preparation of E. Coli glycerol stocks for P+R and L+T </td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>7/15/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Overlap PCR of MnP1 and 2 (w/ primers and w/o) </td>
 +
<td>Mark, Jill, Erich, Melissa, Suraj</td>
 +
<td>7/15/2015</td>
 +
</tr>
 +
<tr>
 +
<td> Gel of PCR Overlap Results</td>
 +
<td>Jill, Erich, Melissa, Suraj</td>
 +
<td>7/15/2015</td>
 +
</tr>
 +
<tr>
 +
<td> Ligation of promoter+rbs+lysing agent+terminator</td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>7/15/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Transformation of promoter+rbs+lysing agent+terminator </td>
 +
<td>Bo, Kate, Lexi</td>
 +
<td>7/16/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel Electrophoresis of MnP Overlap PCR </td>
 +
<td>Mark, Suraj</td>
 +
<td>7/16/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Overlap PCR of LiP (straight gBlocks and PCR amplified gBlocks)</td>
 +
<td>Mark, Suraj</td>
 +
<td>7/16/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel Extraction of MnP </td>
 +
<td>Erich</td>
 +
<td>7/16/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Overlap PCR of LiP (straight gBlocks)</td>
 +
<td>Suraj, Tony, Arren, Jill, James</td>
 +
<td>7/16/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel of Overlap PCR of LiP  </td>
 +
<td>Suraj, Jill, Melissa, Erich</td>
 +
<td>7/17/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR Amplification of Lac1, Lac2, Tyr2 </td>
 +
<td>Suraj, Jill, Melissa</td>
 +
<td>7/20/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Overlap PCR Part 2 of MnP </td>
 +
<td>Erich</td>
 +
<td>7/20/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Overlap PCR (with calculated Tm) of VP </td>
 +
<td>Suraj, Jill, Melissa</td>
 +
<td>7/20/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Ligation of promoter+rbs+lysing agent+terminator </td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>7/20/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Overlap PCR (with calculated Tm) of AKR </td>
 +
<td>Suraj, Melissa, Erich</td>
 +
<td>7/21/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Restriction Enzyme Digest and Ligation of MnP to pRS315 </td>
 +
<td>Mark, Erich</td>
 +
<td>7/21/2015</td>
 +
</tr>
 +
<tr>
 +
<td> LB w/ chlor made</td>
 +
<td>Bo, Kate, Lexi</td>
 +
<td>7/21/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Inoculation of full device and E. coli  </td>
 +
<td>Bo, Kate, Lexi</td>
 +
<td>7/21/2015</td>
 +
</tr>
 +
<td>PCR Amplification of LiP1, LiP2, Lac1, Lac2, VP1, VP2, AKR1, AKR2, Tyr1, Tyr2 </td>
 +
<td>Melissa, Jill</td>
 +
<td>7/21/2015</td>
 +
</tr>
 +
<tr>
 +
<td>E. coli transformation of MnP + pRS315 </td>
 +
<td>Mark</td>
 +
<td>7/22/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel of PCR Products (LiP1, LiP2, Lac1, Lac2, VP1, VP2, AKR1, AKR2, Tyr1, Tyr2) </td>
 +
<td>Suraj, Erich</td>
 +
<td>7/22/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gibson assembly of AKR1 + AKR 2 </td>
 +
<td>Jill</td>
 +
<td>7/22/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel of Gibson Results AKR </td>
 +
<td>Suraj</td>
 +
<td>7/22/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR Purification of AKR2, LiP2, VP1, VP2 </td>
 +
<td>Jill</td>
 +
<td>7/22/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Mini prep + nanodrop </td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>7/23/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gibson Assembly of VP1 + VP2 </td>
 +
<td>Mark</td>
 +
<td>7/23/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel Extraction of LiP1, Lac1, Lac2, AKR1,  </td>
 +
<td>Suraj, Melissa, Jill</td>
 +
<td>7/23/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel Tyr1, Tyr2, Lac2, Gibson Assembley of AKR </td>
 +
<td>Suraj, Tony</td>
 +
<td>7/23/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Streaking of new Yeast (BY4741) plate </td>
 +
<td>Mark</td>
 +
<td>7/23/2015</td>
 +
</tr>
 +
<tr>
 +
<td>EcoRI and PstI digest of AKR and MnP </td>
 +
<td>Mark</td>
 +
<td>7/27/2015</td>
 +
</tr>
 +
<td>Liquid Inoculation of Yeast MST WT Cultures </td>
 +
<td>Erich</td>
 +
<td>7/27/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Digestion of GFP and full device for insertion into chlor and amp backbone </td>
 +
<td>Lexi, Kate</td>
 +
<td>7/27/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR of Lac2 and Gibson AKR </td>
 +
<td>Tony, Melissa</td>
 +
<td>7/27/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel electrophoresis of Lac2 (for extraction), AKR(test), & Tyr1(for extraction) </td>
 +
<td>Tony, Melissa</td>
 +
<td>7/27/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Vector Insertion of AKR and MnP into pSCB13C </td>
 +
<td>Mark</td>
 +
<td>7/27/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Transformation of AKR and MnP and GFP </td>
 +
<td>Bo, Kate, Lexi</td>
 +
<td>7/28/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Yeast Transformation of backbones pRS313, pRS315, and pRS316 </td>
 +
<td>Erich</td>
 +
<td>7/28/2015</td>
 +
</tr>
 +
<tr>
 +
<td>LB + Chlor plates made </td>
 +
<td>Tony</td>
 +
<td>7/28/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel of Lac1 and Lac2 PCR amplified products (140uL in big wells) </td>
 +
<td>Suraj, Melissa</td>
 +
<td>7/29/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR Purification of LiP Gibson Results </td>
 +
<td>Jill, Melissa</td>
 +
<td>7/29/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Digestion of Full Device and yeast backbone</td>
 +
<td>Bo, Lexi, Kate</td>
 +
<td>8/3/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Digest of Mnp, AKR, GFP, full device and backbone </td>
 +
<td>Bo, Kate, Lexi</td>
 +
<td>8/3/2015</td>
 +
</tr>
 +
<td>EtBr Gel of (Lane1: Ladder, Lane2: Tyr Gibson 20uL, Lane3: PCRLac1 A 10uL, Lane4: Lac1B, Lane5: Lac1C, Lane6: Lac2A, Lane7: Lac2B, Lane8: Lac2C) </td>
 +
<td>Jill, Erich, Suraj, Melissa</td>
 +
<td>8/3/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Transformation of AKR, MnP, GFP, and full device </td>
 +
<td>Bo, Kate, Lexi</td>
 +
<td>8/4/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel of Lac1 and Lac2 PCR amplified products (140uL in big wells) (Lane 1: Ladder, Lane 2: Lac1, Lane3: Lac2) </td>
 +
<td>Jill, Erich, Suraj, Melissa</td>
 +
<td>8/4/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel of (Lane1: Ladder, Lane2: 5ul Tyr 1 Gel extract, Lane3: 5uL Tyr2 Gel Extract) </td>
 +
<td>Jill, Erich, Suraj, Melissa</td>
 +
<td>8/4/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel Extraction of PCR amplified Lac1 and Lac2 </td>
 +
<td>Jill, Suraj, Erich</td>
 +
<td>8/4/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gibson Assembly of Tyr1+Tyr2 (different gel extraction than before) </td>
 +
<td>Jill, Melissa</td>
 +
<td>8/4/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gibson Assembly of Lac1 + Lac2 gel extracts </td>
 +
<td>Jill, Melissa</td>
 +
<td>8/5/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel of Gibson Assembly results (Lane1: Ladder, Lane2: Tyr, Lane3: Lac) </td>
 +
<td>Jill, Suraj, Melissa</td>
 +
<td>8/5/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gibson Assembly of Tyr1+2 and Lac1+2 (with more DNA added) </td>
 +
<td>Jill, Suraj, Melissa</td>
 +
<td>8/5/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel Extract of Gibson Assembly Results Tyr </td>
 +
<td>Erich</td>
 +
<td>8/5/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Re-Gibson Assembly of Lac1 & Lac2 </td>
 +
<td>Jill, Suraj</td>
 +
<td>8/6/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR of Tyr </td>
 +
<td>Jill, Suraj</td>
 +
<td>8/6/2015</td>
 +
</tr>
 +
<td>Gel of (Lane1: Ladder, Lane 2: Lac Gibson, Lane 3: Lac Gibson, Lane 4: Tyr1, Lane5: Tyr2, Lane6: Tyr3, empty, empty) </td>
 +
<td>Jill, Suraj</td>
 +
<td>8/6/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel of the rest of Tyr (140uL) (Lane 1: ladder, Lane2: Tyr, empty) </td>
 +
<td>Jill, Suraj</td>
 +
<td>8/6/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel Extraction of Lac Gibson (3.5ng/uL) </td>
 +
<td>Jill, Suraj</td>
 +
<td>8/7/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Re-measurement of Lac and Tyr concentrations using Cubit instead of nanometer </td>
 +
<td>Jill, Suraj, Melissa</td>
 +
<td>8/26/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR of Gibson Tyr and Lac </td>
 +
<td>Jill, Suraj</td>
 +
<td>8/27/2015</td>
 +
</tr>
 +
<tr>
 +
<td>PCR of Tyr1, Tyr2, Lac1, Lac2 </td>
 +
<td>Jill, Suraj</td>
 +
<td>8/27/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel 1: Lane 1: Ladder, Lane 2: Lac1 PCR, Lane 3: Lac2 PCR, Lane 4 Tyr1 PCR, Lane 5 Tyr2 PCR -----Empty </td>
 +
<td>Melissa, Jill</td>
 +
<td>8/28/2015</td>
 +
</tr>
 +
<tr>
 +
<td>Gel 2: Lane 1: Ladder, Lane 2: Lac Gibson A, Lane 3: Lac Gibson B, Lane 4 Tyr Gibson A, Lane 5 Tyr Gibson B ---- Empty</td>
 +
<td> Melissa, Jill</td>
 +
<td>8/28/2015</td>
 +
</tr>
 +
</table>
  
 
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Revision as of 22:51, 18 September 2015

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Notebook



Experiment Log

Experiment:
Name(s)
Date
Miniprep of yeast backbones from E. coli culture (pRS313, pRS315, pRS316) Everyone (and the high schoolers) 6/15/2015
Preparation of competent E. coli Mark, Lexi 6/19/2015
Transformation of backbones into yeast culture Tony, Bo 6/22/2015
3A Assembly of killswitch promoter to RBS Everyone 6/23/2015
Transformation of GFP into E. coli to test competency of cells we made ourselves Bo, Lexi 6/24/2015
Digestion of promoter, rbs, lysing agent, and terminator Bo, Lexi, Kate 6/24/2015
Ligation and transformation of promoter rbs lysing agent and terminator Bo, Lexi, Kate 6/25/2015
PCR of G-Block Fragments Mark, Melissa, Erich, Suraj, Jill 6/25/2015
//2015
Resuspension and Dilution of G-Blocks and Primers Mark, Melissa, Erich, Suraj, Jill 6/25/2015
PCR (3 replicates) of LiP1 and LiP2 Mark, Melissa, Erich, Suraj, Jill 6/26/2015
PCR (3 replicates) of Lac1 and Lac2 Mark, Melissa, Erich, Jill 6/26/2015
Run a gel to check digestion of promoter rbs lysing agent and terminator Bo, Lexi, Kate 6/26/2015
PCR (3 replicates) of MnP1 and MnP2 Mark, Melissa, Jill 6/29/2015
PCR (3 replicates) of AKR1, VP1, VP2 Melissa 6/30/2015
PCR (3 replicates) of AKR2, Tyr1, Tyr2 Melissa, Erich 7/1/2015
Gel of Lac1, Lac2, MnP1, MnP2, VP1 Mark, Jill 7/1/2015
PCR (3 replicates) of all gBlocks Mark, Melissa, Jill, Erich 7/1/2015
Miniprep of promoter, rbs, lysing agent, and terminator Bo, Lexi, Kate 7/6/2015
Digestion of promoter with rbs and lysing agent, with terminator Bo, Lexi, Kate 7/7/2015
PCR Purification (of MnP1&2, AKR1&2, VP1&2, and Tyr1) Suraj, Melissa 7/7/2015
PCR of all G-Block Fragments Jill, Mark, Erich 7/7/2015
Inoculation of liquid yeast cultures Mark 7/7/2015
LB Agar with Amp plates Bo, Lexi, Kate 7/8/2015
Gel of LiP1, LiP2, Lac1, Lac2, Tyr2 Mark, Melissa, Erich, Suraj, Jill 7/8/2015
Gibson Assembly with PCR purified gBlocks (Mn1+Mn2, AKR1+AKR2, VP1+VP2) Mark 7/8/2015
Gel of LiP1, LiP2, Lac1, Lac2, Tyr2 (of second PCR attempt) Mark, Melissa, Erich, Suraj, Jill 7/8/2015
PCR Purification of LiP1 and LiP2 Jill, Erich, Melissa, Suraj 7/8/2015
Gibson Assembly with PCR purified gBlocks (LiP1 + LiP2) Jill, Erich, Melissa, Suraj 7/8/2015
E. Coli Transformation of Promoter-RBS and LysingAgent-Terminator Ligations Bo, Lexi, Kate 7/8/2015
Yeast Transformation of backbones pRS313, pRS315, and pRS316 Mark, Tony 7/8/2015
Gel of Gibson Results LiP, MnP, AKR, VP Erich, Suraj, Melissa 7/9/2015
LB broth with amp Bo, Lexi, Kate 7/9/2015
Ligation of promoter+rbs and lysing agent+terminator Bo, Lexi, Kate 7/9/2015
E. Coli Transformation of Promoter-RBS and LysingAgent-Terminator Ligations Bo, Lexi, Kate 7/10/2015
Gibson Assembly of PCR purified VP1 + VP2 Jill, Erich, Melissa, Suraj 7/10/2015
Gel of Gibson Results VP Jill, Erich, Melissa, Suraj 7/10/2015
Ethanol Precipitation of VP1 and VP2 Jill, Erich, Melissa, Suraj, Mark 7/10/2015
Non-inoculated yeast plates test Tony 7/10/2015
Inoculation of Promoter+RBS and LysingAgent+Terminator E. Coli Bo, Lexi, Kate 7/12/2015
Preparation of Yeast glycerol stocks for long-term storage Mark, Erich 7/13/2015
Miniprep of promoter+rbs and lysing agent+terminator Bo, Lexi, Kate 7/13/2015
Gibson Assembly of Ethanol Precipitated VP1+VP2 Jill, Erich, Melissa, Suraj 7/13/2015
Gel of Gibson Results VP Jill, Erich, Melissa, Suraj 7/13/2015
Inoculation of liquid yeast cultures Mark 7/13/2015
Second inoculation of liquid yeast cultures for competent cell preparation Mark 7/14/2015
Transformation of second diluted yeast cultures with pRS313 Mark, Jill, Erich, Melissa, Suraj 7/14/2015
Inoculation of liquid yeast cultures Mark 7/14/2015
Dilution (10x, 25x, 50x, 100x) of inoculated yeast cultures Mark 7/15/2015
Miniprep of promoter+rbs and lysing agent+terminator Bo, Lexi, Kate 7/15/2015
Digestion of promoter+rbs and lysing agent+terminator Bo, Lexi, Kate 7/15/2015
Preparation of E. Coli glycerol stocks for P+R and L+T Bo, Lexi, Kate 7/15/2015
Overlap PCR of MnP1 and 2 (w/ primers and w/o) Mark, Jill, Erich, Melissa, Suraj 7/15/2015
Gel of PCR Overlap Results Jill, Erich, Melissa, Suraj 7/15/2015
Ligation of promoter+rbs+lysing agent+terminator Bo, Lexi, Kate 7/15/2015
Transformation of promoter+rbs+lysing agent+terminator Bo, Kate, Lexi 7/16/2015
Gel Electrophoresis of MnP Overlap PCR Mark, Suraj 7/16/2015
Overlap PCR of LiP (straight gBlocks and PCR amplified gBlocks) Mark, Suraj 7/16/2015
Gel Extraction of MnP Erich 7/16/2015
Overlap PCR of LiP (straight gBlocks) Suraj, Tony, Arren, Jill, James 7/16/2015
Gel of Overlap PCR of LiP Suraj, Jill, Melissa, Erich 7/17/2015
PCR Amplification of Lac1, Lac2, Tyr2 Suraj, Jill, Melissa 7/20/2015
Overlap PCR Part 2 of MnP Erich 7/20/2015
Overlap PCR (with calculated Tm) of VP Suraj, Jill, Melissa 7/20/2015
Ligation of promoter+rbs+lysing agent+terminator Bo, Lexi, Kate 7/20/2015
Overlap PCR (with calculated Tm) of AKR Suraj, Melissa, Erich 7/21/2015
Restriction Enzyme Digest and Ligation of MnP to pRS315 Mark, Erich 7/21/2015
LB w/ chlor made Bo, Kate, Lexi 7/21/2015
Inoculation of full device and E. coli Bo, Kate, Lexi 7/21/2015
PCR Amplification of LiP1, LiP2, Lac1, Lac2, VP1, VP2, AKR1, AKR2, Tyr1, Tyr2 Melissa, Jill 7/21/2015
E. coli transformation of MnP + pRS315 Mark 7/22/2015
Gel of PCR Products (LiP1, LiP2, Lac1, Lac2, VP1, VP2, AKR1, AKR2, Tyr1, Tyr2) Suraj, Erich 7/22/2015
Gibson assembly of AKR1 + AKR 2 Jill 7/22/2015
Gel of Gibson Results AKR Suraj 7/22/2015
PCR Purification of AKR2, LiP2, VP1, VP2 Jill 7/22/2015
Mini prep + nanodrop Bo, Lexi, Kate 7/23/2015
Gibson Assembly of VP1 + VP2 Mark 7/23/2015
Gel Extraction of LiP1, Lac1, Lac2, AKR1, Suraj, Melissa, Jill 7/23/2015
Gel Tyr1, Tyr2, Lac2, Gibson Assembley of AKR Suraj, Tony 7/23/2015
Streaking of new Yeast (BY4741) plate Mark 7/23/2015
EcoRI and PstI digest of AKR and MnP Mark 7/27/2015
Liquid Inoculation of Yeast MST WT Cultures Erich 7/27/2015
Digestion of GFP and full device for insertion into chlor and amp backbone Lexi, Kate 7/27/2015
PCR of Lac2 and Gibson AKR Tony, Melissa 7/27/2015
Gel electrophoresis of Lac2 (for extraction), AKR(test), & Tyr1(for extraction) Tony, Melissa 7/27/2015
Vector Insertion of AKR and MnP into pSCB13C Mark 7/27/2015
Transformation of AKR and MnP and GFP Bo, Kate, Lexi 7/28/2015
Yeast Transformation of backbones pRS313, pRS315, and pRS316 Erich 7/28/2015
LB + Chlor plates made Tony 7/28/2015
Gel of Lac1 and Lac2 PCR amplified products (140uL in big wells) Suraj, Melissa 7/29/2015
PCR Purification of LiP Gibson Results Jill, Melissa 7/29/2015
Digestion of Full Device and yeast backbone Bo, Lexi, Kate 8/3/2015
Digest of Mnp, AKR, GFP, full device and backbone Bo, Kate, Lexi 8/3/2015
EtBr Gel of (Lane1: Ladder, Lane2: Tyr Gibson 20uL, Lane3: PCRLac1 A 10uL, Lane4: Lac1B, Lane5: Lac1C, Lane6: Lac2A, Lane7: Lac2B, Lane8: Lac2C) Jill, Erich, Suraj, Melissa 8/3/2015
Transformation of AKR, MnP, GFP, and full device Bo, Kate, Lexi 8/4/2015
Gel of Lac1 and Lac2 PCR amplified products (140uL in big wells) (Lane 1: Ladder, Lane 2: Lac1, Lane3: Lac2) Jill, Erich, Suraj, Melissa 8/4/2015
Gel of (Lane1: Ladder, Lane2: 5ul Tyr 1 Gel extract, Lane3: 5uL Tyr2 Gel Extract) Jill, Erich, Suraj, Melissa 8/4/2015
Gel Extraction of PCR amplified Lac1 and Lac2 Jill, Suraj, Erich 8/4/2015
Gibson Assembly of Tyr1+Tyr2 (different gel extraction than before) Jill, Melissa 8/4/2015
Gibson Assembly of Lac1 + Lac2 gel extracts Jill, Melissa 8/5/2015
Gel of Gibson Assembly results (Lane1: Ladder, Lane2: Tyr, Lane3: Lac) Jill, Suraj, Melissa 8/5/2015
Gibson Assembly of Tyr1+2 and Lac1+2 (with more DNA added) Jill, Suraj, Melissa 8/5/2015
Gel Extract of Gibson Assembly Results Tyr Erich 8/5/2015
Re-Gibson Assembly of Lac1 & Lac2 Jill, Suraj 8/6/2015
PCR of Tyr Jill, Suraj 8/6/2015
Gel of (Lane1: Ladder, Lane 2: Lac Gibson, Lane 3: Lac Gibson, Lane 4: Tyr1, Lane5: Tyr2, Lane6: Tyr3, empty, empty) Jill, Suraj 8/6/2015
Gel of the rest of Tyr (140uL) (Lane 1: ladder, Lane2: Tyr, empty) Jill, Suraj 8/6/2015
Gel Extraction of Lac Gibson (3.5ng/uL) Jill, Suraj 8/7/2015
Re-measurement of Lac and Tyr concentrations using Cubit instead of nanometer Jill, Suraj, Melissa 8/26/2015
PCR of Gibson Tyr and Lac Jill, Suraj 8/27/2015
PCR of Tyr1, Tyr2, Lac1, Lac2 Jill, Suraj 8/27/2015
Gel 1: Lane 1: Ladder, Lane 2: Lac1 PCR, Lane 3: Lac2 PCR, Lane 4 Tyr1 PCR, Lane 5 Tyr2 PCR -----Empty Melissa, Jill 8/28/2015
Gel 2: Lane 1: Ladder, Lane 2: Lac Gibson A, Lane 3: Lac Gibson B, Lane 4 Tyr Gibson A, Lane 5 Tyr Gibson B ---- Empty Melissa, Jill 8/28/2015