Difference between revisions of "Team:Heidelberg/Model test2"

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                Table X: Title |
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                    <table class="table table-bordered mdl-shadow--4dp" XSSCleaned="overflow-x: scroll !important">
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<thead> <tr>
 +
<th>TIme</th> <th>Date</th> <th>Operator</th> <th>Sample</th> <th>Action</th> <th>DONE ToDo:</th> <th>OD Turbidostat 2</th> <th>Stock ID</th> <th>TO DOs:</th> </tr>
 +
</thead><tbody> <tr>
 +
<td>12:00</td> <td>24/10/2017</td> <td>MP</td> <td>-</td> <td>Started filling the turbidostat (T2) with medium </td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>13:30</td> <td>24/10/2017</td> <td>MP</td> <td>-</td> <td>Inoculation of turbidostat 2 with 50 ml Stock culture </td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>14:00</td> <td>24/10/2017</td> <td>MP</td> <td>-</td> <td>Measured OD</td> <td></td> <td>"0</td> <td>18"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>15:00</td> <td>24/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>16:00</td> <td>24/10/2017</td> <td>MP</td> <td>-</td> <td>Measured OD</td> <td></td> <td>"0</td> <td>511"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>17:00</td> <td>24/10/2017</td> <td>MP</td> <td></td> <td>"Measured OD</td> <td> started filling the lagoon and the arabinose pump"</td> <td></td> <td>"0</td> <td>548"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>18:00</td> <td>24/10/2017</td> <td>MP</td> <td>1</td> <td>Inoculation with 1 ml phage supernatant</td> <td></td> <td>"0</td> <td>514"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>19:00</td> <td>24/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>20:00</td> <td>24/10/2017</td> <td>MS</td> <td>1</td> <td>"Measured OD</td> <td> Took samples L1</td> <td> T1 - 1"</td> <td></td> <td>"0</td> <td>637"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>21:00</td> <td>24/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>22:00</td> <td>24/10/2017</td> <td>MP</td> <td></td> <td>"Measured OD</td> <td> Flow rate for lagoon was to high from previous filling ( 7 ml/min in contrast to 1</td> <td>666 ml/min) - potential washout "</td> <td></td> <td>"0</td> <td>791"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>23:00</td> <td>24/10/2017</td> <td>MP</td> <td></td> <td>"Lagoon was infected with 0</td> <td>8 ml 10^8 PFU/ml phages to counteract the potential washout "</td> <td></td> <td>"0</td> <td>818"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>00:00</td> <td>25/10/2017</td> <td>MP</td> <td>2</td> <td>"Measured OD</td> <td> Took samples L1</td> <td> T1 - 2"</td> <td></td> <td>"0</td> <td>833"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td>TO DO: Phage-PCR</td> </tr>
 +
<tr>
 +
<td>01:00</td> <td>25/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>02:00</td> <td>25/10/2017</td> <td>MS</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>789"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>03:00</td> <td>25/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>04:00</td> <td>25/10/2017</td> <td>MS</td> <td>3</td> <td>"Measured OD</td> <td> Took samples L1</td> <td> T1 - 3"</td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>05:00</td> <td>25/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td>"0</td> <td>792"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>06:00</td> <td>25/10/2017</td> <td>MS</td> <td></td> <td>Measured OD</td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>07:00</td> <td>25/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td>"0</td> <td>817"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>08:00</td> <td>25/10/2017</td> <td>TB</td> <td>4</td> <td>"Measured OD</td> <td> Took samples L1</td> <td> T1 - 4"</td> <td>Took samples</td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>09:00</td> <td>25/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>10:00</td> <td>25/10/2017</td> <td>TB</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>816"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>11:00</td> <td>25/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>12:00</td> <td>25/10/2017</td> <td>TB</td> <td></td> <td>Measured OD</td> <td>Done PCR</td> <td>"0</td> <td>81"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td>TO DO: Phage-PCR</td> </tr>
 +
<tr>
 +
<td>13:00</td> <td>25/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>14:00</td> <td>25/10/2017</td> <td>PP</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>843"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>15:00</td> <td>25/10/2017</td> <td></td> <td></td> <td></td> <td>inoculated growth for plaque assay</td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>16:00</td> <td>25/10/2017</td> <td>PP</td> <td>5</td> <td>"Measured OD</td> <td> Took samples L1</td> <td> T1 - 5"</td> <td></td> <td>"0</td> <td>833"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>17:00</td> <td>25/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>18:00</td> <td>25/10/2017</td> <td>PP</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>836"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>19:00</td> <td>25/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>20:00</td> <td>25/10/2017</td> <td>MP</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>862"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td>TO DO: Plaque Assay</td> </tr>
 +
<tr>
 +
<td>21:00</td> <td>25/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>22:00</td> <td>25/10/2017</td> <td>MP</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>81"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>23:00</td> <td>25/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>00:00</td> <td>26/10/2017</td> <td>LP</td> <td>6</td> <td>"Measured OD</td> <td> Took samples L1</td> <td> T1 - 6"</td> <td>Done PCR</td> <td>"0</td> <td>809"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td>TO DO: Phage-PCR</td> </tr>
 +
<tr>
 +
<td>01:00</td> <td>26/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>02:00</td> <td>26/10/2017</td> <td>CG</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>845"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>03:00</td> <td>26/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>04:00</td> <td>26/10/2017</td> <td>CG</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>864"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>05:00</td> <td>26/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>06:00</td> <td>26/10/2017</td> <td>CG</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>836"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>07:00</td> <td>26/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>08:00</td> <td>26/10/2017</td> <td>TB</td> <td>7</td> <td>"Measured OD</td> <td> Took samples L1</td> <td> T1 - 7"</td> <td></td> <td>"0</td> <td>831"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>09:00</td> <td>26/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>10:00</td> <td>26/10/2017</td> <td>TB</td> <td></td> <td>Measured OD</td> <td> </td> <td>"0</td> <td>827"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>11:00</td> <td>26/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>12:00</td> <td>26/10/2017</td> <td>TB</td> <td></td> <td>Measured OD</td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td>TO DO: Phage-PCR</td> </tr>
 +
<tr>
 +
<td>13:00</td> <td>26/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>14:00</td> <td>26/10/2017</td> <td>TB</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>738"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>15:00</td> <td>26/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>16:00</td> <td>26/10/2017</td> <td>TB</td> <td>8</td> <td>"Measured OD</td> <td> Took samples L1</td> <td> T1 - 8"</td> <td>"Took samples L1</td> <td> T1"</td> <td>"0</td> <td>652"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>17:00</td> <td>26/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>18:00</td> <td>26/10/2017</td> <td></td> <td></td> <td>Measured OD</td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>19:00</td> <td>26/10/2017</td> <td>MS</td> <td></td> <td></td> <td></td> <td>"0</td> <td>582"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>20:00</td> <td>26/10/2017</td> <td></td> <td></td> <td>Measured OD</td> <td>Plaque assay was performed successfully </td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td>TO DO: Plaque Assay</td> </tr>
 +
<tr>
 +
<td>21:00</td> <td>26/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>22:00</td> <td>26/10/2017</td> <td>MS</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>633"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>23:00</td> <td>26/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>00:00</td> <td>27/10/2017</td> <td>PP</td> <td>9</td> <td>"Measured OD</td> <td> Took samples L1</td> <td> T1 - 9"</td> <td></td> <td>"0</td> <td>511"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td>TO DO: Phage-PCR</td> </tr>
 +
<tr>
 +
<td>01:00</td> <td>27/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>02:00</td> <td>27/10/2017</td> <td>MS</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>692"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>03:00</td> <td>27/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>04:00</td> <td>27/10/2017</td> <td>MS</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>937"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>05:00</td> <td>27/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td>"0</td> <td>945"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>06:00</td> <td>27/10/2017</td> <td>MP</td> <td></td> <td>Measured OD</td> <td></td> <td>"could not be measured</td> <td> as lagoon medium level was too high and therefore pump where set off for a short time "</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>07:00</td> <td>27/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>08:00</td> <td>27/10/2017</td> <td>MS</td> <td>10</td> <td>"Measured OD</td> <td> Took samples L1</td> <td> T1 - 10"</td> <td>"Phage detection PCR with samples 8</td> <td>9 and 10 for Dickinson-Phage and PI-Phage"</td> <td>"0</td> <td>912"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>09:00</td> <td>27/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>10:00</td> <td>27/10/2017</td> <td>PP</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>903"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>11:00</td> <td>27/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>12:00</td> <td>27/10/2017</td> <td>LP</td> <td></td> <td>Measured OD</td> <td>see above</td> <td>"0</td> <td>924"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td>TO DO: Phage-PCR</td> </tr>
 +
<tr>
 +
<td>13:00</td> <td>27/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>14:00</td> <td>27/10/2017</td> <td>MP</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>942"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>15:00</td> <td>27/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>16:00</td> <td>27/10/2017</td> <td>PP</td> <td>11</td> <td>"Measured OD</td> <td> Took samples L1</td> <td> T1 - 11"</td> <td>took samples</td> <td>"0</td> <td>942"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>17:00</td> <td>27/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>18:00</td> <td>27/10/2017</td> <td>MP</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>822"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>19:00</td> <td>27/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>20:00</td> <td>27/10/2017</td> <td>MK</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>59"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td>TO DO: Plaque Assay</td> </tr>
 +
<tr>
 +
<td>21:00</td> <td>27/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>22:00</td> <td>27/10/2017</td> <td>CG</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>61"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>23:00</td> <td>27/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>00:00</td> <td>28/10/2017</td> <td>MP</td> <td>12</td> <td>"Measured OD</td> <td> Took samples L1</td> <td> T1 - 12"</td> <td>Phage detection PCR with sample 11</td> <td>"0</td> <td>664"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td>TO DO: Phage-PCR</td> </tr>
 +
<tr>
 +
<td>01:00</td> <td>28/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>02:00</td> <td>28/10/2017</td> <td>CG</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>809"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>03:00</td> <td>28/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>04:00</td> <td>28/10/2017</td> <td>MP</td> <td></td> <td>Measured OD</td> <td>PCR: negative - phage washout</td> <td>"0</td> <td>820"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>05:00</td> <td>28/10/2017</td> <td></td> <td></td> <td>"Flow rate was adjusted: 1 ml/min </td> <td> lagoon was infected by pooled samples 6</td> <td> 7 and 8 "</td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>06:00</td> <td>28/10/2017</td> <td>MP</td> <td></td> <td>Measured OD</td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>07:00</td> <td>28/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>08:00</td> <td>28/10/2017</td> <td>MP</td> <td>13</td> <td>"Measured OD</td> <td> Took samples L1</td> <td> T1 - 13"</td> <td></td> <td>"0</td> <td>667"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>09:00</td> <td>28/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>10:00</td> <td>28/10/2017</td> <td>PP</td> <td></td> <td>Measured OD</td> <td></td> <td>"0</td> <td>62"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>11:00</td> <td>28/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>12:00</td> <td>28/10/2017</td> <td>PP</td> <td></td> <td>Measured OD </td> <td>Phage PCR was performed </td> <td>"0</td> <td>768"</td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td>TO DO: Phage-PCR</td> </tr>
 +
<tr>
 +
<td>13:00</td> <td>28/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>14:00</td> <td>28/10/2017</td> <td>PP</td> <td></td> <td>Measured OD</td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>15:00</td> <td>28/10/2017</td> <td></td> <td></td> <td></td> <td></td> <td></td> <td>199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)</td> <td></td> </tr>
 +
<tr>
 +
<td>16:00</td> <td>28/10/2017</td> <td>PP</td> <td>14</td> <td>"Measured OD</td> <td> Took samples L1</td> <td> T1 - 14"</td> <td>FINAL PROBES</td> <td></td> <td></td> <td></td> </tr>
 +
</tbody></table>
 +
 +
 +
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Revision as of 15:37, 1 November 2017


Title
Subtitle
Successful in vivo directed evolution by PREDCEL and PACE requires the thorough consideration of experimental parameters, e.g. phage propagation times, culture dilution rates and inducer/inhibitor concentrations. We employed extensive ODE-based and stochastic modeling to identify the most sensitive parameters and adapt our experiments accordingly. First, we calibrated our models using phage propagation experiments from our wet lab complemented with literature data. Simulations showed that the phage titer is highly sensitive to culture dilution rates. We simulated batch times and transfer volumes for PREDCEL and corresponding flow rates for PACE to determine optimized conditions for gene pool selection while avoiding phage washout. We also estimated phage titer monitoring intervals for cost/labor efficient QC as well as inducer/inhibitor concentrations required to express the required mutagenic polymerases. Finally, provide a web-based, fully interactive modeling platform, not only extensively employed by our wet lab, but highly informs future iGEM teams building on our work.

Table X: Title Subtitle

TIme Date Operator Sample Action DONE ToDo: OD Turbidostat 2 Stock ID TO DOs:
12:00 24/10/2017 MP - Started filling the turbidostat (T2) with medium 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
13:30 24/10/2017 MP - Inoculation of turbidostat 2 with 50 ml Stock culture 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
14:00 24/10/2017 MP - Measured OD "0 18" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
15:00 24/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
16:00 24/10/2017 MP - Measured OD "0 511" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
17:00 24/10/2017 MP "Measured OD started filling the lagoon and the arabinose pump" "0 548" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
18:00 24/10/2017 MP 1 Inoculation with 1 ml phage supernatant "0 514" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
19:00 24/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
20:00 24/10/2017 MS 1 "Measured OD Took samples L1 T1 - 1" "0 637" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
21:00 24/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
22:00 24/10/2017 MP "Measured OD Flow rate for lagoon was to high from previous filling ( 7 ml/min in contrast to 1 666 ml/min) - potential washout " "0 791" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
23:00 24/10/2017 MP "Lagoon was infected with 0 8 ml 10^8 PFU/ml phages to counteract the potential washout " "0 818" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
00:00 25/10/2017 MP 2 "Measured OD Took samples L1 T1 - 2" "0 833" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4) TO DO: Phage-PCR
01:00 25/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
02:00 25/10/2017 MS Measured OD "0 789" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
03:00 25/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
04:00 25/10/2017 MS 3 "Measured OD Took samples L1 T1 - 3" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
05:00 25/10/2017 "0 792" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
06:00 25/10/2017 MS Measured OD 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
07:00 25/10/2017 "0 817" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
08:00 25/10/2017 TB 4 "Measured OD Took samples L1 T1 - 4" Took samples 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
09:00 25/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
10:00 25/10/2017 TB Measured OD "0 816" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
11:00 25/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
12:00 25/10/2017 TB Measured OD Done PCR "0 81" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4) TO DO: Phage-PCR
13:00 25/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
14:00 25/10/2017 PP Measured OD "0 843" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
15:00 25/10/2017 inoculated growth for plaque assay 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
16:00 25/10/2017 PP 5 "Measured OD Took samples L1 T1 - 5" "0 833" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
17:00 25/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
18:00 25/10/2017 PP Measured OD "0 836" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
19:00 25/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
20:00 25/10/2017 MP Measured OD "0 862" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4) TO DO: Plaque Assay
21:00 25/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
22:00 25/10/2017 MP Measured OD "0 81" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
23:00 25/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
00:00 26/10/2017 LP 6 "Measured OD Took samples L1 T1 - 6" Done PCR "0 809" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4) TO DO: Phage-PCR
01:00 26/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
02:00 26/10/2017 CG Measured OD "0 845" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
03:00 26/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
04:00 26/10/2017 CG Measured OD "0 864" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
05:00 26/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
06:00 26/10/2017 CG Measured OD "0 836" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
07:00 26/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
08:00 26/10/2017 TB 7 "Measured OD Took samples L1 T1 - 7" "0 831" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
09:00 26/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
10:00 26/10/2017 TB Measured OD "0 827" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
11:00 26/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
12:00 26/10/2017 TB Measured OD 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4) TO DO: Phage-PCR
13:00 26/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
14:00 26/10/2017 TB Measured OD "0 738" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
15:00 26/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
16:00 26/10/2017 TB 8 "Measured OD Took samples L1 T1 - 8" "Took samples L1 T1" "0 652" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
17:00 26/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
18:00 26/10/2017 Measured OD 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
19:00 26/10/2017 MS "0 582" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
20:00 26/10/2017 Measured OD Plaque assay was performed successfully 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4) TO DO: Plaque Assay
21:00 26/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
22:00 26/10/2017 MS Measured OD "0 633" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
23:00 26/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
00:00 27/10/2017 PP 9 "Measured OD Took samples L1 T1 - 9" "0 511" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4) TO DO: Phage-PCR
01:00 27/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
02:00 27/10/2017 MS Measured OD "0 692" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
03:00 27/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
04:00 27/10/2017 MS Measured OD "0 937" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
05:00 27/10/2017 "0 945" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
06:00 27/10/2017 MP Measured OD "could not be measured as lagoon medium level was too high and therefore pump where set off for a short time " 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
07:00 27/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
08:00 27/10/2017 MS 10 "Measured OD Took samples L1 T1 - 10" "Phage detection PCR with samples 8 9 and 10 for Dickinson-Phage and PI-Phage" "0 912" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
09:00 27/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
10:00 27/10/2017 PP Measured OD "0 903" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
11:00 27/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
12:00 27/10/2017 LP Measured OD see above "0 924" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4) TO DO: Phage-PCR
13:00 27/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
14:00 27/10/2017 MP Measured OD "0 942" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
15:00 27/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
16:00 27/10/2017 PP 11 "Measured OD Took samples L1 T1 - 11" took samples "0 942" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
17:00 27/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
18:00 27/10/2017 MP Measured OD "0 822" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
19:00 27/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
20:00 27/10/2017 MK Measured OD "0 59" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4) TO DO: Plaque Assay
21:00 27/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
22:00 27/10/2017 CG Measured OD "0 61" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
23:00 27/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
00:00 28/10/2017 MP 12 "Measured OD Took samples L1 T1 - 12" Phage detection PCR with sample 11 "0 664" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4) TO DO: Phage-PCR
01:00 28/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
02:00 28/10/2017 CG Measured OD "0 809" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
03:00 28/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
04:00 28/10/2017 MP Measured OD PCR: negative - phage washout "0 820" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
05:00 28/10/2017 "Flow rate was adjusted: 1 ml/min lagoon was infected by pooled samples 6 7 and 8 " 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
06:00 28/10/2017 MP Measured OD 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
07:00 28/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
08:00 28/10/2017 MP 13 "Measured OD Took samples L1 T1 - 13" "0 667" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
09:00 28/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
10:00 28/10/2017 PP Measured OD "0 62" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
11:00 28/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
12:00 28/10/2017 PP Measured OD Phage PCR was performed "0 768" 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4) TO DO: Phage-PCR
13:00 28/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
14:00 28/10/2017 PP Measured OD 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
15:00 28/10/2017 199 (pMax69 aka AP-SplitT7 + GenIII+YFP + MP4)
16:00 28/10/2017 PP 14 "Measured OD Took samples L1 T1 - 14" FINAL PROBES
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