Difference between revisions of "Team:Munich/purify1.html"
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| Line 9: | Line 9: | ||
<td>Participants:</td> | <td>Participants:</td> | ||
| − | <td>Keno</td> | + | <td>Keno Eilers</td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td>Protocol:</td> | <td>Protocol:</td> | ||
| − | <td>T7 DNA Purification, | + | <td> |
| + | <a href="https://static.igem.org/mediawiki/2018/7/7a/T--Munich--PhageT7DNAPurification.pdf" target="_blank">Phage T7 DNA Purification</a>, | ||
| + | <a href="https://static.igem.org/mediawiki/2018/0/0f/T--Munich--PhenolChloroformPrecipitation.pdf" target="_blank"> | ||
| + | Phenol Chloroform precipitation</a> | ||
| + | </td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| Line 39: | Line 43: | ||
<td>Participants:</td> | <td>Participants:</td> | ||
| − | <td>Nils</td> | + | <td>Nils O'Brien</td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td>Protocol:</td> | <td>Protocol:</td> | ||
| − | <td> NEB PCR | + | <td> |
| + | <a href="https://www.neb.com/-/media/catalog/datacards-or-manuals/manualt1030.pdf" target="_blank">NEB PCR Cleanup Kit</a>, | ||
| + | <a href="https://static.igem.org/mediawiki/2018/b/be/T--Munich--WL1_Agarose-Gel_electrophoresis.pdf" target="_blank">Agarose Gel electrophoresis</a> | ||
| + | </td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| Line 63: | Line 70: | ||
<td>Participants:</td> | <td>Participants:</td> | ||
| − | <td>Nils</td> | + | <td>Nils O'Brien</td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td>Protocol:</td> | <td>Protocol:</td> | ||
| − | <td> NEB PCR | + | <td> |
| + | <a href="https://www.neb.com/-/media/catalog/datacards-or-manuals/manualt1030.pdf" target="_blank">NEB PCR Cleanup Kit</a>, | ||
| + | <a href="https://static.igem.org/mediawiki/2018/b/be/T--Munich--WL1_Agarose-Gel_electrophoresis.pdf" target="_blank">Agarose Gel electrophoresis</a> | ||
| + | </td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| Line 88: | Line 98: | ||
<td>Participants:</td> | <td>Participants:</td> | ||
| − | <td>Keno, Kilian</td> | + | <td>Keno Eilers, Kilian Vogele</td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td>Protocol:</td> | <td>Protocol:</td> | ||
| − | <td> | + | <td> |
| + | <a href="https://static.igem.org/mediawiki/2018/0/0f/T--Munich--PhenolChloroformPrecipitation.pdf" target="_blank"> | ||
| + | Phenol Chloroform precipitation</a> | ||
| + | </td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| Line 110: | Line 123: | ||
<td>Participants:</td> | <td>Participants:</td> | ||
| − | <td>Keno</td> | + | <td>Keno Eilers</td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td>Protocol:</td> | <td>Protocol:</td> | ||
| − | <td> | + | <td> |
| + | <a href="https://static.igem.org/mediawiki/2018/0/0f/T--Munich--PhenolChloroformPrecipitation.pdf" target="_blank"> | ||
| + | Phenol Chloroform precipitation</a>, | ||
| + | <a href="https://static.igem.org/mediawiki/2018/3/34/T--Munich--cDNASynthesis.pdf" target="_blank"> | ||
| + | cDNA Synthesis</a> | ||
| + | </td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| Line 136: | Line 154: | ||
<td>Participants:</td> | <td>Participants:</td> | ||
| − | <td>Keno</td> | + | <td>Keno Eilers</td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td>Protocol:</td> | <td>Protocol:</td> | ||
| − | <td> | + | <td> |
| + | <a href="https://static.igem.org/mediawiki/2018/0/0f/T--Munich--PhenolChloroformPrecipitation.pdf" target="_blank"> | ||
| + | Phenol Chloroform precipitation</a>, | ||
| + | <a href="https://static.igem.org/mediawiki/2018/3/34/T--Munich--cDNASynthesis.pdf" target="_blank"> | ||
| + | cDNA Synthesis</a> | ||
| + | </td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| Line 160: | Line 183: | ||
<td>Participants:</td> | <td>Participants:</td> | ||
| − | <td>Keno, Sophie | + | <td>Keno Eilers, Sophie Kurzbach, Nils O'Brien</td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td>Protocol:</td> | <td>Protocol:</td> | ||
| − | <td>T7 DNA | + | <td> |
| + | <a href="https://static.igem.org/mediawiki/2018/7/7a/T--Munich--PhageT7DNAPurification.pdf" target="_blank">Phage T7 DNA Purification</a>, | ||
| + | <a href="https://static.igem.org/mediawiki/2018/b/be/T--Munich--WL1_Agarose-Gel_electrophoresis.pdf" target="_blank">Agarose Gelelectrophoresis</a> | ||
| + | </td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| Line 186: | Line 212: | ||
<td>Participants:</td> | <td>Participants:</td> | ||
| − | <td>Sophie | + | <td>Sophie Kurzbach</td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td>Protocol:</td> | <td>Protocol:</td> | ||
| − | <td> T7 DNA | + | <td> |
| + | <a href="https://static.igem.org/mediawiki/2018/7/7a/T--Munich--PhageT7DNAPurification.pdf" target="_blank">Phage T7 DNA Purification</a>, | ||
| + | <a href="https://static.igem.org/mediawiki/2018/0/0f/T--Munich--PhenolChloroformPrecipitation.pdf" target="_blank"> | ||
| + | Phenol Chloroform precipitation</a> | ||
| + | </td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| Line 212: | Line 242: | ||
<td>Participants:</td> | <td>Participants:</td> | ||
| − | <td>Sophie | + | <td>Sophie Kurzbach</td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td>Protocol:</td> | <td>Protocol:</td> | ||
| − | <td> T7 DNA | + | <td> |
| + | <a href="https://static.igem.org/mediawiki/2018/7/7a/T--Munich--PhageT7DNAPurification.pdf" target="_blank">Phage T7 DNA Purification</a>, | ||
| + | <a href="https://static.igem.org/mediawiki/2018/0/0f/T--Munich--PhenolChloroformPrecipitation.pdf" target="_blank"> | ||
| + | Phenol Chloroform precipitation</a>, | ||
| + | PEG percipitant | ||
| + | </td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| Line 247: | Line 282: | ||
<td>Participants:</td> | <td>Participants:</td> | ||
| − | <td>Keno</td> | + | <td>Keno Eilers</td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td>Protocol:</td> | <td>Protocol:</td> | ||
| − | <td> T7 DNA | + | <td> |
| + | <a href="https://static.igem.org/mediawiki/2018/7/7a/T--Munich--PhageT7DNAPurification.pdf" target="_blank">Phage T7 DNA Purification</a>, | ||
| + | <a href="https://static.igem.org/mediawiki/2018/0/0f/T--Munich--PhenolChloroformPrecipitation.pdf" target="_blank"> | ||
| + | Phenol Chloroform precipitation</a> | ||
| + | </td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| Line 270: | Line 309: | ||
<tr> | <tr> | ||
<td>Participants:</td> | <td>Participants:</td> | ||
| − | <td>Brigit</td> | + | <td>Brigit Tunaj</td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td>Protocol:</td> | <td>Protocol:</td> | ||
| − | <td> | + | <td> |
| + | <a href="http://algimed.by/download/EN-QIAGEN-Genomic-DNA-Handbook.pdf" target="_blank">Qiagen Genomic Tip Kit</a> | ||
| + | </td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| Line 293: | Line 334: | ||
<tr> | <tr> | ||
<td>Participants:</td> | <td>Participants:</td> | ||
| − | <td>Brigit</td> | + | <td>Brigit Tunaj</td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
<td>Protocol:</td> | <td>Protocol:</td> | ||
| − | <td> | + | <td> |
| + | <a href="http://algimed.by/download/EN-QIAGEN-Genomic-DNA-Handbook.pdf" target="_blank">Qiagen Genomic Tip Kit</a> | ||
| + | </td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
Revision as of 21:36, 15 October 2018
T7 DNA extraction by phenol chloroform precipitation
2018/05/17| Participants: | Keno Eilers |
| Protocol: | Phage T7 DNA Purification, Phenol Chloroform precipitation |
| Notes: | still too much from E. coli |
| Results: | DNA concentration: 55,5 ng/uL |
Cleanup of T7 DNA from 15.5.18 with NEB PCR Cleanup Kit
2018/05/19| Participants: | Nils O'Brien |
| Protocol: | NEB PCR Cleanup Kit, Agarose Gel electrophoresis |
| Notes: | warming of columns on 40 °C for a few minutes before elution |
| Results: | no results, not possible with genome larger than 25kb |
second try: Cleanup of T7 DNA from 15.5.18 with NEB PCR Cleanup Kit
2018/05/20| Participants: | Nils O'Brien |
| Protocol: | NEB PCR Cleanup Kit, Agarose Gel electrophoresis |
| Notes: | warming of columns on 50 °C for a few minutes before elution |
| Results: | no results, did not work out for large fragments |
T7 DNA clean up T7 DNA
2018/05/22| Participants: | Keno Eilers, Kilian Vogele |
| Protocol: | Phenol Chloroform precipitation |
| Results: | no results à testing PEG cutoff tomorrow |
Generating MS2 RNA genome
2018/05/23| Participants: | Keno Eilers |
| Protocol: | Phenol Chloroform precipitation, cDNA Synthesis |
| Notes: | 1 ul DNAse I (NEB, 2.000 U/mL) added, incubate for 10 minutes at 37 °C |
| Results: | RNA concentration: 34900 ng/µl |
Generating MS2 RNA genome
2018/05/23| Participants: | Keno Eilers |
| Protocol: | Phenol Chloroform precipitation, cDNA Synthesis |
| Notes: | 1 ul DNAse I (NEB, 2.000 U/mL) added, incubate for 10 minutes at 37 °C |
| Results: | RNA concentration: 34900 ng/µl |
Optimization of DNA precipitation out of T7 Phage
2018/05/23 - 2018/05/25| Participants: | Keno Eilers, Sophie Kurzbach, Nils O'Brien |
| Protocol: | Phage T7 DNA Purification, Agarose Gelelectrophoresis |
| Notes: | Step 11 of "T7 DNA purification" protocol: Optimization of PEG (63%) precipitation Incubation for 42 minutes, then proceeded with centrifugation |
| Results: | 150 µl PEG: 302 ng/µl, 200 µl PEG: 164 ng/µl, 250 µl PEG: 278 ng/µl, 300 µl PEG: 113 ng/µl, 350 µl PEG: 279 ng/µl, 400 µl PEG: 216 ng/µl, 450 µl PEG: 530 ng/µl, 500 µl PEG: 422 ng/µl |
T7 DNA Isolation with different infection times
2018/05/29| Participants: | Sophie Kurzbach |
| Protocol: | Phage T7 DNA Purification, Phenol Chloroform precipitation |
| Notes: | tested transfection times: 12 min (before supernatant), 22 min (after supernatant), 32 min (cell lysis) |
| Results: | 12 min: 209 ng/uL, 22 min: 628 ng/uL, 32 min: 334 ng/uL |
T7 DNA Isolation 10 min and 32 min after super transfection + RNAse
2018/06/05 -2018/06/06| Participants: | Sophie Kurzbach |
| Protocol: | Phage T7 DNA Purification, Phenol Chloroform precipitation, PEG percipitant |
| Notes: | better results than DNA without RNAse treatment, still too much E. coli DNA |
| Results: | DNA concentration of 10 min: 633 ng/uL DNA concentration of 32 min: 200 ng/uL |
T7 DNA extraction by phenol chloroform precipitation
2018/06/16-2018/06/18| Participants: | Keno Eilers |
| Protocol: | Phage T7 DNA Purification, Phenol Chloroform precipitation |
| Notes: | - |
| Results: | good DNA: 10,37 nM |
DNA purification of T7 DNA with Qiagen Genomic Tips 100/G
2018/06/22| Participants: | Brigit Tunaj |
| Protocol: | Qiagen Genomic Tip Kit |
| Notes: | preparation of buffers as descripted on their homepage |
| Results: | did not work out |
DNA purification of T7 DNA with Qiagen Genomic Tips 100/G
2018/06/25| Participants: | Brigit Tunaj |
| Protocol: | Qiagen Genomic Tip Kit |
| Notes: | increased DNA concentration 50 ug |
| Results: | did not work out |