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Team:Bielefeld-CeBiTec/Notebook/Journal/rMFC/Sep
From 2014.igem.org
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<div class="content" style="margin-right:10%; margin-left:10%"> | <div class="content" style="margin-right:10%; margin-left:10%"> | ||
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<ul> | <ul> | ||
<li><b><i>frd (E.coli)</i></b></li> | <li><b><i>frd (E.coli)</i></b></li> | ||
| + | <ul> | ||
| + | <li>This week we transform pSB1C3_T7_<i>frd</i> with different <i>E.coli</i> strains for the characterization of it respectively</li> | ||
<ul> | <ul> | ||
<li><a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Protocols#Transformationviaelectroporation" target="_blank">Transformation</a> of pSB1C3_T7_<i>frd</i> with electrocompotetent cells of <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/StrainsAndConstructs" target="_blank">KRX ΔdcuB::oprF</a>, <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/StrainsAndConstructs" target="_blank">JW4084-1</a> as well as <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/StrainsAndConstructs" target="_blank">JW0506-1</a> from the KEIO collection</li> | <li><a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Protocols#Transformationviaelectroporation" target="_blank">Transformation</a> of pSB1C3_T7_<i>frd</i> with electrocompotetent cells of <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/StrainsAndConstructs" target="_blank">KRX ΔdcuB::oprF</a>, <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/StrainsAndConstructs" target="_blank">JW4084-1</a> as well as <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/StrainsAndConstructs" target="_blank">JW0506-1</a> from the KEIO collection</li> | ||
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<li><a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Protocols#RestrictionDigestion" target="_blank">Restriction digestion</a> with <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/KitsAndEnzymes#RestrictionEnzymes" target="_blank"><i>Not</i>I</a></li> | <li><a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Protocols#RestrictionDigestion" target="_blank">Restriction digestion</a> with <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/KitsAndEnzymes#RestrictionEnzymes" target="_blank"><i>Not</i>I</a></li> | ||
<ul> | <ul> | ||
| - | <li>Bands not as expected (~ | + | <li>Bands not as expected (~6611 bp)</li> |
</ul> | </ul> | ||
</ul> | </ul> | ||
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<div class="content" style="margin-right:10%; margin-left:10%"> | <div class="content" style="margin-right:10%; margin-left:10%"> | ||
| + | <ul> | ||
| + | <li><b><i>ccm</i></b></li> | ||
| + | <ul> | ||
| + | <li><a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Protocols#Gibson" target="_blank">Gibson Assembly</a> with <i>ccm</i> and pSB1C3</li> | ||
| + | </ul> | ||
| + | <ul> | ||
| + | <li><a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Protocols#Transformationviaelectroporation" target="_blank">Transformation</a> with electrocompotetent cells and <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Protocols#Transformationviaheatshock" target="_blank">Transformation</a> with chemocompetent cells</li> | ||
| + | </ul> | ||
| + | <ul> | ||
| + | <li><a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Protocols#PurificationPromega" target="_blank">Plasmid isolation</a> of <i>ccm</i> and <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Protocols#RestrictionDigestion" target="_blank">Restriction digestion</a> with <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/KitsAndEnzymes#RestrictionEnzymes" target="_blank"><i>EcoR</i>I</a> and <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/KitsAndEnzymes#RestrictionEnzymes" target="_blank"><i>Pst</i>I</a> </li> | ||
| + | <ul> | ||
| + | <li>Bands mainly not as expected (~6281 bp and ~2070 bp ) because additional bands are visible. | ||
| + | <li>Therefore a <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Protocols#RestrictionDigestion" target="_blank">restriction digestion</a> with <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/KitsAndEnzymes#RestrictionEnzymes" target="_blank"><i>EcoR</i>V</a> and <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/KitsAndEnzymes#RestrictionEnzymes" target="_blank"><i>Hind</i>III</a> was done</li> | ||
| + | <ul> | ||
| + | <li>Bands not as expected because only two bands were visible</li> | ||
| + | </ul> | ||
| + | </ul> | ||
| + | </ul> | ||
| + | |||
| + | <ul> | ||
| + | <li><a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Protocols#ColonyPCR" target="_blank">Colony PCR</a> with new primer(<a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Primer#ccm_con1" target="_blank">ccm_con1</a>, <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Primer#VR-Primer" target="_blank">VR-Primer</a>) | ||
| + | </li> | ||
| + | <ul> | ||
| + | <li>Annealing temperature: 55°C</li> | ||
| + | <li>Bands as expected (~880 bp)</li> | ||
| + | </ul> | ||
| + | </ul> | ||
| + | <ul> | ||
| + | <li><a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Protocols#PurificationPromega" target="_blank">Plasmid isolation</a> of pSB1C3_<i>ccm</i> and <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Protocols#RestrictionDigestion" target="_blank">restriction digestion</a> with <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/KitsAndEnzymes#RestrictionEnzymes" target="_blank"><i>EcoR</i>I</a> and <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/KitsAndEnzymes#RestrictionEnzymes" target="_blank"><i>Pst</i>I</a> </li> | ||
| + | <ul> | ||
| + | <li>Bands not as expected (~6281 bp and ~2070 bp)</li> | ||
| + | </ul> | ||
| + | </ul> | ||
| + | <ul> | ||
| + | <li><a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Protocols#PCR" target="_blank">PCR amplification</a> of <i>ccm</i> backbone(<a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Primer#pSB1C3_pre_ccm" target="_blank">pSB1C3_pre_ccm</a>, <a href="https://2014.igem.org/Team:Bielefeld-CeBiTec/Notebook/Primer#pSB1C3_suf_ccm" target="_blank">pSB1C3_suf_ccm</a>)</li> | ||
| + | <ul> | ||
| + | <li>Annealing temperature: 61°C</li> | ||
| + | <li>Bands as expected (~6281 bp)</li> | ||
| + | </ul> | ||
| + | </ul> | ||
| + | |||
| + | |||
| + | </ul> | ||
| + | |||
| + | |||
| + | |||
| + | </ul> | ||
| + | </ul> | ||
| + | <br> | ||
| + | |||
| + | |||
</div> | </div> | ||
</div> | </div> | ||
Revision as of 11:25, 15 October 2014
 |
September |
 |
- FumA
- This week we assembled FumA with different constitutive promotors
- Restriction digestion with EcoRI and PstI
- Bands as expected (~2070 bp and ~1800 bp) for pSB1C3_T7_FumA
- BioBrick Assembly (Suffix)
- Transformation of all constructs with electrocompotetent cells
- Colony PCR (VF-Primer, VR-Primer)
- Annealing temperature: 55 °C
- Bands as expected (~2100 bp) for all constructs
- Plasmid isolation of the positive colonies
- Restriction digestion with EcoRI and PstI
- Bands as expected (~2070 bp and ~1800 bp)
- ccm
- Gibson Assembly with ccm and pSB1C3
- Transformation of pSB1C3_ccm with electrocompotetent cells
- GSU 3274
- This week we assembled GSU 3274 with different promotors
- BioBrick Assembly (Suffix)
- Transformation of all constructs with electrocompotetent cells
- Colony PCR (VF-Primer, VR-Primer)
- Annealing temperature: 55°C
- Bands as expected (~ bp) for pSB1C3_ptac and pSB1A2_T7
- Electrobiochemical reactor system
- This week we arranged the complete H-cell reactor for the first time to start first trials. Therefore we prepare the H-cell buffers and the Nafion® membrane which ensures the division of the two compartments.
- NAD/NADH Assay
- This week we startet the first test with the Promega NAD/NADH-Glo™ Assay to evaluate later cultivations respectively.
- frd (E.coli)
- This week we transform pSB1C3_T7_frd with different E.coli strains for the characterization of it respectively
- Transformation of pSB1C3_T7_frd with electrocompotetent cells of KRX ΔdcuB::oprF, JW4084-1 as well as JW0506-1 from the KEIO collection
- Colony PCR (VF-Primer, VR-Primer)
- Annealing temperature: 55 °C
- Bands as expected (~3600 bp)
- Restriction digestion of all constructs with EcoRI and PstI
- Bands (not) as expected (~... bp)
- Expression of frd (E.coli) for SDS-Page
- Induction was carried out with 0.1 % Rhamnose and 1 mM IPTG
- For the release of the periplasmatic protein fraction a cold osmotic shock was performed
- ccm
- Plasmid isolation of pSB1C3_ccm
- Restriction digestion with NotI
- Bands not as expected (~6611 bp)
- ccm
- Gibson Assembly with ccm and pSB1C3
- Transformation with electrocompotetent cells and Transformation with chemocompetent cells
- Plasmid isolation of ccm and Restriction digestion with EcoRI and PstI
- Bands mainly not as expected (~6281 bp and ~2070 bp ) because additional bands are visible.
- Therefore a restriction digestion with EcoRV and HindIII was done
- Bands not as expected because only two bands were visible
- Colony PCR with new primer(ccm_con1, VR-Primer)
- Annealing temperature: 55°C
- Bands as expected (~880 bp)
- Plasmid isolation of pSB1C3_ccm and restriction digestion with EcoRI and PstI
- Bands not as expected (~6281 bp and ~2070 bp)
- PCR amplification of ccm backbone(pSB1C3_pre_ccm, pSB1C3_suf_ccm)
- Annealing temperature: 61°C
- Bands as expected (~6281 bp)
