Team:Goettingen/NoteBook w3
From 2013.igem.org
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<div class="tlob" id="tl_0621"> | <div class="tlob" id="tl_0621"> | ||
<span class="date">21st<img src="https://static.igem.org/mediawiki/2013/b/b7/Goe-timeline-dot.png" /></span> | <span class="date">21st<img src="https://static.igem.org/mediawiki/2013/b/b7/Goe-timeline-dot.png" /></span> | ||
<div class="cont"> | <div class="cont"> | ||
- | <p class="timeline-title">Transformation | + | <p class="timeline-title goe-rt">Transformation |
from yesterday worked!</p> | from yesterday worked!</p> | ||
<div class="timeline-cont"> | <div class="timeline-cont"> | ||
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</div> | </div> | ||
</div> | </div> | ||
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<span class="date">20th<img src="https://static.igem.org/mediawiki/2013/b/b7/Goe-timeline-dot.png"></span> | <span class="date">20th<img src="https://static.igem.org/mediawiki/2013/b/b7/Goe-timeline-dot.png"></span> | ||
<div class="cont"> | <div class="cont"> | ||
- | <p class="timeline-title" title="Click to fold/extend">Digestion of PCR product (DarR Operator) (10 cycles) and Plasmid backbone (pSB1A3)</p> | + | <p class="timeline-title goe-rt" title="Click to fold/extend">Digestion of PCR product (DarR Operator) (10 cycles) and Plasmid backbone (pSB1A3)</p> |
- | <div class="timeline-cont"> | + | <div class="timeline-cont" style="display: block;"> |
<p class="MsoNormal"><b style="mso-bidi-font-weight:normal"><span lang="EN-US">Concentration | <p class="MsoNormal"><b style="mso-bidi-font-weight:normal"><span lang="EN-US">Concentration | ||
Line 183: | Line 177: | ||
+ | </div> | ||
+ | <p class="timeline-title goe-dac">Digestion of amplified DAC-domains (S.aureus and S. | ||
+ | pneumonia) from 17.06.</p> | ||
+ | <div class="timeline-cont"> | ||
+ | <p class="MsoNormal"><b><span lang="EN-US" style="font-size:11.0pt;font-family: | ||
+ | "Arial","sans-serif"">Digestion of amplified DAC-domains (S.aureus and S. | ||
+ | pneumonia) from 17.06.</span></b></p> | ||
+ | <p class="MsoNormal"><b><span lang="EN-US" style="font-size:11.0pt;font-family: | ||
+ | "Arial","sans-serif""> </span></b></p> | ||
+ | <table class="MsoTableGrid" border="1" cellspacing="0" cellpadding="0" style="border-collapse:collapse;border:none"> | ||
+ | <tbody><tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoNormal" align="center" style="text-align:center"><span lang="EN-US" style="font-size:11.0pt;font-family:"Arial","sans-serif"">Components:</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border:solid black 1.0pt; | ||
+ | border-left:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoNormal" align="center" style="text-align:center"><span lang="EN-US" style="font-size:11.0pt;font-family:"Arial","sans-serif"">Volume</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif""> </span></p> | ||
+ | <p class="MsoListParagraphCxSpMiddle" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">plasmid | ||
+ | DNA</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpMiddle" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif""> </span></p> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">16µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">PstI</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">6µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">EcoRI</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">6µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">orange | ||
+ | buffer (10x)</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">8µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">H<sub>2</sub>O</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">44µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | </tbody></table> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-top:0cm;margin-right:0cm; | ||
+ | margin-bottom:0cm;margin-left:54.0pt;margin-bottom:.0001pt;text-indent:-18.0pt; | ||
+ | line-height:normal"><span lang="EN-US" style="font-family:Wingdings">è<span style="font:7.0pt "Times New Roman""> </span></span><span lang="EN-US" style="font-family:"Arial","sans-serif"">incubation for 30min at 37°C</span></p> | ||
+ | <p class="MsoListParagraphCxSpMiddle" style="margin-top:0cm;margin-right:0cm; | ||
+ | margin-bottom:0cm;margin-left:54.0pt;margin-bottom:.0001pt;text-indent:-18.0pt; | ||
+ | line-height:normal"><span lang="EN-US" style="font-family:Wingdings">è<span style="font:7.0pt "Times New Roman""> </span></span><span lang="EN-US" style="font-family:"Arial","sans-serif"">heat inactivation for 20min at 65°C</span></p> | ||
+ | <p class="MsoListParagraphCxSpMiddle" style="margin-top:0cm;margin-right:0cm; | ||
+ | margin-bottom:0cm;margin-left:54.0pt;margin-bottom:.0001pt;text-indent:-18.0pt; | ||
+ | line-height:normal"><span lang="EN-US" style="font-family:Wingdings">è<span style="font:7.0pt "Times New Roman""> </span></span><span lang="EN-US" style="font-family:"Arial","sans-serif"">store at -20°C</span></p> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-top:0cm;margin-right:0cm; | ||
+ | margin-bottom:0cm;margin-left:54.0pt;margin-bottom:.0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif""> </span></p> | ||
+ | <p class="MsoNormal"><b><span lang="EN-US" style="font-size:11.0pt;font-family: | ||
+ | "Arial","sans-serif"">Digestion of prepared Strep-Tag from 17.06.</span></b></p> | ||
+ | <p class="MsoNormal"><b><span lang="EN-US" style="font-size:11.0pt;font-family: | ||
+ | "Arial","sans-serif""> </span></b></p> | ||
+ | <table class="MsoTableGrid" border="1" cellspacing="0" cellpadding="0" style="border-collapse:collapse;border:none"> | ||
+ | <tbody><tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoNormal" align="center" style="text-align:center"><span lang="EN-US" style="font-size:11.0pt;font-family:"Arial","sans-serif"">Components:</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border:solid black 1.0pt; | ||
+ | border-left:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoNormal" align="center" style="text-align:center"><span lang="EN-US" style="font-size:11.0pt;font-family:"Arial","sans-serif"">Volume</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">Strep-Tag</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">16µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">PstI</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">6µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">EcoRI</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">6µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">orange | ||
+ | buffer (10x)</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">8µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">H<sub>2</sub>O</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">44µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | </tbody></table> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif""> </span></p> | ||
+ | <p class="MsoListParagraphCxSpMiddle" style="margin-top:0cm;margin-right:0cm; | ||
+ | margin-bottom:0cm;margin-left:54.0pt;margin-bottom:.0001pt;text-indent:-18.0pt; | ||
+ | line-height:normal"><span lang="EN-US" style="font-family:Wingdings">è<span style="font:7.0pt "Times New Roman""> </span></span><span lang="EN-US" style="font-family:"Arial","sans-serif"">incubation for 30min at 37°C</span></p> | ||
+ | <p class="MsoListParagraphCxSpMiddle" style="margin-top:0cm;margin-right:0cm; | ||
+ | margin-bottom:0cm;margin-left:54.0pt;margin-bottom:.0001pt;text-indent:-18.0pt; | ||
+ | line-height:normal"><span lang="EN-US" style="font-family:Wingdings">è<span style="font:7.0pt "Times New Roman""> </span></span><span lang="EN-US" style="font-family:"Arial","sans-serif"">heat inactivation for 20min at 65°C</span></p> | ||
+ | <p class="MsoListParagraphCxSpMiddle" style="margin-top:0cm;margin-right:0cm; | ||
+ | margin-bottom:0cm;margin-left:54.0pt;margin-bottom:.0001pt;text-indent:-18.0pt; | ||
+ | line-height:normal"><span lang="EN-US" style="font-family:Wingdings">è<span style="font:7.0pt "Times New Roman""> </span></span><span lang="EN-US" style="font-family:"Arial","sans-serif"">store at -20°C</span></p> | ||
+ | <p class="MsoListParagraphCxSpMiddle" style="margin-top:0cm;margin-right:0cm; | ||
+ | margin-bottom:0cm;margin-left:54.0pt;margin-bottom:.0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif""> </span></p> | ||
+ | <p class="MsoListParagraphCxSpMiddle" style="margin-top:0cm;margin-right:0cm; | ||
+ | margin-bottom:0cm;margin-left:54.0pt;margin-bottom:.0001pt;text-indent:-18.0pt; | ||
+ | line-height:normal"><span lang="EN-US" style="font-family:Wingdings;color:#00B050">è<span style="font:7.0pt "Times New Roman""> </span></span><span lang="EN-US" style="font-family:"Arial","sans-serif";color:#00B050">Preparation of | ||
+ | Strap-Tag worked</span></p> | ||
+ | <p class="MsoListParagraphCxSpMiddle" style="margin-top:0cm;margin-right:0cm; | ||
+ | margin-bottom:0cm;margin-left:54.0pt;margin-bottom:.0001pt;text-indent:-18.0pt; | ||
+ | line-height:normal"><span lang="EN-US" style="font-family:Wingdings;color:#00B050">è<span style="font:7.0pt "Times New Roman""> </span></span><span lang="EN-US" style="font-family:"Arial","sans-serif";color:#00B050">Preparation of DAC | ||
+ | domain of S.aureus worked</span></p> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-top:0cm;margin-right:0cm; | ||
+ | margin-bottom:0cm;margin-left:54.0pt;margin-bottom:.0001pt;text-indent:-18.0pt; | ||
+ | line-height:normal"><span lang="EN-US" style="font-family:Wingdings;color:#00B050">è<span style="font:7.0pt "Times New Roman""> </span></span><span lang="EN-US" style="font-family:"Arial","sans-serif";color:#00B050">Preparation of DAC | ||
+ | domain of S- pneumonia failed = EcoRI restriction site in fragment</span></p> | ||
+ | <p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Arial","sans-serif""> </span></p> | ||
+ | |||
+ | |||
<div class="fbutton">Fold ↑</div> | <div class="fbutton">Fold ↑</div> | ||
</div> | </div> | ||
Line 193: | Line 400: | ||
<span class="date">19th<img src="https://static.igem.org/mediawiki/2013/b/b7/Goe-timeline-dot.png"></span> | <span class="date">19th<img src="https://static.igem.org/mediawiki/2013/b/b7/Goe-timeline-dot.png"></span> | ||
<div class="cont"> | <div class="cont"> | ||
- | <p class="timeline-title" title="Click to fold/extend">PCR using primer iGEM 36,37 for construction of DarR operator biobrick,DarR sequencing</p> | + | <p class="timeline-title goe-rt" title="Click to fold/extend">PCR using primer iGEM 36,37 for construction of DarR operator biobrick,DarR sequencing</p> |
- | <div class="timeline-cont"> | + | <div class="timeline-cont" style="display: block;"> |
<p class="MsoNormal"><b><span lang="EN-US">PCR using primer iGEM 36<span class="GramE">,37</span> for construction of DarR operator biobrick.<o:p></o:p></span></b></p> | <p class="MsoNormal"><b><span lang="EN-US">PCR using primer iGEM 36<span class="GramE">,37</span> for construction of DarR operator biobrick.<o:p></o:p></span></b></p> | ||
<p class="MsoNormal"><span lang="EN-US">Same recipe as yesterdays PCR, rest the | <p class="MsoNormal"><span lang="EN-US">Same recipe as yesterdays PCR, rest the | ||
Line 376: | Line 583: | ||
without these codons)<b style="mso-bidi-font-weight:normal"><o:p></o:p></b></span></p> | without these codons)<b style="mso-bidi-font-weight:normal"><o:p></o:p></b></span></p> | ||
- | |||
</div> | </div> | ||
</div> | </div> | ||
Line 386: | Line 592: | ||
<span class="date">18th<img src="https://static.igem.org/mediawiki/2013/b/b7/Goe-timeline-dot.png" /></span> | <span class="date">18th<img src="https://static.igem.org/mediawiki/2013/b/b7/Goe-timeline-dot.png" /></span> | ||
<div class="cont"> | <div class="cont"> | ||
- | <p class="timeline-title">Test restriction of Part 2 C2,Primer design,Construction of DarR operator biobrick(PCR)</p> | + | <p class="timeline-title goe-rt">Test restriction of Part 2 C2,Primer design,Construction of DarR operator biobrick(PCR)</p> |
<div class="timeline-cont"> | <div class="timeline-cont"> | ||
Line 929: | Line 1,135: | ||
bold"><o:p> </o:p></span></p> | bold"><o:p> </o:p></span></p> | ||
</td> | </td> | ||
- | |||
- | |||
</div> | </div> | ||
</div> | </div> | ||
Line 938: | Line 1,142: | ||
<span class="date">17th<img src="https://static.igem.org/mediawiki/2013/b/b7/Goe-timeline-dot.png" /></span> | <span class="date">17th<img src="https://static.igem.org/mediawiki/2013/b/b7/Goe-timeline-dot.png" /></span> | ||
<div class="cont"> | <div class="cont"> | ||
- | <p class="timeline-title">Plate reader assay for the pink strains, Plasmid mini prep for Part C2</p> | + | <p class="timeline-title goe-rt">Plate reader assay for the pink strains, Plasmid mini prep for Part C2</p> |
<div class="timeline-cont"> | <div class="timeline-cont"> | ||
Line 1,451: | Line 1,655: | ||
l5 level1 lfo12"><!--[if !supportLists]--><span lang="EN-US" style="mso-fareast-font-family: | l5 level1 lfo12"><!--[if !supportLists]--><span lang="EN-US" style="mso-fareast-font-family: | ||
"Times New Roman";mso-bidi-font-weight:bold"><span style="mso-list:Ignore">-<span style="font:7.0pt "Times New Roman""> | "Times New Roman";mso-bidi-font-weight:bold"><span style="mso-list:Ignore">-<span style="font:7.0pt "Times New Roman""> | ||
- | </span></span></span> | + | </span></span></span><!--[endif]--><span lang="EN-US" style="mso-bidi-font-weight: |
- | + | ||
- | + | ||
bold">Incubation of plate at 37 °C with vortexing in plate reader, | bold">Incubation of plate at 37 °C with vortexing in plate reader, | ||
fluorescence of GFP and RFP, as well as OD<sub>600nm</sub> measured every 15 | fluorescence of GFP and RFP, as well as OD<sub>600nm</sub> measured every 15 | ||
Line 1,531: | Line 1,733: | ||
</span></span></span><!--[endif]--><span lang="EN-US" style="mso-bidi-font-weight: | </span></span></span><!--[endif]--><span lang="EN-US" style="mso-bidi-font-weight: | ||
bold">Measurement ON under same conditions<b><o:p></o:p></b></span></p> | bold">Measurement ON under same conditions<b><o:p></o:p></b></span></p> | ||
+ | |||
+ | |||
+ | |||
+ | </div> | ||
+ | <p class="timeline-title goe-dac">Preperation of Strep-Tag for Biobrick assembly</p> | ||
+ | <div class="timeline-cont"> | ||
+ | <p class="MsoNormal"><b><span lang="EN-US" style="font-size:11.0pt;font-family: | ||
+ | "Arial","sans-serif"">Preperation of Strep-Tag for Biobrick assembly</span></b></p> | ||
+ | <p class="MsoNormal"><b><span lang="EN-US" style="font-size:11.0pt;font-family: | ||
+ | "Arial","sans-serif""> </span></b></p> | ||
+ | <table class="MsoTableGrid" border="1" cellspacing="0" cellpadding="0" style="border-collapse:collapse;border:none"> | ||
+ | <tbody><tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoNormal" align="center" style="text-align:center"><span lang="EN-US" style="font-size:11.0pt;font-family:"Arial","sans-serif"">Components:</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border:solid black 1.0pt; | ||
+ | border-left:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoNormal" align="center" style="text-align:center"><span lang="EN-US" style="font-size:11.0pt;font-family:"Arial","sans-serif"">Volume (µl)</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">Primer | ||
+ | iGEM_11 (5µM)</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">5µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">Primer | ||
+ | iGEM_12 (5µM)</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">5µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">dNTPs</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">1µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">buffer | ||
+ | (5x)</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">10µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.1pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">H<sub>2</sub>O</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.9pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">28µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | </tbody></table> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif""> </span></p> | ||
+ | <p class="MsoListParagraphCxSpMiddle" style="margin-left:54.0pt;text-indent: | ||
+ | -18.0pt;line-height:normal"><span lang="EN-US" style="font-family:Wingdings">è<span style="font:7.0pt "Times New Roman""> </span></span><span lang="EN-US" style="font-family:"Arial","sans-serif"">incubation at 90°C for 5min, cool | ||
+ | down at room temperature and add 1µl of PfuS polymerase</span></p> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-left:54.0pt;text-indent:-18.0pt; | ||
+ | line-height:normal"><span lang="EN-US" style="font-family:Wingdings">è<span style="font:7.0pt "Times New Roman""> </span></span><span lang="EN-US" style="font-family:"Arial","sans-serif"">incubation at 72°C for 15min</span></p> | ||
+ | <p class="MsoNormal"><span lang="EN-US" style="font-size:14.0pt;font-family:"Arial","sans-serif""> </span></p> | ||
+ | <p class="MsoNormal"><b><span lang="EN-US" style="font-size:11.0pt;font-family: | ||
+ | "Arial","sans-serif"">Amplification of S. aureus and S. pneumonia DAC domains | ||
+ | for Biobrick assembly</span></b></p> | ||
+ | <p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Arial","sans-serif""> </span></p> | ||
+ | <table class="MsoTableGrid" border="1" cellspacing="0" cellpadding="0" style="border-collapse:collapse;border:none"> | ||
+ | <tbody><tr> | ||
+ | <td width="292" valign="top" style="width:219.25pt;border:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoNormal" align="center" style="text-align:center"><span lang="EN-US" style="font-size:11.0pt;font-family:"Arial","sans-serif"">Components:</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.75pt;border:solid black 1.0pt; | ||
+ | border-left:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoNormal" align="center" style="text-align:center"><span lang="EN-US" style="font-size:11.0pt;font-family:"Arial","sans-serif"">Volume</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.25pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">Primer | ||
+ | iGEM_13 (5µM)</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.75pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">2µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.25pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">Primer | ||
+ | iGEM_14 (5µM)</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.75pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">2µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.25pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">Primer | ||
+ | iGEM_15 (5µM)</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.75pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">2µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.25pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">Primer | ||
+ | iGEM_16 (5µM)</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.75pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">2µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.25pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">genomic | ||
+ | DNA</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.75pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">2µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.25pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">dNTPs</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.75pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">2µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.25pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">buffer | ||
+ | (5x)</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.75pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">10µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.25pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">H<sub>2</sub>O</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.75pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">33µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td width="292" valign="top" style="width:219.25pt;border:solid black 1.0pt; | ||
+ | border-top:none;padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpFirst" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">PfuS | ||
+ | polymerase</span></p> | ||
+ | </td> | ||
+ | <td width="236" valign="top" style="width:176.75pt;border-top:none;border-left: | ||
+ | none;border-bottom:solid black 1.0pt;border-right:solid black 1.0pt; | ||
+ | padding:0cm 5.4pt 0cm 5.4pt"> | ||
+ | <p class="MsoListParagraphCxSpLast" style="margin-bottom:0cm;margin-bottom: | ||
+ | .0001pt;line-height:normal"><span lang="EN-US" style="font-family:"Arial","sans-serif"">1µl</span></p> | ||
+ | </td> | ||
+ | </tr> | ||
+ | </tbody></table> | ||
+ | <p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Arial","sans-serif""> </span></p> | ||
Line 1,542: | Line 1,983: | ||
<span class="date">16th<img src="https://static.igem.org/mediawiki/2013/b/b7/Goe-timeline-dot.png" /></span> | <span class="date">16th<img src="https://static.igem.org/mediawiki/2013/b/b7/Goe-timeline-dot.png" /></span> | ||
<div class="cont"> | <div class="cont"> | ||
- | <p class="timeline-title">Innoculation of Part 3 C2</p> | + | <p class="timeline-title goe-rt">Innoculation of Part 3 C2</p> |
+ | <div class="timeline-cont"> | ||
+ | </div> | ||
</div> | </div> | ||
</div> | </div> | ||
- | |||
- |
Revision as of 19:52, 30 September 2013
21st<img src="" />
Transformation from yesterday worked!
Transformation from yesterday worked! 6 clones! And the Without-Insert-Control lacks clones!
è Plates stored at 4 °C<o:p></o:p>
20th<img src="">
Digestion of PCR product (DarR Operator) (10 cycles) and Plasmid backbone (pSB1A3)
Concentration of stored PCR products from <st1:chsdate isrocdate="False" islunardate="False" day="30" month="12" year="1899" w:st="on">19.6.13</st1:chsdate><o:p></o:p>
No. of PCR cycles<o:p></o:p> |
c(DNA) [ng/µl] |
A260/A280 |
A260/A230 |
PCR product<o:p></o:p> 10 cycles<o:p></o:p> |
1068.7 |
1.63 |
1.07 |
PCR product<o:p></o:p> 20 cycles<o:p></o:p> |
975.7 |
1.66 |
1.10 |
PCR product<o:p></o:p> 30 cycles<o:p></o:p> |
964.9 |
1.65 |
1.11 |
<o:p> </o:p>
Digestion of PCR product (AND WHATS IN THE PCR?) (10 cycles) and Plasmid backbone (pSB1A3 (with AmpR))<o:p></o:p>
According to: <a href="http://parts.igem.org/Help:Protocols/Linearized_Plasmid_Backbones">http://parts.igem.org/Help:Protocols/Linearized_Plasmid_Backbones</a>
<o:p> </o:p>
Ezyme master mix:
5 µl Buffer 0<o:p></o:p>
0.5 µl EcoRI<o:p></o:p>
0.5 µl PstI<o:p></o:p>
18 µl dH2O<o:p></o:p>
<o:p> </o:p>
Digestion of backbone resp. insert:<o:p></o:p>
4 µl linearized plasmid backbone (25 ng/µl for 100 ng total)<o:p></o:p>
4 µl Enzyme master mix<o:p></o:p>
resp.:<o:p></o:p>
5 µl insert<o:p></o:p>
4 µl Enzyme master mix<o:p></o:p>
resp.:<o:p></o:p>
10 µl insert<o:p></o:p>
4 µl Enzyme master mix<o:p></o:p>
<o:p> </o:p>
digest 37°C/30 min heat kill 80°C/20 min<o:p></o:p>
<o:p> </o:p>
Ligation of backbone and insert:<o:p></o:p>
According to: <a href="http://parts.igem.org/Help:Protocols/Linearized_Plasmid_Backbones">http://parts.igem.org/Help:Protocols/Linearized_Plasmid_Backbones</a>
<o:p> </o:p>
2 µl digested plasmid backbone<o:p></o:p>
10 µl EcoRI and PstI digested fragment <o:p></o:p>
1.5 µl T4 DNA Ligase buffer<o:p></o:p>
0.5 µl T4 DNA Ligase<o:p></o:p>
1 µl H2O<o:p></o:p>
ligate 30°C/30 min heat kill 80°C/min<o:p></o:p>
<o:p> </o:p>
Transformation of ligated parts <o:p></o:p>
According to method book<o:p></o:p>
Digestion of amplified DAC-domains (S.aureus and S. pneumonia) from 17.06.
Digestion of amplified DAC-domains (S.aureus and S. pneumonia) from 17.06.
Components: |
Volume |
plasmid DNA |
16µl |
PstI |
6µl |
EcoRI |
6µl |
orange buffer (10x) |
8µl |
H2O |
44µl |
è incubation for 30min at 37°C
è heat inactivation for 20min at 65°C
è store at -20°C
Digestion of prepared Strep-Tag from 17.06.
Components: |
Volume |
Strep-Tag |
16µl |
PstI |
6µl |
EcoRI |
6µl |
orange buffer (10x) |
8µl |
H2O |
44µl |
è incubation for 30min at 37°C
è heat inactivation for 20min at 65°C
è store at -20°C
è Preparation of Strap-Tag worked
è Preparation of DAC domain of S.aureus worked
è Preparation of DAC domain of S- pneumonia failed = EcoRI restriction site in fragment
19th<img src="">
PCR using primer iGEM 36,37 for construction of DarR operator biobrick,DarR sequencing
PCR using primer iGEM 36,37 for construction of DarR operator biobrick.<o:p></o:p>
Same recipe as yesterdays PCR, rest the protocol,
98.5 |
5min |
<o:p> </o:p> |
<o:p> </o:p> |
<o:p> </o:p> |
98.5 |
30s |
10 cycle |
20cycle |
30cycle |
61.0 |
30s |
|||
72.0 |
2min |
|||
72.0 |
10min |
<o:p> </o:p> |
<o:p> </o:p> |
<o:p> </o:p> |
Ctrl: no enzyme<o:p></o:p>
Increase the gel concentration to 4%.
PCR worked, Gel here:
<img height="300px" src="" v:shapes="_x0000_i1029">
Lane 1-8: ladder, iGEM36, iGEM37, ctrl(no Polyermase), 1 cycle, 10cycle, 20cycle, 30cycle.
Gel concentration : 4%
1cycle PCR product from yesterday.
So, use 4% gel, 10cycle PCR is enough<o:p></o:p>
DarR sequencing results<o:p></o:p>
in “our” genomic DNA of M. smegmatis, there are two additional codons inserted right after the GTG start codon:
“our” gDNA: GTG AGC GCG AGC GCC à Ser-Ala-Ser-Ala
Paper gDNA: GTG _ _ _ _ _ _ AGC GCC à Ser-Ala
Additionally, there are 5 point mutations:
120 C à G
132 A à G
210 T à C
228 C à T
263 T à C
All are silent, except for one: aa 87 Val à Ala (both small, hydrophobic aa)
Primer Design<o:p></o:p>
Design of new DarR biobrick fwd primer (since 2 additional codons inserted and old primer designed for DarR gene without these codons)<o:p></o:p>
18th<img src="" />
Test restriction of Part 2 C2,Primer design,Construction of DarR operator biobrick(PCR)
Plate reader assay<o:p></o:p>
- Plate thrown away after ON measurement<o:p></o:p>
- Results:<o:p></o:p>
<o:p> </o:p>
Concentration of plasmid purified from Clone 2 of Part 2<o:p></o:p>
Part no.<o:p></o:p> |
c(DNA)<o:p></o:p> [ng/µl]<o:p></o:p> |
A260/A280<o:p></o:p> |
A260/A230<o:p></o:p> |
2 C2<o:p></o:p> |
120.6<o:p></o:p> |
1.87<o:p></o:p> |
2.24<o:p></o:p> |
<o:p> </o:p>
Test restriction of Part 2 Clone 2<o:p></o:p>
Component<o:p></o:p> |
Uncut control<o:p></o:p> |
SpeI single digestion<o:p></o:p> |
PstI single digestion<o:p></o:p> |
SpeI/PstI double digestion<o:p></o:p> |
Plasmid DNA (150 ng)<o:p></o:p> |
1.2 µl<o:p></o:p> |
1.2 µl<o:p></o:p> |
1.2 µl<o:p></o:p> |
1.2 µl<o:p></o:p> |
10x buffer<o:p></o:p> |
1 µl (Tango)<o:p></o:p> |
1 µl (Tango)<o:p></o:p> |
1 µl (buffer 0)<o:p></o:p> |
1 µl (Tango)<o:p></o:p> |
SpeI<o:p></o:p> |
-<o:p></o:p> |
1 µl<o:p></o:p> |
-<o:p></o:p> |
1 µl<o:p></o:p> |
PstI<o:p></o:p> |
-<o:p></o:p> |
-<o:p></o:p> |
1 µl<o:p></o:p> |
2 µl<o:p></o:p> |
dH2O<o:p></o:p> |
7.8 µl<o:p></o:p> |
6.8 µl<o:p></o:p> |
6.8 µl<o:p></o:p> |
4.8 µl<o:p></o:p> |
Total<o:p></o:p> |
10 µl<o:p></o:p> |
10 µl<o:p></o:p> |
10 µl<o:p></o:p> |
10 µl<o:p></o:p> |
- Incubation for c<st1:chsdate year="1899" month="12" day="30" islunardate="False" isrocdate="False" w:st="on">a. 1.5</st1:chsdate> h at 37 °C (incubator)<o:p></o:p>
- Addition of 2 µl of 5x DNA loading dye and run on 1 % 1xTAE-agarose gel (marker: 100 bp ladder)<o:p></o:p>
- EtBr staining and destaining in H2O, UV detection<o:p></o:p>
è Gel: See ppt-file “dropbox > iGEM > Reporter-Team > Geldoc“<o:p></o:p>
<img src="" width="350px" v:shapes="_x0000_i1027"><o:p></o:p>
Conclusions:<o:p></o:p>
è Clone 2 contains the expected plasmid harboring part 2 (impure stock?)<o:p></o:p>
<o:p> </o:p>
Primer design and ordering<o:p></o:p>
Design of primer iGEM_43<o:p></o:p>
Ordering of primers iGEM_38 to iGEM_43 from Sigma-Aldrich<o:p></o:p>
<o:p> </o:p>
PCR:<o:p></o:p>
PCR using primer iGEM32,33 for construction of DarR biobrick.
Because of those two primers have high tendency to form 2nd structure, 1x 2x 4x primers are applied, to see the recipe, see dropbox > Reporter Team > PCR_iGEM32_33.xls
PCR was successful, better use 2x primer. Protocol as follows:<o:p></o:p>
98.5 |
5min |
<o:p> </o:p> |
98.5 |
30s |
30 cycles |
67.0 |
35s |
|
72.0 |
2min |
|
72.0 |
10min |
<o:p> </o:p> |
<o:p> </o:p>
è Gel: See ppt-file “dropbox > iGEM > Reporter-Team > Geldoc“<o:p></o:p>
<img src="" width="350px" v:shapes="Objekt_x0020_3"><o:p></o:p>
PCR using primer iGEM 36,37 for construction of DarR operator biobrick. To see the recipe, see dropbox > Reporter Team > PCR_iGEM32_33.xls
Protocol as follows:
98.5 |
5min |
Only one cycle |
98.5 |
30s |
|
61.0 |
30s |
|
72.0 |
12min |
<o:p> </o:p>
è Gel: See ppt-file “dropbox > iGEM > Reporter-Team > Geldoc“<o:p></o:p>
<o:p> </o:p>
2% gel cannot separate the primers and PCR product:
iGEM36:36nt
iGEM37:35nt
PCR product should be 57bp
Gel1: forget the primer as ctrl
Gel2: load the wrong primer
<img src="" width="500px" v:shapes="Objekt_x0020_5">
<o:p> </o:p>
</td>
17th<img src="" />
Plate reader assay for the pink strains, Plasmid mini prep for Part C2
Cryo-Stocks of E. coli transfomant (2, C2)<o:p></o:p>
Stored in -70 °C (red box)<o:p></o:p>
<o:p> </o:p>
Plasmid Mini-Preparation of part 2 C2<o:p></o:p>
- harvesting of ca. 5 ml pellets in 2 ml Epis for future Plasmid Mini-Preparation à stored at – 20 °C in red box<o:p></o:p>
- harvesting of remaining culture for today’s prep<o:p></o:p>
è Performed as on <st1:chsdate isrocdate="False" islunardate="False" day="30" month="12" year="1899" w:st="on">7.6.13</st1:chsdate><o:p></o:p>
<o:p> </o:p>
Plate reader assay<o:p></o:p>
- Measurment of OD of ON cultures in 1:10 dilution in LB; LB as blank (see table)<o:p></o:p>
- Preparation of E.coli cultures of an OD600nm = 0.05 in LB (without antibiotics) in 96-well microtiterplate; <o:p></o:p>
final volume: 180 µl (see table) à triplicates for each clone<o:p></o:p>
Calculation:<o:p></o:p>
V(well culture) * OD600nm (wanted)/ OD600nm (ON-culture) = V(ON culture needed for preparation of well cultures)<o:p></o:p>
180 µl * 0.05/OD600nm (ON-culture) = V(ON culture needed for preparation of well cultures) [µ]<o:p></o:p>
<o:p> </o:p>
Values and amounts for well cultures:<o:p></o:p>
Clone<o:p></o:p> |
OD600nm <o:p></o:p> (ON culture)<o:p></o:p> 1:10<o:p></o:p> |
OD600nm<o:p></o:p> (ON culture)<o:p></o:p> 1:1<o:p></o:p> |
V(ON culture for preparation of well culture)[µ]<o:p></o:p> |
|
DHα<o:p></o:p> |
0.433<o:p></o:p> |
4.33<o:p></o:p> |
2.1<o:p></o:p> |
|
Part 1<o:p></o:p> |
C1<o:p></o:p> |
0.426<o:p></o:p> |
4.26<o:p></o:p> |
2.1<o:p></o:p> |
C2<o:p></o:p> |
0.450<o:p></o:p> |
4.50<o:p></o:p> |
2<o:p></o:p> |
|
Part 2<o:p></o:p> |
C1<o:p></o:p> |
0.416<o:p></o:p> |
4.16<o:p></o:p> |
2.2<o:p></o:p> |
C2<o:p></o:p> |
0.436<o:p></o:p> |
4.36<o:p></o:p> |
2.1<o:p></o:p> |
|
C3<o:p></o:p> |
0.434<o:p></o:p> |
4.34<o:p></o:p> |
2.1<o:p></o:p> |
|
Part 3<o:p></o:p> |
C1<o:p></o:p> |
0.467<o:p></o:p> |
4.67<o:p></o:p> |
1.9<o:p></o:p> |
C2<o:p></o:p> |
0.475<o:p></o:p> |
4.75<o:p></o:p> |
1.9<o:p></o:p> |
|
C3<o:p></o:p> |
0.473<o:p></o:p> |
4.73<o:p></o:p> |
1.9<o:p></o:p> |
|
Part 4<o:p></o:p> |
C1<o:p></o:p> |
0.457<o:p></o:p> |
4.57<o:p></o:p> |
2<o:p></o:p> |
C 2<o:p></o:p> |
0.466<o:p></o:p> |
4.66<o:p></o:p> |
1.9<o:p></o:p> |
|
C3<o:p></o:p> |
0.437<o:p></o:p> |
4.37<o:p></o:p> |
2.1<o:p></o:p> |
|
Part 6<o:p></o:p> |
C1<o:p></o:p> |
0.450<o:p></o:p> |
4.50<o:p></o:p> |
2<o:p></o:p> |
C2<o:p></o:p> |
0.431<o:p></o:p> |
4.31<o:p></o:p> |
2.1<o:p></o:p> |
|
C3<o:p></o:p> |
0.448<o:p></o:p> |
4.48<o:p></o:p> |
2<o:p></o:p> |
è Pipetting of ON-culture volume into each well, then addition of 180 µl LB without antibiotics using multi-channel pipett (be careful: tips must be fixed properly!)<o:p></o:p>
è For scheme: see folder<o:p></o:p>
- Incubation of plate at 37 °C with vortexing in plate reader, fluorescence of GFP and RFP, as well as OD600nm measured every 15 min for approx. 3 h<o:p></o:p>
<o:p> </o:p>
Fluorescence excited and measured at:<o:p></o:p>
<o:p> </o:p> |
Absorption<o:p></o:p> |
Emission<o:p></o:p> |
RFP<o:p></o:p> |
555 nm<o:p></o:p> |
583 nm<o:p></o:p> |
GFP<o:p></o:p> |
489 nm<o:p></o:p> |
509 nm<o:p></o:p> |
- Storage of plate at 4 °C<o:p></o:p>
- Measurement ON under same conditions<o:p></o:p>
Preperation of Strep-Tag for Biobrick assembly
Preperation of Strep-Tag for Biobrick assembly
Components: |
Volume (µl) |
Primer iGEM_11 (5µM) |
5µl |
Primer iGEM_12 (5µM) |
5µl |
dNTPs |
1µl |
buffer (5x) |
10µl |
H2O |
28µl |
è incubation at 90°C for 5min, cool down at room temperature and add 1µl of PfuS polymerase
è incubation at 72°C for 15min
Amplification of S. aureus and S. pneumonia DAC domains for Biobrick assembly
Components: |
Volume |
Primer iGEM_13 (5µM) |
2µl |
Primer iGEM_14 (5µM) |
2µl |
Primer iGEM_15 (5µM) |
2µl |
Primer iGEM_16 (5µM) |
2µl |
genomic DNA |
2µl |
dNTPs |
2µl |
buffer (5x) |
10µl |
H2O |
33µl |
PfuS polymerase |
1µl |
16th<img src="" />
Innoculation of Part 3 C2