Team:EPF Lausanne/Parts

From 2014.igem.org

(Difference between revisions)
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<tr>
<tr>
     <td class="biobrick_name">BBa_K1486023</td>
     <td class="biobrick_name">BBa_K1486023</td>
-
     <td>Yeast sfGFP</td>
+
     <td>yeast sfGFP</td>
-
     <td>Superfolder GFP for yeast cells</td>
+
     <td>Yeast optimised superfolder GFP</td>
     <td>Reporter</td>
     <td>Reporter</td>
     <td>Yeast</td>
     <td>Yeast</td>
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     <td class="biobrick_name">BBa_K1486024</td>
     <td class="biobrick_name">BBa_K1486024</td>
     <td>Kan</td>
     <td>Kan</td>
-
     <td>Yeast kanamycin resistance gene</td>
+
     <td>Yeast kanamycin resistance</td>
     <td>Selection marker</td>
     <td>Selection marker</td>
     <td>Yeast</td>
     <td>Yeast</td>
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     <td class="biobrick_name">BBa_K1486025</td>
     <td class="biobrick_name">BBa_K1486025</td>
     <td>ADH1 terminator</td>
     <td>ADH1 terminator</td>
-
     <td>Terminator</td>
+
     <td></td>
-
     <td> </td>
+
     <td>Terminator </td>
     <td>Yeast</td>
     <td>Yeast</td>
   </tr>
   </tr>
   <tr>
   <tr>
     <td class="biobrick_name">BBa_K1486026</td>
     <td class="biobrick_name">BBa_K1486026</td>
-
     <td>Yeast sfGFP + Kan</td>
+
     <td></td>
-
     <td>Yeast sfGFP attached to the yeast kanamycin resistance gene</td>
+
     <td>sfGFP + Kanamycin resistance for yeast</td>
-
     <td>Control the expression of pbs2</td>
+
     <td>Control for the expression of Pbs2</td>
     <td>Yeast</td>
     <td>Yeast</td>
   </tr>
   </tr>
<tr>
<tr>
     <td class="biobrick_name">BBa_K1486027</td>
     <td class="biobrick_name">BBa_K1486027</td>
-
     <td>rLuc + Kan</td>
+
     <td>rLuc + ADH1 + Kan</td>
-
     <td>Renilla luciferase attached to the kanamycin resistance gene</td>
+
     <td>R.reniformis luciferase + ADH1 terminator + Kanamycin resistance</td>
-
     <td> </td>
+
     <td>Control for the expression of Pbs2 </td>
     <td>Yeast</td>
     <td>Yeast</td>
   </tr>
   </tr>
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   <tr>
   <tr>
     <td class="biobrick_name">BBa_K1486029</td>
     <td class="biobrick_name">BBa_K1486029</td>
-
     <td>sfGFP[1] + kan</td>
+
     <td>sfGFP[1] + ADH1 + kan</td>
-
     <td>Nterm moiety of split yeast sfGFP attached to yeast kanamycin resistance gene</td>
+
     <td>sfGFPN + ADH1 terminator + Kanamycin resistance</td>
     <td> </td>
     <td> </td>
     <td>Yeast</td>
     <td>Yeast</td>
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   <tr>
   <tr>
     <td class="biobrick_name">BBa_K1486030</td>
     <td class="biobrick_name">BBa_K1486030</td>
-
     <td>rLuc[1] + kan</td>
+
     <td>rLuc[1] + ADH1 + kan</td>
-
     <td>Nterm moiety of split renilla luciferase attached to yeast kanamycin resistance gene</td>
+
     <td>rLucN + ADH1 terminator + Kanamycin resistance</td>
     <td> </td>
     <td> </td>
     <td>Yeast</td>
     <td>Yeast</td>
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     <td class="biobrick_name">BBa_K1486031</td>
     <td class="biobrick_name">BBa_K1486031</td>
     <td>Ura</td>
     <td>Ura</td>
-
     <td>CDS for Uracil (yeast selective purposes)</td>
+
     <td>CaUra3 selection marker</td>
     <td>Confer resistance to Uracil-deprived medium</td>
     <td>Confer resistance to Uracil-deprived medium</td>
     <td>Yeast</td>
     <td>Yeast</td>
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<tr>
<tr>
     <td class="biobrick_name">BBa_K1486032</td>
     <td class="biobrick_name">BBa_K1486032</td>
-
     <td>Yeast sfGFP + Ura</td>
+
     <td>sfGFP + ADH1 terminator + Ura3 cassette</td>
-
     <td>Yeast sfGFP attached to the Uracil CDS</td>
+
     <td></td>
-
     <td>Control the expression of hog1</td>
+
     <td>Control for the expression of hog1</td>
     <td>Yeast</td>
     <td>Yeast</td>
   </tr>
   </tr>
   <tr>
   <tr>
     <td class="biobrick_name">BBa_K1486033</td>
     <td class="biobrick_name">BBa_K1486033</td>
-
     <td>rLuc + Ura</td>
+
     <td>rLuc + ADH1 + Ura</td>
-
     <td>Renilla luciferase attached to the Uracil CDS</td>
+
     <td>R.reniformis luciferase + ADH1 terminator + CaUra3</td>
-
     <td>Control the expression of hog1</td>
+
     <td>Control for the expression of hog1</td>
     <td>Yeast</td>
     <td>Yeast</td>
   </tr>
   </tr>
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     <td class="biobrick_name">BBa_K1486034</td>
     <td class="biobrick_name">BBa_K1486034</td>
     <td>yeast sfGFP[2]</td>
     <td>yeast sfGFP[2]</td>
-
     <td>C terminal moiety of split the yeast sfGFP</td>
+
     <td>Yeast optimized superfolder GFP C-terminus (215-238)</td>
     <td> </td>
     <td> </td>
     <td>Yeast</td>
     <td>Yeast</td>
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   <tr>
   <tr>
     <td class="biobrick_name">BBa_K1486035</td>
     <td class="biobrick_name">BBa_K1486035</td>
-
     <td>yeast sfGFP[2] + Ura</td>
+
     <td>yeast sfGFP[2]+ ADH1 + Ura</td>
-
     <td>Cterm moiety of split yeast sfGFP attached to the Uracil CDS</td>
+
     <td>sfGFPC + ADH1 terminator + CaUra3 Cassette</td>
     <td> </td>
     <td> </td>
     <td>Yeast</td>
     <td>Yeast</td>
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     <td class="biobrick_name">BBa_K1486036</td>
     <td class="biobrick_name">BBa_K1486036</td>
     <td>rLuc[2] + Ura</td>
     <td>rLuc[2] + Ura</td>
-
     <td>Cterm moiety of split renilla luciferase attached to the Uracil CDS</td>
+
     <td>rLucC + ADH1 terminator + CaUra3 cassette</td>
     <td> </td>
     <td> </td>
     <td>Yeast</td>
     <td>Yeast</td>
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   <tr>
   <tr>
     <td class="biobrick_name">BBa_K1486037</td>
     <td class="biobrick_name">BBa_K1486037</td>
-
     <td>linker</td>
+
     <td>13 amino acids linker [GGGS GGGGS GGGS]</td>
-
     <td>Attaches two proteins together</td>
+
     <td></td>
-
     <td> </td>
+
     <td> linker </td>
     <td>Yeast</td>
     <td>Yeast</td>
   </tr>
   </tr>

Revision as of 08:49, 16 October 2014

PARTS

DNA parts submitted by the 2014 EPFL iGEM team

Our team submitted a total of 55 Biobricks (biobrick 51 does not exist).

In addition, 4 microfluidic designs have also been submitted to the registry.

Biobrick What it is Function Why do we use it? Group
BBa_K1486000 CpxR coding sequence Transcription factor To make most of our biobricks! Bacteria
BBa_K1486001 CpxR under arabinose promoter Treanscription factor Bacteria
BBa_K1486002 PAra + sfGFP CpxR [Nterm] Expresses fused protein Test CpxR expression & Ara promoter Bacteria
BBa_K1486003 Flexible linker Attaches two proteins together Bacteria
BBa_K1486004 Flexible linker Attaches two proteins together Bacteria
BBa_K1486005 PAra + CpxR sfGFP [Cterm] Expresses fused protein Test CpxR expression & Ara promoter Bacteria
BBa_K1486006 IFP[1] N terminus of split IFP Bacteria
BBa_K1486007 IFP[2] C terminus of split IFP Bacteria
BBa_K1486008 CxpR & Split IFP1.4 [Cterm + Cterm] Two CpxR CDS, each C terminus attached to a moiety of IFP Characterize CpxR dimerization Bacteria
BBa_K1486009 CxpR & Split IFP1.4 [Nterm + Nterm] Two CpxR CDS, each N terminus attached to a moiety of IFP Characterize CpxR dimerization Bacteria
BBa_K1486010 CxpR & Split IFP1.4 [Nterm + Cterm] Two CpxR CDS, each attached to a moiety of IFP Characterize CpxR dimerization Bacteria
BBa_K1486011 CxpR & Split IFP1.4 [Cterm + Nterm] Two CpxR CDS, each attached to a moiety of IFP Characterize CpxR dimerization Bacteria
BBa_K1486012 CpxR + IFP[1] CpxR with the Nterm moiety of IFP attached at its C terminus Intermediate & control Bacteria
BBa_K1486013 CpxR + IFP[2] CpxR with the Cterm moiety of IFP attached at its C terminus Intermediate & control Bacteria
BBa_K1486014 IFP[1] + CpxR CpxR with the Nterm moiety of IFP attached at its N terminus Intermediate & control Bacteria
BBa_K1486015 IFP[2] + CpxR CpxR with the Cterm moiety of IFP attached at its N terminus Intermediate & control Bacteria
BBa_K1486016 fLuc[1] N terminus moiety of the firefly luciferase Bacteria
BBa_K1486017 fLuc[2] C terminus moiety of the firefly luciferase Bacteria
BBa_K1486018 PAra + fLuc[1] + fLuc[2] Split firefly luciferase under arabinose promoter Control Bacteria
BBa_K1486019 rLuc[1] C terminus moiety of the renilla luciferase Bacteria
BBa_K1486020 rLuc[2] N terminus moiety of the renilla luciferase Bacteria
BBa_K1486021 PAra + rLuc[1] + rLuc[2] Split renilla luciferase under arabinose promoter Control Bacteria
BBa_K1486022 rLuc Full renilla luciferase Control Bacteria
BBa_K1486023 yeast sfGFP Yeast optimised superfolder GFP Reporter Yeast
BBa_K1486024 Kan Yeast kanamycin resistance Selection marker Yeast
BBa_K1486025 ADH1 terminator Terminator Yeast
BBa_K1486026 sfGFP + Kanamycin resistance for yeast Control for the expression of Pbs2 Yeast
BBa_K1486027 rLuc + ADH1 + Kan R.reniformis luciferase + ADH1 terminator + Kanamycin resistance Control for the expression of Pbs2 Yeast
BBa_K1486028 Yeast sfGFP[1] N terminal moiety of split yeast sfGFP Yeast
BBa_K1486029 sfGFP[1] + ADH1 + kan sfGFPN + ADH1 terminator + Kanamycin resistance Yeast
BBa_K1486030 rLuc[1] + ADH1 + kan rLucN + ADH1 terminator + Kanamycin resistance Yeast
BBa_K1486031 Ura CaUra3 selection marker Confer resistance to Uracil-deprived medium Yeast
BBa_K1486032 sfGFP + ADH1 terminator + Ura3 cassette Control for the expression of hog1 Yeast
BBa_K1486033 rLuc + ADH1 + Ura R.reniformis luciferase + ADH1 terminator + CaUra3 Control for the expression of hog1 Yeast
BBa_K1486034 yeast sfGFP[2] Yeast optimized superfolder GFP C-terminus (215-238) Yeast
BBa_K1486035 yeast sfGFP[2]+ ADH1 + Ura sfGFPC + ADH1 terminator + CaUra3 Cassette Yeast
BBa_K1486036 rLuc[2] + Ura rLucC + ADH1 terminator + CaUra3 cassette Yeast
BBa_K1486037 13 amino acids linker [GGGS GGGGS GGGS] linker Yeast
BBa_K1486038 sfGFP[1] N terminus moiety of split superfolder GFP Bacteria
BBa_K1486039 sfGFP[2] C terminus moiety of split superfolder GFP Bacteria
BBa_K1486040 sfGFP[1] + CpxR N terminus moiety of split sfGFP attached to CpxR Bacteria
BBa_K1486041 sfGFP[2] + CpxR C terminus moiety of split sfGFP attached to CpxR Bacteria
BBa_K1486042 LZip Monomer of leucine zipper TF Bacteria
BBa_K1486043 LZip + split rLuc Two Leucine Zipper monomers, each attached to a different split rLuc moiety Control for split rLuc assays Bacteria
BBa_K1486044 mut IFP[1] Biobrick-compatible IFP[1] Bacteria
BBa_K1486045 mut IFP[2] Biobrick-compatible IFP[2] Bacteria
BBa_K1486046 CpxR promoter FW CpxR binding-region in forward direction Bacteria
BBa_K1486047 CpxR promoter RV CpxR binding-region in reverse direction Bacteria
BBa_K1486048 CpxR reporter Calgary's CpxR reporter repaired (sequence was missing) To see when CpxR is active Bacteria
BBa_K1486049 CpxR promoter FW + RFP Reporter of CpxR Test the direction of the complete CpxR promoter Bacteria
BBa_K1486050 CpxR promoter RV + RFP Reporter of CpxR Test the direction of the complete CpxR promoter Bacteria
BBa_K1486052 Spacer 40 bases placed between constructs Separate two constructs in the same plasmid Bacteria
BBa_K1486053 Linker 10 amino-acid linker Attach CheY/Z to split luciferases Bacteria
BBa_K1486054 CheY/CheZ rLuc CheY and CheZ, each attached to a moiety of split renilla luciferase Positive control for the split rLuc Bacteria
BBa_K1486055 CheY/CheZ fLuc CheY and CheZ, each attached to a moiety of split firefly luciferase Positive control for the split fLuc Bacteria
BBa_K1486056 CxpR & Split mut IFP1.4 [Cterm + Cterm] Two CpxR CDS, each C terminus attached to a moiety of the biobrick-compatible IFP Characterize CpxR dimerization Bacteria


Microfluidics parts (chips created)

Our team designed and made 4 microfluidic chips. At the beginning, we also used the MITOMI chip.

When designing the chips, the team took into account the future users and the current iGEM classification of parts. We considered it best to construct our chips as composite microfluidic parts, so their sub-parts could be used and combined in multiple ways. The flow and control layers can be separated and reused, as well as all the basic structures (chamber + connecting channel), nodes, array parts,...

Name Main Function
MITOMI modified By using the MITOMI chip as a template, we designed our first chip that could squish the cells in the chamber.
SmashColi To be able to separate the chip in 4 different compartments and apply 4 different pressures on each row of chambers.
BioPad A large and simple microfluidic chip containing 6400 chambers in which the cells are contained in. Each chamber acts as a pixel for the BioPad project.
CleanColi As a result of our Safety page, we decided to create a chip that is able to seal the bacteria in the chip, preventing them to leave the chip.
FilterColi To successfully immerse cells in a certain solution, this chip was designed to flow in the new medium in the chambers instead of doing it by diffusion.


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