"
Team:Bielefeld-CeBiTec/Notebook/StrainsAndConstructs
From 2014.igem.org
(Difference between revisions)
(addgene plasmid) |
|||
| (11 intermediate revisions not shown) | |||
| Line 82: | Line 82: | ||
<tr> | <tr> | ||
| - | <td width="30%" id=""><a href="http://cgsc.biology.yale.edu/Strain.php?ID=109221">JW4084-1</a></td> | + | <td width="30%" id="deltadcuBKEIO"><a href="http://cgsc.biology.yale.edu/Strain.php?ID=109221">JW4084-1</a></td> |
<td width="40%">ΔdcuB749::kan</td> | <td width="40%">ΔdcuB749::kan</td> | ||
<td width="30%"><a href="#baba2006"> Baba et al., 2006 </a></td> | <td width="30%"><a href="#baba2006"> Baba et al., 2006 </a></td> | ||
| Line 89: | Line 89: | ||
<tr> | <tr> | ||
| - | <td width="30%" id=""><a href="http://cgsc.biology.yale.edu/Strain.php?ID=106931">JW0506-1</a></td> | + | <td width="30%" id="deltafrdKEIO"><a href="http://cgsc.biology.yale.edu/Strain.php?ID=106931">JW0506-1</a></td> |
<td width="40%">ΔfdrA730::kan</td> | <td width="40%">ΔfdrA730::kan</td> | ||
<td width="30%"><a href="#baba2006"> Baba et al., 2006 </a></td> | <td width="30%"><a href="#baba2006"> Baba et al., 2006 </a></td> | ||
| Line 123: | Line 123: | ||
<tr> | <tr> | ||
| - | <td width="30%" id=""> <a href=http://cgsc.biology.yale.edu/Strain.php?ID=107394> JW1228-1 </a> </td> | + | <td width="30%" id="DeltaAdh"> <a href=http://cgsc.biology.yale.edu/Strain.php?ID=107394> JW1228-1 </a> </td> |
<td width="40%">ΔadhE748::kan</td> | <td width="40%">ΔadhE748::kan</td> | ||
<td width="30%"><a href="#baba2006"> Baba et al., 2006 </a> </td> | <td width="30%"><a href="#baba2006"> Baba et al., 2006 </a> </td> | ||
| Line 167: | Line 167: | ||
<td width="30%"></td> | <td width="30%"></td> | ||
</tr> | </tr> | ||
| - | |||
| - | |||
| - | |||
</table> | </table> | ||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| - | |||
| Line 215: | Line 175: | ||
<br><br><br><br> | <br><br><br><br> | ||
| - | <h1> Constructs </h1> | + | <h1>Additional Constructs </h1> |
<div class="element"> | <div class="element"> | ||
| Line 261: | Line 221: | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| - | <td width="30%" id=""><a href="http://www.addgene.org/52065/">pHnCBS1D</a></td> | + | <td width="30%" id="pHnCBS1D"><a href="http://www.addgene.org/52065/">pHnCBS1D</a></td> |
<td width="40%"><i>cbbL-cbbS-csoS2-csoS3-csoS4A-csoS4B-csoS1C-csoS1A-csoS1B-csoS1D</i>, Cm<sup>R<sup> </td> | <td width="40%"><i>cbbL-cbbS-csoS2-csoS3-csoS4A-csoS4B-csoS1C-csoS1A-csoS1B-csoS1D</i>, Cm<sup>R<sup> </td> | ||
<td width="30%"><a href="#bonacci2012"> Bonacci et al., 2012 </a></td> | <td width="30%"><a href="#bonacci2012"> Bonacci et al., 2012 </a></td> | ||
</tr> | </tr> | ||
| + | |||
| + | <tr> | ||
| + | <td width="30%" id=""> <i>pET16b-glpX<sup>C</sup></i> </td> | ||
| + | <td width="40%">Amp<sup>R</sup>, <i>glpX<sup>C</sup></i> encodes FBPase/SBPase of <i>Bacillus methanolicus</i></td> | ||
| + | <td width="30%"><a href="#stolzenberger2013">Stolzenberger al.,2013</a></td> | ||
| + | </tr> | ||
| + | |||
| + | |||
| + | <tr> | ||
| + | <td width="30%" id=""> <i>pSB1A2-T7:prkA</i> </td> | ||
| + | <td width="40%">Amp<sup>R</sup>, CDS of phosphoribulokinase (<i>prkA</i>) from <i>Synechococcus elongatus</i> under the T7 promoter</td> | ||
| + | <td width="30%"></td> | ||
| + | </tr> | ||
| + | |||
| + | <tr> | ||
| + | <td width="30%" id=""> <i>pSB1A2-T7:Hneap</i> </td> | ||
| + | <td width="40%">Amp<sup>R</sup>, CDS of RubisCO (<i>Hneap</i>) from <i>Halothiobacillus neapolitanus</i> under the T7 promoter</td> | ||
| + | <td width="30%"></td> | ||
| + | </tr> | ||
| + | |||
| + | <tr> | ||
| + | <td width="30%" id=""> <i>pSB1A2-T7:Hneap-prkA</i> </td> | ||
| + | <td width="40%">Amp<sup>R</sup>, CDS of RubisCO (<i>Hneap</i>) from <i>Halothiobacillus neapolitanus</i> and CDS of prkA from <i>S.elongatus</i> under the T7 promoter</td> | ||
| + | <td width="30%"></td> | ||
| + | </tr> | ||
| + | |||
| + | |||
<tr bgcolor="#3fb498"> | <tr bgcolor="#3fb498"> | ||
<th colspan="3" align="left" id="cModule3">Module 3</th> | <th colspan="3" align="left" id="cModule3">Module 3</th> | ||
</tr> | </tr> | ||
| + | |||
| + | |||
<tr> | <tr> | ||
| - | <td width="30%" id=""> | + | <td width="30%" id="pSB1A2_T7_IB"> <i>pSB1A2_T7_alsS_ilvC_ilvD_kivD </td> |
| - | <td width="40%"></td> | + | <td width="40%">Isobutanol production pathway under the T7 promoter</td> |
<td width="30%"></td> | <td width="30%"></td> | ||
</tr> | </tr> | ||
| + | <tr> | ||
| + | <td width="30%" id="pSB1A2_T7_IB_adhA"> <i>pSB1A2_T7_alsS_ilvC_ilvD_kivD </td> | ||
| + | <td width="40%">Isobutanol production pathway including the <i>adhA</i> from <i>L. lactis</i> under the T7 promoter</td> | ||
| + | <td width="30%"></td> | ||
| + | </tr> | ||
| + | |||
<tr bgcolor="#3fb498"> | <tr bgcolor="#3fb498"> | ||
| Line 294: | Line 289: | ||
<ul> | <ul> | ||
| + | <li id="stolzenberger2013"> | ||
| + | <div class="element" style="margin_10px 10px 10px 10px; padding:10px 10px 10px 10px"> | ||
| + | <div id="text"> | ||
| + | Stolzenberger, J., Lindner, S.N., Persicke, M., Brautaset, T., and Wendisch, V.F. (2013). Characterization of Fructose 1,6-Bisphosphatase and Sedoheptulose 1,7-Bisphosphatase from the Facultative Ribulose Monophosphate Cycle Methylotroph Bacillus methanolicus. <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3811596/">J Bacteriol</a> 195, 5112–5122. | ||
| + | </div> | ||
| + | </div> | ||
| + | </li> | ||
| + | |||
<li id="baba2006"> | <li id="baba2006"> | ||
<div class="element" style="margin_10px 10px 10px 10px; padding:10px 10px 10px 10px"> | <div class="element" style="margin_10px 10px 10px 10px; padding:10px 10px 10px 10px"> | ||
<div id="text"> | <div id="text"> | ||
| - | + | Baba, T., T. Ara, M. Hasegawa, Y. Takai, Y. Okumura, M. Baba, K.A. Datsenko, M. Tomita, B.L. Wanner, H. Mori 2006. Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. <a href="http://www.ncbi.nlm.nih.gov/pubmed/16738554"> Mol Syst Biol </a> 2:1-11 | |
</div> | </div> | ||
</div> | </div> | ||
</li> | </li> | ||
| + | <li id="guettler1999"> | ||
| + | <div class="element" style="margin_10px 10px 10px 10px; padding:10px 10px 10px 10px"> | ||
| + | <div id="text"> | ||
| + | Guettler, M. V., Rumler, D., Jain, M. K. (1999). Actinobacillus succinogenes sp. nov., a novel succinic-acid-producing bacterium from the bovine rumen. <a href="http://ijs.sgmjournals.org/content/49/1/207">Int.J.Syst.Bacteriol.</a> 49 : 207-216. | ||
| + | </div> | ||
| + | </div> | ||
| + | </li> | ||
| - | </ | + | <li id="viulu2013"> |
| + | <div class="element" style="margin_10px 10px 10px 10px; padding:10px 10px 10px 10px"> | ||
| + | <div id="text"> | ||
| + | Viulu, S., Nakamura, K., Kojima, A., Yoshiyasu, Y., Saitou, S., Takamizawa, K. (2013). Geobacter sulfurreducens subsp. ethanolicus, subsp. nov., an ethanol-utilizing dissimilatory Fe(III)-reducing bacterium from a lotus field. <a href="http://www.ncbi.nlm.nih.gov/pubmed/24201144"> J Gen Appl Microbiol </a> 59 ( 5 ): 325-34. | ||
</div> | </div> | ||
</div> | </div> | ||
| + | </li> | ||
| + | |||
| + | |||
| + | |||
| + | |||
| + | |||
| + | |||
| + | |||
| + | </ul> | ||
| + | </div> | ||
| + | </div> | ||
</html> | </html> | ||
Latest revision as of 21:49, 17 October 2014
Strains
| Name | Properties / Genotype | BioBrick / Reference |
|---|---|---|
| General | ||
| Escherichia coli KRX | [F ́,traD36,ΔompP,proA+B+,lacIq,Δ(lacZ)M15]ΔompT,endA1,recA1,gyrA96(Nalr),thi-1,hsdR17 (rK–, mK+), e14–(McrA–),relA1,supE44,Δ(lac-proAB),Δ(rhaBAD)::T7 RNA polymerase | Promega |
| E. coli DH5α | F-φ80lacZ∆M15∆(lacZYA-argF) U169recA1endA1hsdR17(rk-, mk+)gal-phoAsupE44λ-thi-1gyrA96relA1 | invitrogen |
| Module 1 | ||
| E.coli KRX ΔdcuB::oprF | [F ́,traD36,ΔompP,proA+B+,lacIq,Δ(lacZ)M15]ΔompT,endA1,recA1,gyrA96(Nalr),thi-1,hsdR17 (rK–, mK+), e14–(McrA–),relA1,supE44,Δ(lac-proAB),Δ(rhaBAD)::T7 RNA polymerase, ΔdcuB::oprF | BBa_K1172507 |
| JW4084-1 | ΔdcuB749::kan | Baba et al., 2006 |
| JW0506-1 | ΔfdrA730::kan | Baba et al., 2006 |
| Actinobacillus succinogenes 130Z | wild type | Guettler et al., 1999 |
| Geobacter sulfurreducens PCA | wild type | Viulu et al., 2013 |
| Module 2 | ||
| E.coli BL21 | F– ompT gal dcm lon hsdSB(rB- mB-) λ(DE3 [lacI lacUV5-T7 gene 1 ind1 sam7 nin5]) | NEB |
| Module 3 | ||
| JW1228-1 | ΔadhE748::kan | Baba et al., 2006 |
| Biosafety | ||
| E. coli KRX Δalr | [F ́,traD36,ΔompP,proA+B+,lacIq,Δ(lacZ)M15]ΔompT,endA1,recA1,gyrA96(Nalr),thi-1,hsdR17 (rK–, mK+), e14–(McrA–),relA1,supE44,Δ(lac-proAB),Δ(rhaBAD)::T7 RNA polymerase, Δalr | |
| E. coli KRX ΔdadX | [F ́,traD36,ΔompP,proA+B+,lacIq,Δ(lacZ)M15]ΔompT,endA1,recA1,gyrA96(Nalr),thi-1,hsdR17 (rK–, mK+), e14–(McrA–),relA1,supE44,Δ(lac-proAB),Δ(rhaBAD)::T7 RNA polymerase, ΔdadX | |
| E. coli KRX Δalr ΔdadX | [F ́,traD36,ΔompP,proA+B+,lacIq,Δ(lacZ)M15]ΔompT,endA1,recA1,gyrA96(Nalr),thi-1,hsdR17 (rK–, mK+), e14–(McrA–),relA1,supE44,Δ(lac-proAB),Δ(rhaBAD)::T7 RNA polymerase, ΔdadX, Δalr | |
| E. coli DH5α Δalr | F-φ80lacZ∆M15∆(lacZYA-argF) U169recA1endA1hsdR17(rk-, mk+)gal-phoAsupE44λ-thi-1gyrA96relA1 Δalr | |
| E. coli DH5α ΔdadX | F-φ80lacZ∆M15∆(lacZYA-argF) U169recA1endA1hsdR17(rk-, mk+)gal-phoAsupE44λ-thi-1gyrA96relA1 ΔdadX | |
| E. coli DH5α Δalr ΔdadX | F-φ80lacZ∆M15∆(lacZYA-argF) U169recA1endA1hsdR17(rk-, mk+)gal-phoAsupE44λ-thi-1gyrA96relA1 Δalr ΔdadX | |
Additional Constructs
| Name | Properties | BioBrick / Reference |
|---|---|---|
| General | ||
| _ | ||
| Module 1 | ||
| _ | ||
| Module 2 | ||
| pHnCBS1D | cbbL-cbbS-csoS2-csoS3-csoS4A-csoS4B-csoS1C-csoS1A-csoS1B-csoS1D, CmR | Bonacci et al., 2012 |
| pET16b-glpXC | AmpR, glpXC encodes FBPase/SBPase of Bacillus methanolicus | Stolzenberger al.,2013 |
| pSB1A2-T7:prkA | AmpR, CDS of phosphoribulokinase (prkA) from Synechococcus elongatus under the T7 promoter | |
| pSB1A2-T7:Hneap | AmpR, CDS of RubisCO (Hneap) from Halothiobacillus neapolitanus under the T7 promoter | |
| pSB1A2-T7:Hneap-prkA | AmpR, CDS of RubisCO (Hneap) from Halothiobacillus neapolitanus and CDS of prkA from S.elongatus under the T7 promoter | |
| Module 3 | ||
| pSB1A2_T7_alsS_ilvC_ilvD_kivD | Isobutanol production pathway under the T7 promoter | |
| pSB1A2_T7_alsS_ilvC_ilvD_kivD | Isobutanol production pathway including the adhA from L. lactis under the T7 promoter | |
| Biosafety | ||
| --- | ||
References
-
Stolzenberger, J., Lindner, S.N., Persicke, M., Brautaset, T., and Wendisch, V.F. (2013). Characterization of Fructose 1,6-Bisphosphatase and Sedoheptulose 1,7-Bisphosphatase from the Facultative Ribulose Monophosphate Cycle Methylotroph Bacillus methanolicus. J Bacteriol 195, 5112–5122.
-
Baba, T., T. Ara, M. Hasegawa, Y. Takai, Y. Okumura, M. Baba, K.A. Datsenko, M. Tomita, B.L. Wanner, H. Mori 2006. Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol Syst Biol 2:1-11
-
Guettler, M. V., Rumler, D., Jain, M. K. (1999). Actinobacillus succinogenes sp. nov., a novel succinic-acid-producing bacterium from the bovine rumen. Int.J.Syst.Bacteriol. 49 : 207-216.
-
Viulu, S., Nakamura, K., Kojima, A., Yoshiyasu, Y., Saitou, S., Takamizawa, K. (2013). Geobacter sulfurreducens subsp. ethanolicus, subsp. nov., an ethanol-utilizing dissimilatory Fe(III)-reducing bacterium from a lotus field. J Gen Appl Microbiol 59 ( 5 ): 325-34.
