Team:Groningen/DesignTest2

From 2012.igem.org

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<font color=#FF6700><b>Characterization of  <i>Bacillus subtilis</i> plasmid  backbone created by  iGEM LMU Munich 2012</b></font> <br>
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<z3>Upcoming Presentations</z3>
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Munich team has developed a plasmid backbone that is suitable for gene expression in <i>B. subtilis</i> <b>(Bba_K823023)</b>.
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This plasmid backbone contains an integration locus in amyE, which means after being transformed into <i>B. subtilis</i>,
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the cloned insert will be integrated with <i>B. subtilis</i> genome at the amyE locus. <i>B. subtilis</i> is known for its
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<z4>Dutch iGEM symposium – Wednesday 3 October – Eindhoven – <a href="http://2012.igem.org/Team:TU-Eindhoven" target=_blank"><FONT COLOR=#ff6700>link</FONT></a></z4>
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starch degrading ability and amyE is a gene responsible for the starch degradation phenotype in <i>B.subtilis</i> by regulating a-amylase production.
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Wednesday 3 October all Dutch iGEM teams are invited to present their projects. Interested students, researchers and family/friends are invited!
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<z4>ESF EuroSYNBio conference - Thursday 4 October – Het Kasteel, Groningen – <a href="http://www.esf.org/activities/eurocores/running-programmes/eurosynbio/events.html" target=_blank"><FONT COLOR=#ff6700>link</FONT></a></z4>
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EuroSYNBio is a programme of the European Science Foundation. It aims not only to stimulate research in the field of synthetic biology, but also discusses the role of synthetic biology in society.
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<z3>Previous presentations</z3>
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<z4>Transnatural Conference  - Tuesday 18 September - NEMO, Amsterdam – <A HREF="www.transnatural.nl" TARGET="_blank"><FONT COLOR=#ff6700>link</FONT></A></z4>
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<img src="http://2012.igem.org/wiki/images/8/8c/Groningen2012_ID_20120923_wildtype.jpg" width="auto" height="300">
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<img src="http://2012.igem.org/wiki/images/8/89/Groningen2012_EH_transnatural2.png" width="250">
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<img src="http://2012.igem.org/wiki/images/5/5b/Groningen2012_ID_20120923_backbone_K823023.jpg" width="auto" height="300">
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<img src="http://2012.igem.org/wiki/images/0/06/Groningen2012_EH_transnatural3.png" width="250">
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We characterized this plasmid backbone by doing a simple growth experiment on a starch agar plate. <i>B. subtilis</i>
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On Tuesday 18 September we managed to get out of the lab and into the Science Exhibition Centre Nemo.  
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strains (168 wildtype, pSac-Cm, and K823023, clockwise respectively) were inoculated in LB agar+0.4% starch and incubated overnight
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It was a great learning experience to present for an audience without a scientific background.  
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in 37<sup>o</sup>C (left picture). After the addition of 0.1% iodine, the clear zone was formed around <i>B. subtilis</i>
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wildtype and <i>B. subtilis</i> strain containing pSac-Cm. There was no clear zone observed around
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<i>B. subtilis</i> strain containing backbone K823023 (right picture).
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The inability of the <i>B. subtilis</i> strain containing BBa_K823023 to degrade starch was simply demonstrating that the amyE locus in
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<z4>GBB symposium – Thursday 6 September – Hampshire Hotel, Groningen – <A HREF="http://www.rug.nl/fmns-research/gbb/education/generalcourses/gbbsymposium/index" TARGET="_blank"><FONT COLOR=#ff6700>link</FONT></A></z4>
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the <i>B. subtilis</i> genome had been replaced. Apart from this characterization experiment, our team has been using BBa_K823023
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as a plasmid backbone for our volatile detection device in <i>B. subtilis</i> (link to sboA-lycopene page).
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<z4>References</z4>
 
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<li>Nicholson, W.L, Park, Y.K, Henkin, T.M, Won, M., Weickert, M.J, Gaskell, J.A, Chambliss, G.H. 2006. Catabolite repression-resistant mutations of the Bacillus subtilis alpha-amylase promoter affect transcription levels and are in an operator-like sequence. J Mol Biol. 1987 Dec 20;198(4):609-18.</li>
 
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<li>Zeigler, Daniel R. 2002. Bacillus Genetic Stock Center Catalog of Strains, Seventh Edition, Volume 4: Integration Vectors for Gram-Positive Organisms. The Bacillus Genetic Stock Center. Department of Biochemistry, The Ohio State University. 484 West Twelfth Avenue,Columbus, Ohio 43210.</li>
 
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At the annual conference of the Groningen Biomolecular Science and Biotechnology institute, we got the chance to give a lecture about our project
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and present our poster.
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We also filled in their survey and now very proud that we deserved the Bavarian Medal.<br>
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<p class="margin"><FONT COLOR=#ff6700><b>iGEM LMU Munich</b></FONT><br><br>
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This iGEM team is also working on <i>B. subtilis</i> and therefore an ideal partner for testing each other’s constructs.
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They sent us 6 plasmids and 4 promoters and we are testing them for characterization. Hopefully we are able to return our constructs to them soon!</p>
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<img src="http://2012.igem.org/wiki/images/7/74/Groningen2012_EH_20120831_LMU_bricks.JPG" width="auto" height="300">
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<p class="margin"><FONT COLOR=#ff6700><b>iGEM Uppsala</b></FONT><br><br>
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At the beginning of August we received the chromoproteins amilCP (blue), amilGFP (yellow) from
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<A HREF="http://2011.igem.org/Team:Uppsala-Sweden" TARGET="_blank"><FONT COLOR=#ff6700>iGEM Uppsala 2011</FONT></A>.
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We were able to transform their BBa_K592009 and BBa_K592010 behind our identified promoters into <i>E.coli</i>.
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For now we are waiting untill they are transformed in <i>B.subtilis</i>, to check if the blue and yellow color also works in this organism.
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For the latest results, check our <A HREF="http://2012.igem.org/Team:Groningen/Pigments" TARGET="_blank"><FONT COLOR=#ff6700>Pigment page</FONT></A>.
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<p class="margin"><FONT COLOR=#ff6700><b>Dutch iGEM teams (iGEM Wageningen, Amsterdam, Delft, Eindhoven)</b></FONT><br><br>
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All of the Dutch iGEM teams collaborated to create an iGEM presence at the
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<A HREF="http://www.discoveryfestival.nl/" TARGET="_blank"><FONT COLOR=#ff6700>Discovery Festival</FONT></A> on Friday 28 September
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in Amsterdam, Rotterdam and Eindhoven. We will aim to get the public in touch with Synthetic Biology in a playful way.
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Besides these Dutch iGEM meetings and the Discovery Festival, we also collaborated with Wageningen and Amsterdam on a molecular level.  
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<z4>Dutch iGEM mini symposium – Monday 9 July – Wageningen – <A HREF="http://2012.igem.org/Team:Wageningen_UR/miniSymposium" TARGET="_blank"><FONT COLOR=#ff6700>link</FONT></A></z4>
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Many times our transformation of <i>E.coli</i> failed, so we ran out of the backbone biobricks for <i>B. subtilis</i>. Luckily Wageningen
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and Amsterdam were so kind to provide us with some of their bricks. Thank you guys!
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On the 10th of July all Dutch iGEM teams met in Wageningen for the first mini-symposium (Greek for meeting and having a drink together).  
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We shared our ideas and presented our work.  
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See the video <A HREF="http://wurtv.wur.nl/P2GTV/cataloguepage.aspx" TARGET="_blank"><FONT COLOR=#ff6700>Symposium iGEM Netherlands 2</FONT></A> (posted on July 9 2012).  
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<p class="margin"><FONT COLOR=#ff6700><b>iGEM Calgary 2012 </b></FONT><br><br>
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The iGEM Groningen presentation starts at time point 1:42.
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Emily Hicks from the winning Calgary iGEM team in 2011, and now member of iGEM Calgary 2012, has studied in Groningen during her exchange period.  
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She was very interested in her iGEM Groningen colleagues; therefore we asked her to give a lecture about her previous iGEM experience.  
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We were really motivated by Emily's tips concerning medal requirements, information about wiki etc. Thank you Emily!
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After these interesting talks, a nice dinner was served: we had a BBQ inside the chemistry lab of an old school building. Very suitable for us lab rats!
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<z4>Biomedical Engineering Symposium – Wednesday 13 June – UMCG, Groningen – <A HREF="http://www.biomedische-technologie.nl/" TARGET="_blank"><FONT COLOR=#ff6700>link</FONT></A></z4>
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The study society of Biomedical Engineering annually organizes a conference for students and researchers at the University Medical Centre of Groningen.  
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This year, the theme was “Bright Ideas”.
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<p class="margin"><FONT COLOR=#ff6700><b> iGEM Virginia</b></FONT><br><br>
 
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Prof. Papin, supervisor to the iGEM Virginia team and supervising author to the idFBA article, graciously shared his knowledge and scripts relating to
 
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idFBA.
 
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Revision as of 17:19, 23 September 2012






Presentations

Upcoming Presentations

Dutch iGEM symposium – Wednesday 3 October – Eindhoven – link

Wednesday 3 October all Dutch iGEM teams are invited to present their projects. Interested students, researchers and family/friends are invited!

ESF EuroSYNBio conference - Thursday 4 October – Het Kasteel, Groningen – link

EuroSYNBio is a programme of the European Science Foundation. It aims not only to stimulate research in the field of synthetic biology, but also discusses the role of synthetic biology in society.

Previous presentations

Transnatural Conference - Tuesday 18 September - NEMO, Amsterdam – link

On Tuesday 18 September we managed to get out of the lab and into the Science Exhibition Centre Nemo. It was a great learning experience to present for an audience without a scientific background.

GBB symposium – Thursday 6 September – Hampshire Hotel, Groningen – link

At the annual conference of the Groningen Biomolecular Science and Biotechnology institute, we got the chance to give a lecture about our project and present our poster.

Dutch iGEM mini symposium – Monday 9 July – Wageningen – link

On the 10th of July all Dutch iGEM teams met in Wageningen for the first mini-symposium (Greek for meeting and having a drink together). We shared our ideas and presented our work. See the video Symposium iGEM Netherlands 2 (posted on July 9 2012). The iGEM Groningen presentation starts at time point 1:42.

After these interesting talks, a nice dinner was served: we had a BBQ inside the chemistry lab of an old school building. Very suitable for us lab rats!

Biomedical Engineering Symposium – Wednesday 13 June – UMCG, Groningen – link

The study society of Biomedical Engineering annually organizes a conference for students and researchers at the University Medical Centre of Groningen. This year, the theme was “Bright Ideas”.


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