Team:Bielefeld-Germany/Labjournal/week11

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==Week 11 (07/09 - 07/15/12)==
 
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===Monday July 9th===
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* Ordering primers for isolation of fungal laccases from plasmids, we got from the Ernst-Moritz-Arndt-University in Greifswald. The plasmids contain the cDNA sequences of five different laccases from ''Trametes versicolor'' and ''Pycnoporus cinnabarinus''.
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* lac5 from ''Trametes versicolor''
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* lac10 from ''Trametes versicolor''
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* lac13 from ''Trametes versicolor''
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    background-color: white;
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* lac20 from ''Trametes versicolor''
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}
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* lac35 from ''Pycnoporus cinnabarinus''
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* The first primerpairs were designed with standard prefix and suffix sequence and 20 bases complementary to the start and end of the ORF sequences.
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* Additional primerpairs were designed with AarI restriction site and Kozak consensus sequence before the first 20 bases from the start of the ORF (forward primers). The reverse primers were desigend with the last 20 bases of the lacase genes and a terminator overhaning end and a AarI restriction site.  
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Problem: We forgot to delete the signal peptid sequences, which are present in the fungal laccases.
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Solution: Ordering the forward primers again with the first 20 bases after the signal peptides.
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<ul style="list-style-type:none">
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/Starting"><strong>Prologue</strong></a></li>
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                <li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week1"><strong>Week 1</strong></a></li>
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                <li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week2"><strong>Week 2</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week3"><strong>Week 3</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week4"><strong>Week 4</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week5"><strong>Week 5</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week6"><strong>Week 6</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week7"><strong>Week 7</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week8"><strong>Week 8</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week9"><strong>Week 9</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week10"><strong>Week 10</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week11"><strong>Week 11</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week12"><strong>Week 12</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week13"><strong>Week 13</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week14"><strong>Week 14</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week15"><strong>Week 15</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week16"><strong>Week 16</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week17"><strong>Week 17</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week18"><strong>Week 18</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week19"><strong>Week 19</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week20"><strong>Week 20</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week21"><strong>Week 21</strong></a></li>
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<li><a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week22"><strong>Week 22</strong></a></li>
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* '''Team Student Academy:''' This week the Student Academy took place. Today we held a presentation about the background of our experiments and answered all the questions the pupils had. Furthermore two of us participated at the an unconstrained meeting between the instructors and the pupils in the evening.
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===Tuesday July 10th===
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</div>
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* '''Team Site Directed Mutagenesis:''' Generated the first Site-Directed-Mutagenesis primer for Bacillus pumilus (two sites), Xanthomonas Campestris (two sites), Escherichia coli (one site)und Thermus thermophilus (one site).
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* '''Team Cellulose Binding Domain:''' Searched NCBI for Cellulose, Chitin & Keratin binding motifs in accessable organisms; found two Chitin-binding-domains in Bacillus Halodurans
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* '''Team Student Academy:''' The experiments were performed by one half of the pupils in groups of 2-3. Afterwards we held a presentation about the iGEM competition, the project of the last two teams from Bielefeld and about our project. In the evening we had a barbecue with the pupils and the iGEM team with a lot of interesting discussions.
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===Wednesday July 11th===
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* '''Team Cellulose Binding Domain:''' Looked up the sequence of Clostridium cellulovorans cellulose binding protein gene (cbp A) http://www.ncbi.nlm.nih.gov/nuccore/M73817 made a Clonemanagerfile and protein-BLASTed the sequence to find out the domain of the Cellulose-Binding-Domain: 103bp-378bp
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==Week 11 (07/09 - 07/15/12)==
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* '''Team Student Academy:''' The experiments were performed by the second half of the pupils and the groups from yesterday analyzed their plates.
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===Thursday July 12th===
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===Friday July 13th===
 
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* '''Team Student Academy:''' The groups from Wednesday analyzed their plates. Together with the pupils we made a final analysis of the results, discussed about all problems and questions and helped with the preparation of a presentation, they had to hold in front of all instructors and participants.
 
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* '''Team Bacterial Laccase''': We got new Streptomyces DNA from or supervisor C. Rueckert. He did an alignment with our ''S. griseus'' and ''S. lavendulae'' sequences against a local database for Streptomyces and identified ''S. rosechromogenes'', ''S. tue'' and ''S.goe''. Thoose Laccase genes showed simularity to our Laccase genes. Since he had isolated chromosomol DNA we were able to work with them. We set the PCR with the three Streptomyces. On this PCR ''S. tue'' DNA could be amplified, but it wasn't specific for that what we expected. No products could be amplified on the other two.
 
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===Saturday July 14th===
 
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===Sunday July 15th===
 
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Sunday
 
{{Team:Bielefeld/Sponsoren}}
{{Team:Bielefeld/Sponsoren}}

Latest revision as of 21:21, 25 September 2012


Week 11 (07/09 - 07/15/12)

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About our Wiki

Fifteen students from different fields of study from the Bielefeld University aspired to complete a project called TOXIC COMPOUNDS IN NATURAL WATER - A CASE FOR LACCASE. In his Wiki we document our achievements and our approach.

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