Team:Bielefeld-Germany/Labjournal/week9

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==Week 9 (06/25 - 07/01/12)==
==Week 9 (06/25 - 07/01/12)==
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=== weekly seminar ===
 
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* evaluation of the presentation, we did in Darmstadt as part of our sponsoring through [http://www.merckgroup.com/en/index.html Merck]
 
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* Merck is strongly interested in our results, because the company has problems with lignin in the waste water (and laccases can be used for degradation of lignin, too).
 
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* We were advised to use silica-beads, pretreated with carbodiimide, to immoblize our enzymes
 
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* We decided to visit at least one sewage treatment plant as part of our Human Practices and we will try to integrate the treatment plants into our modelling.
 
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* Everything is prepared for our summer school. Kevin and Gabi will present the experiment and
 
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Nadine, Kevin, Gabi, Mo, Miriam, Derya and Isabel will advise the pupils.
 
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* Gabi, Timo and Robert went to the [[Team:Bielefeld-Germany/Human_Practices/StrategicProcess|strategy process]] [http://www.biotechnologie2020plus.de/BIO2020/Navigation/DE/root,did=152728.html "Biotechnologie2020+"] in Berlin.
 
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===Monday June 25th===
 
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* '''Team Cloning of Bacterial Laccases:'''
 
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:* Retried the DNA isolation from ''S. griseus'' and ''S. lavendulae'' without any success.
 
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*'''Team Fungal and Plant Laccases''':
 
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** Phonecall with the Leader of the working group of the [http://biotech.uni-greifswald.de/ University Greifswald Prof. Dr. U. Bornscheuer]. We explained our project and asked, if we can get the sequnces of the ''Trametes versicolor'' laccases. We got the commitment for getting the laccase sequences and plasmids containing the sequences (four laccases of ''Trametes versicolor'' and one of ''Pycnoporus cinnabarinus'').
 
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===Tuesday June 26th===
 
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*'''Team Fungal and Plant Laccases: '''
 
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** The thing about plants is that they have to grow. Fortunately we got 6 beautiful 4 weeks-old wildtype plants from Patrick Treffon from the Institute of Plant Physiology and Biochemistry at Bielefeld University. With the help of the [http://bar.utoronto.ca/efp/cgi-bin/efpWeb.cgi efp-Browser] we found out that the [http://www.ncbi.nlm.nih.gov/protein/AAM77221.1 laccase] in ''A. thaliana'' is only expressed in the developing seeds. So we now have to wait for the siliques to develop.
 
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* '''Team Shuttle Vector:'''
 
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** Prepare the YPD Media for cultivation of the yeast strains ''Komatagaella patoris'' X33 (wildtype) and GS115 (Invitrogen). Both organisms are provided from the [http://www.techfak.uni-bielefeld.de/ags/fermtech/ chair of Fermentation Engineering] (D5) from Dr. Thomas Hug.
 
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===Wednesday June 27th===
 
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[[File:Bielefeld2012 SoAc BRP comparisonTVEL0.png|thumb|right|Activity measurement of TVELO in sodium acetate buffer (pH5) and Briton Robinson buffer (pH 5). Measurements were taken via OD<sub>420</sub> of oxidized ABTS.]]
 
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* '''Team Shuttle Vector:'''
 
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** Cultivation of ''Komagataella pastoris'' X33 and GS115 in YPD media for isolation of the genomic DNA.
 
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* '''Team Activity Tests''':
 
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** We like our new cooperation with Team Immobilization. The thing is, that they don´t like our buffer. Sodium acetate (pH 5) seems perfect for activity tests but apparently not for immobilization. What they prefer is a Britton-Robinson buffer (pH 5). To find out whether there is a difference between the two buffers that causes different activity habits of our laccase TVEL0, we setup comparable measurements with the two buffers and TVEL0. We concluded that the laccase in sodium acetate buffer shows a slower saturation but all in all both laccase samples reach the same maximum so that it is ok for us to use both buffer systems.
 
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===Thursday June 28th===
 
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* '''Team Wiki''':
 
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** Today we browsed our wiki and were not very impressed: it's a lonesome place. So we started to think of how we could blow a little more life into it. For this, texts should appear soon on our wiki. To manage this bunch of work, we divided the subtopics of our wiki and appointed them to group members. Now everyone has a topic which he is responsible for. And that includes writing the texts, uploading pictures and keeping the represented information updated. Before anybody had the chance to disappear behind his/her notebook being busy editing his own page, we had to establish our <span style="text-decoration: underline;">'''wiki rules'''</span>:
 
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**Use the standardized formatting as presented in our [http://2012.igem.org/Team:Bielefeld-Germany/Example example page].
 
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**Try to edit your text without using HTML code as far as possible and use wiki code instead. Useful advices when using wiki code are represented on our [http://2012.igem.org/Team:Bielefeld-Germany/Example example page], too.
 
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**If you want to change anything that does not belong to your scope of duties, ask kindly the person of charge and make sure he/she is fine with it.
 
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**Make your text more understandable by using images and charts. But remember: you are only allowed to upload pictures if you own them or if they are published without licenses.
 
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* '''Team Shuttle Vector:'''
 
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** Isolation of genomic DNA from Komagataella pastoris GS115 (Invitrogen) and the wildtype X33 with the [http://2012.igem.org/Team:Bielefeld-Germany/Protocols/Genetics Wizward genomic DNA purification system Kit] (Promega).
 
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===Friday June 29th===
 
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* '''Team Cloning of Bacterial Laccases''':
 
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** Sequencing results showed that even with a new PCR product the same mutation occurs in bpul(T7)_His so it is probably already present on the plasmid which was sent to us. So we decided to use this plasmid. We give him the name <partinfo>BBa_K863000</partinfo>. Tth(T7)_His showed a positive sequencing result, too. So we have <partinfo>BBa_K863010</partinfo> ready for use!
 
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===Saturday June 30th===
 
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* '''Team Student Academy:'''
 
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** We prepared a script for pupils containing background information and a protocol and wrote an abstract for the school academy program.
 
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===Sunday July 1st===
 
{{Team:Bielefeld/Sponsoren}}
{{Team:Bielefeld/Sponsoren}}

Latest revision as of 21:19, 25 September 2012


Week 9 (06/25 - 07/01/12)

Promega logo 180x109.gif Logo merck.jpg BioCircle.JPG Bielefeld2012 Evonik.jpg Bielefeld2012 Baxter.png Logo knauer.jpg Logo iit.jpg Bielefeld2012 BIEKUBA.jpg Logo biometra.jpg Logo bio-nrw.png Bielefeld2012 Logo ERASynbio.jpg