Team:Bielefeld-Germany/Labjournal/week1

From 2012.igem.org

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(→Week 1 (04/30 - 05/06/12))
(→Week 1 (04/30 - 05/06/12))
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* Generating new competent ''E.coli KRX cells''.
* Generating new competent ''E.coli KRX cells''.
* Cultiviation of ''Xanthomonas campestris B100'' and ''E. coli BL21(DE3)''. The bacterial strains we got from a working group at our University. After cultivation we isolated the genomic DNA. The DNA was needed as template for PCRs to purify the wanted laccase ORFs.  
* Cultiviation of ''Xanthomonas campestris B100'' and ''E. coli BL21(DE3)''. The bacterial strains we got from a working group at our University. After cultivation we isolated the genomic DNA. The DNA was needed as template for PCRs to purify the wanted laccase ORFs.  
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* Sending requests to working groups for different plasmids, which have already worked with laccases and described them in their papers. Unfortunately just one answer came back (thanks a lot to them).So we got a vector with the laccase-ORF CotA from ''Bacillus pumilus ATCC7061'' from the Swiss Federal Laboratories for Materials Science and Technology, Laboratory for Biomaterials in Switzerland.  
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=== Monday April 30th ===
=== Monday April 30th ===
* '''Team Student Academy:''' We got the chance to organize one part of the first school academy “synthetic biology/ biotechnology” at the CeBiTec of University Bielefeld by arranging experiments for the pupils and by presenting us and the iGEM competition. For the experimental part our general idea was to give them an understanding of principle methods in biotechnology / synthetic biology by using fluorescent proteins. We planned the following experiments:
* '''Team Student Academy:''' We got the chance to organize one part of the first school academy “synthetic biology/ biotechnology” at the CeBiTec of University Bielefeld by arranging experiments for the pupils and by presenting us and the iGEM competition. For the experimental part our general idea was to give them an understanding of principle methods in biotechnology / synthetic biology by using fluorescent proteins. We planned the following experiments:
** Plasmidisolation of RFP/GFP from a liquid culture.
** Plasmidisolation of RFP/GFP from a liquid culture.
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** Transformation of a plasmid mixture consisting of two different fluorescent proteins (e.g. RFP and GFP) and different antibiotic resistances into ''E.coli'' KRX. It will be plated out on LB agar plates without antibiotics and on plates containing one of the two antibiotics, which are present on the plasmids. This way we can demonstrate the effect of antibiotics as selective pressure.  
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** '''Team Bacterial Laccases:''' Transformation of a plasmid mixture consisting of two different fluorescent proteins (e.g. RFP and GFP) and different antibiotic resistances into ''E.coli'' KRX. It will be plated out on LB agar plates without antibiotics and on plates containing one of the two antibiotics, which are present on the plasmids. This way we can demonstrate the effect of antibiotics as selective pressure.
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* Sending requests to working groups for different plasmids, which have already worked with laccases and described them in their papers.
=== Tuesday May 1th ===
=== Tuesday May 1th ===
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Cycle between step 2 and 4 35 times.
Cycle between step 2 and 4 35 times.
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''' Team Bacterial Laccases:'''
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We got answer on our request for a vector with the laccase-ORF CotA from ''Bacillus pumilus ATCC7061'' from the Swiss Federal Laboratories for Materials Science and Technology, Laboratory for Biomaterials in Switzerland. They promised to send us the plasmid.
''' weekly seminar:'''  
''' weekly seminar:'''  

Revision as of 15:17, 4 September 2012

Contents

Labjournal

Week1 Week2 Week3 Week4 Week5 Week6 Week7 Week8 Week9 Week10 Week11 Week12 Week13 Week14 Week15 Week16 Week17 Week18 Week19


Week 1 (04/30 - 05/06/12)

  • Start of our WET LAB time.
  • Generating new competent E.coli KRX cells.
  • Cultiviation of Xanthomonas campestris B100 and E. coli BL21(DE3). The bacterial strains we got from a working group at our University. After cultivation we isolated the genomic DNA. The DNA was needed as template for PCRs to purify the wanted laccase ORFs.


Monday April 30th

  • Team Student Academy: We got the chance to organize one part of the first school academy “synthetic biology/ biotechnology” at the CeBiTec of University Bielefeld by arranging experiments for the pupils and by presenting us and the iGEM competition. For the experimental part our general idea was to give them an understanding of principle methods in biotechnology / synthetic biology by using fluorescent proteins. We planned the following experiments:
    • Plasmidisolation of RFP/GFP from a liquid culture.
    • Team Bacterial Laccases: Transformation of a plasmid mixture consisting of two different fluorescent proteins (e.g. RFP and GFP) and different antibiotic resistances into E.coli KRX. It will be plated out on LB agar plates without antibiotics and on plates containing one of the two antibiotics, which are present on the plasmids. This way we can demonstrate the effect of antibiotics as selective pressure.
  • Sending requests to working groups for different plasmids, which have already worked with laccases and described them in their papers.

Tuesday May 1th

  • Team Student Academy: Searching for two plasmids with different fluorescent proteins behind and antibiotic resistance in parts registry. Found BBa_J04450, a Plasmid with RFP and chloramphenicol resistance (but lacI and CAP sensitive), BBa_J23100, a plasmid with RFP and ampicillin resistance and BBa_I13522, a Plasmid with GFP and ampicillin resistance in Kit Plate 2011.

Wednesday May 2th

Thursday May 3th

  • Team Bacterial Laccase: After the vector has arrived, we transformed it into the competent E.coli KRX which we have already generated. The protocol we used was as followed:
    • The electroporation setup: U= 2,5kV C= 25 µF and R= 400 <math>\omega</math>
    • Since we did not know the efficient of our competent KRX we used two different E.coli volumes for the transformation, 50µL and 100µL. We gave 50µL 10% Gylcerol to the reaction tubes with 1µL of the vector DNA (Bacillus pumilus). After the transformation we plated them into ampicillin plates.
  • Team Bacterial Laccase: PCR with the Xanthomonas campestris B100 and E. coli BL21(DE3) genomic DNA.
    • PCR table
Material Volume
Buffer (10x Phusion) 10µL
Phusion Polymerase 0,5µL
dNTPs 1µL
Primer Mix 1µL
Template DNA 1µL
DMSO 1,5µL
Water 35µL
    • PCR program
Temperature Time
1) 98°C 30 sec
2) 98°C 15 sec
3) 62°C 45 sec
4) 72°C 1 min
5) 72°C 3 min
6) 12°C

Cycle between step 2 and 4 35 times.


Team Bacterial Laccases: We got answer on our request for a vector with the laccase-ORF CotA from Bacillus pumilus ATCC7061 from the Swiss Federal Laboratories for Materials Science and Technology, Laboratory for Biomaterials in Switzerland. They promised to send us the plasmid.

weekly seminar:

  • Do we want to order strains of Trametes versicolor and Trametes villosa?
  • Gathering information about signal sequences in yeast
  • Decision to create a database, so that we can easily number and inscribe our lab results
  • Decision to arrange a summer school for pupils in their last year before the final exams
  • Discussion about how to meet a member of the german Bundestag (the german parliament)
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