Team:Bielefeld-Germany/Labjournal

From 2012.igem.org

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Beginning in january and february members of the former iGEM team from Bielefeld started seminars to inform interested students about synthetic biology, iGEM and the past Bielefeld projects. In March the final 2012 iGEM Bielefeld team was formed of 15 students and weekly meetings began. Our team was established and it was time to find a suitable project. The first weekly meeting were more like big group brainstorming and we discussed idea, which in some cases were totally different from each other. Everyone had to inform about ideas of others so that, in the end, we all could discuss together. First project ideas were:
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Beginning in January and February members of the former iGEM team from Bielefeld started seminars to inform interested students about synthetic biology, iGEM and the past Bielefeld projects. In March the final 2012 iGEM Bielefeld team was formed of 15 students and weekly meetings began. Our team was established and it was time to find a suitable project. The first weekly meeting were more like big group brainstorming and we discussed idea, which in some cases were totally different from each other. Everyone had to inform about ideas of others so that, in the end, we all could discuss together. First project ideas were:
<ul>
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   <li>the detection of multiresistent pathogens</li>
   <li>the detection of multiresistent pathogens</li>
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   <li>an enzyme dispenser</li>
   <li>an enzyme dispenser</li>
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After some reports in media and press about the environmental effects of steroid hormones, we decided to go for hormones. From the beginning our aim was not to detect but to degrade hormones. We found several possible ways for degradation as there are the hydrolysis of estradiol-derivates with sufatases and glucoronidases. But we thought the best way to degrade steroid hormones would be with the use of laccases. Laccases have the ability to radicalize aromatic rings and can therefore be used to degrade or polymerize a broad range of substances, such as steroid hormones, special insecticides, polycyclic aromatic carbohydrates and aromatic acids. In nature laccases are often used for degradation or polymerisation of lignin or pigments.  
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After some reports in media and press about the environmental effects of steroid hormones, we decided to go for hormones. From the beginning our aim was not to detect but to degrade hormones. We found several possible ways for degradation as there are the hydrolysis of estradiol-derivates with sufatases and glucoronidases. But we thought the best way to degrade steroid hormones would be with the use of laccases. Laccases have the ability to radicalize aromatic rings and can therefore be used to degrade or polymerize a broad range of substances, such as steroid hormones, special insecticides, polycyclic aromatic carbohydrates and aromatic acids. In nature laccases are often used for degradation or polymerization of lignin or pigments.  
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Start of our WET LAB time.  
Start of our WET LAB time.  
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We began our time in the lab with the cultivation of Xanthomonas campestris B100 and E. coli BL21(DE3) to isolate the genomic DNA to do PCRs and purify the desired laccase ORFs. In Order to do this we at first had to designed the PCR-primers. We decided, that the forward primers had to included the prefix, the T7 promotor, the RBS and the first 20 bases of the gene of interest and the reverse primers should consist of the last 20 bases of the gene of interest, a His-tag, followed by two stop codons and the suffix. Furthermore we started making preparations for the <a href="https://2012.igem.org/Team:Bielefeld-Germany/Human_Practices/StudentAcademy">Student Academy</a>. The Students Academy is a week-lasting summer school (9th to 13th of July) we got the chance to take part in organizing it. It is distinguished with a lot of presentations and lessons for pupils, but also guided experiments they had to do by themselves. Therefore the general idea for our experimental part was to give the students an understanding of the principle methods in biotechnology and synthetic biology by using fluorescent proteins. So the first step was to searched the partsregistry for two plasmids with different fluorescent proteins and antibiotic resistances, respectively. <a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week1">read more</a>
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We began our time in the lab with the cultivation of ''Xanthomonas campestris'' B100 and ''E. coli'' BL21(DE3) to isolate the genomic DNA to do PCRs and purify the desired laccase ORFs. In Order to do this we at first had to designed the PCR-primers. We decided, that the forward primers had to included the prefix, the T7 promotor, the RBS and the first 20 bases of the gene of interest and the reverse primers should consist of the last 20 bases of the gene of interest, a His-tag, followed by two stop codons and the suffix. Furthermore we started making preparations for the <a href="https://2012.igem.org/Team:Bielefeld-Germany/Human_Practices/StudentAcademy">Student Academy</a>. The Students Academy is a week-lasting summer school (9th to 13th of July) we got the chance to take part in organizing it. It is distinguished with a lot of presentations and lessons for pupils, but also guided experiments they had to do by themselves. Therefore the general idea for our experimental part was to give the students an understanding of the principle methods in biotechnology and synthetic biology by using fluorescent proteins. So the first step was to searched the Parts Registry for two plasmids with different fluorescent proteins and antibiotic resistances, respectively. <a href="https://2012.igem.org/Team:Bielefeld-Germany/Labjournal/week1">read more</a>
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Revision as of 21:21, 16 September 2012

Starting the team

Beginning in January and February members of the former iGEM team from Bielefeld started seminars to inform interested students about synthetic biology, iGEM and the past Bielefeld projects. In March the final 2012 iGEM Bielefeld team was formed of 15 students and weekly meetings began. Our team was established and it was time to find a suitable project. The first weekly meeting were more like big group brainstorming and we discussed idea, which in some cases were totally different from each other. Everyone had to inform about ideas of others so that, in the end, we all could discuss together. First project ideas were:
  • the detection of multiresistent pathogens
  • communication between bacteria and fungi using quorum sensing
  • a bacterial hand warmer
  • a possibility to detect and destroy mold fungus
  • something about spontaneous combustion of hay bale
  • an enzyme dispenser
After some reports in media and press about the environmental effects of steroid hormones, we decided to go for hormones. From the beginning our aim was not to detect but to degrade hormones. We found several possible ways for degradation as there are the hydrolysis of estradiol-derivates with sufatases and glucoronidases. But we thought the best way to degrade steroid hormones would be with the use of laccases. Laccases have the ability to radicalize aromatic rings and can therefore be used to degrade or polymerize a broad range of substances, such as steroid hormones, special insecticides, polycyclic aromatic carbohydrates and aromatic acids. In nature laccases are often used for degradation or polymerization of lignin or pigments.

Starting the project

After we found our project idea we decided to have a get-to-know-weekend with some presentations about iGEM, important methods and ideas for human practices. We also held presentations about other possible iGEM projects to extend our horizon, as there were: e.g. RNA aptamers and magnetotactic bacteria. But the most important part of this weekend was the growing as a team. We realized that we all had one summer to work together, have fun together and most important to stand up together as a team. Now it was time to organize the work and find a suitable task for everyone. In a developing team a lot of different jobs have to be done, e.g.:

  • finding sponsors
  • communication with the public
  • human practices
  • wiki- and homepage-design
  • modelling
  • a forum for exchange of information
  • a joker, who entertains the team and lifts the mood
And finally lab work began, feel free to follow us in our weekly labjournal and have a look how our labwork, results and of course problems and their solutions, evolved.

Week 1

Start of our WET LAB time.

We began our time in the lab with the cultivation of ''Xanthomonas campestris'' B100 and ''E. coli'' BL21(DE3) to isolate the genomic DNA to do PCRs and purify the desired laccase ORFs. In Order to do this we at first had to designed the PCR-primers. We decided, that the forward primers had to included the prefix, the T7 promotor, the RBS and the first 20 bases of the gene of interest and the reverse primers should consist of the last 20 bases of the gene of interest, a His-tag, followed by two stop codons and the suffix. Furthermore we started making preparations for the Student Academy. The Students Academy is a week-lasting summer school (9th to 13th of July) we got the chance to take part in organizing it. It is distinguished with a lot of presentations and lessons for pupils, but also guided experiments they had to do by themselves. Therefore the general idea for our experimental part was to give the students an understanding of the principle methods in biotechnology and synthetic biology by using fluorescent proteins. So the first step was to searched the Parts Registry for two plasmids with different fluorescent proteins and antibiotic resistances, respectively. read more

Week 2

hier eine Überschrift

hier eine Zusammenfassung read more

Week 3

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 4

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 5

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 6

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 7

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 8

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 9

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 10

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 11

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 12

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 13

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 14

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 15

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 16

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 17

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 18

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 19

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 20

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 21

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 22

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 23

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 24

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 25

hier eine Überschrift

hier eine Zusammenfassung und ein read more

Week 26

hier eine Überschrift

hier eine Zusammenfassung und ein read more

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