Difference between revisions of "Team:Tuebingen/Labwork"

 
(83 intermediate revisions by 5 users not shown)
Line 2: Line 2:
 
{{Tuebingen/DefaultPageStart}}
 
{{Tuebingen/DefaultPageStart}}
 
{{Tuebingen/PageTitle|titleInitial=L|titleRemainder=abwork}}
 
{{Tuebingen/PageTitle|titleInitial=L|titleRemainder=abwork}}
−
{{Tuebingen/TitleQuote|quote=Just Why?|person=Manu}}
+
{{Tuebingen/TitleQuote|quote=Everybody's a mad scientist, and life is their lab. We're all trying to experiment to find a way to live, to solve problems, to fend off madness and chaos.|person=David Cronenberg}}
−
<html><img id="titleImage" src="https://static.igem.org/mediawiki/2018/0/09/T--Tuebingen--Placeholder.jpg" alt="Placeholder"></html>
+
{{Tuebingen/TitleImage|https://static.igem.org/mediawiki/2018/9/9d/T--Tuebingen--Chemie_Labwork1Titelbild.JPG}}
 
{{Tuebingen/ContentStart}}
 
{{Tuebingen/ContentStart}}
 
{{Tuebingen/SectionStart|id=Introduction|title=Introduction}}
 
{{Tuebingen/SectionStart|id=Introduction|title=Introduction}}
 +
 +
{{Tuebingen/PlainSubHeading|BoNT C - Liscense to enter}}
 +
 
{{Tuebingen/SingleContent|
 
{{Tuebingen/SingleContent|
−
Lorem ipsum dolor sit amet, consetetur sadipscing elitr, sed diam nonumy eirmod tempor invidunt ut labore et dolore magna aliquyam erat, sed diam voluptua. At vero eos et accusam et justo duo dolores et ea rebum. Stet clita kasd gubergren, no sea takimata sanctus est Lorem ipsum dolor sit amet. Lorem ipsum dolor sit amet, consetetur sadipscing elitr, sed diam nonumy eirmod tempor invidunt ut labore et dolore magna aliquyam erat, sed diam voluptua. At vero eos et accusam et justo duo dolores et ea rebum. Stet clita kasd gubergren, no sea takimata sanctus est Lorem ipsum dolor sit amet. Lorem ipsum dolor sit amet, consetetur sadipscing elitr, sed diam nonumy eirmod tempor invidunt ut labore et dolore magna aliquyam erat, sed diam voluptua. At vero eos et accusam et justo duo dolores et ea rebum. Stet clita kasd gubergren, no sea takimata sanctus est Lorem ipsum dolor sit amet.  
+
As stated, we modified botulinum toxin in a way that lead to its detoxification.  
 +
This, as well as the coupling of our detoxified BoNT C to other substances were the main aspects of our lab work, next to our special cell culture to test our library on neuron-like cells. The whole process we went through and the different methods we used to achieve our goals are described below.  
 +
}}
 +
{{Tuebingen/SingleContent|
 +
An other important part of every iGEM year is the InterLab Study, which is one of the Bronze-Medal Criteria.
 +
}}
 +
{{Tuebingen/SingleContent|
 +
If you are intersted in our Bioinformatic part: {{Tuebingen/Link|text=BioInfo|url=https://2018.igem.org/Team:Tuebingen/Bioinformatics}}
 +
}}
 +
{{Tuebingen/SectionEnd}}
  
−
Duis autem vel eum iriure dolor in hendrerit in vulputate velit esse molestie consequat, vel illum dolore eu feugiat nulla facilisis at vero eros et accumsan et iusto odio dignissim qui blandit praesent luptatum zzril delenit augue duis dolore te feugait nulla facilisi. Lorem ipsum dolor sit amet, consectetuer adipiscing elit, sed diam nonummy nibh euismod tincidunt ut laoreet dolore magna aliquam erat volutpat.
+
 
 +
{{Tuebingen/SectionStart|id=Methods|title=Methods}}
 +
{{Tuebingen/SingleContent|
 +
Working neatly is very important to every scientist. Because of this, here we're describing our methods. You can click any of the tabs to see what we did in each laboratory.
 
}}
 
}}
 +
<html><div class="tabMenu"><button onclick="openTab('MolbioMethods', 'tabMethods')">Molecular Biology</button><button onclick="openTab('ProteinsMethods', 'tabMethods')">Protein Expression</button><button onclick="openTab('CellsMethods', 'tabMethods')">Cell Culture</button><button onclick="openTab('ChemistryMethods', 'tabMethods')">Chemistry</button></div>
 +
<div id="tabMethods" class="tabContent"></html>
 +
<html><div id="MolbioMethods" class="tab active"></html>
 
{{Tuebingen/MultiContent|
 
{{Tuebingen/MultiContent|
−
{{Tuebingen/Third|empty}}
+
{{Tuebingen/Half|
−
{{Tuebingen/Third|empty}}
+
{{Tuebingen/Link|text=Electrocompetent Cells|url=https://static.igem.org/mediawiki/2018/4/46/T--Tuebingen--Electrocompetent_Cells.pdf}}
−
{{Tuebingen/Third|{{Tuebingen/Figure|description=Some Image|url=https://static.igem.org/mediawiki/2018/0/09/T--Tuebingen--Placeholder.jpg}}}}
+
 
}}
 
}}
 +
{{Tuebingen/Half|
 +
Generating Electrocompetent Cells
 +
}}
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Electroporation|url=https://static.igem.org/mediawiki/2018/0/0c/T--Tuebingen--Electrocoporation.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Transformation of Cells
 +
}}
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Mini Prep|url=https://static.igem.org/mediawiki/2018/3/30/T--Tuebingen--MiniPrep.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Mini Preparation of Plasmid DNA
 +
}}
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Maxi Prep|url=https://static.igem.org/mediawiki/2018/9/92/T--Tuebingen--MaxiPrep.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Maxi Preparation of Plasmid DNA
 +
}}
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Restriction Digest and Ligation|url=https://static.igem.org/mediawiki/2018/a/a4/T--Tuebingen--RestrictionLigation.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Restriction Digest and Ligation
 +
}}
 +
}}
 +
<html></div></html>
 +
<html><div id="ProteinsMethods" class="tab"></html>
 +
{{Tuebingen/MultiContent|
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Expression and harvesting|url=https://static.igem.org/mediawiki/2018/e/e6/T--Tuebingen--Expression_of_the_protein_and_harvesting_of_the_bacterial_culture.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Expression of the protein and harvesting of the bacterial culture
 +
}}
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=His-tag purification|url=https://static.igem.org/mediawiki/2018/4/41/T--Tuebingen--His-tag_protein_purification.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
His-tag protein purification
 +
}}
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Strep-tag purification|url=https://static.igem.org/mediawiki/2018/5/53/T--Tuebingen--Strep-tag_protein_purification.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Strep-tag protein purification
 +
}}
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Buffer preparation|url=https://static.igem.org/mediawiki/2018/a/ad/T--Tuebingen--Buffer_preparation.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Set up buffer
 +
}}
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Desalting samples|url=https://static.igem.org/mediawiki/2018/c/c8/T--Tuebingen--Desalting_samples.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Desalting samples
 +
}}
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=SDS gel preservation|url=https://static.igem.org/mediawiki/2018/6/67/T--Tuebingen--SDS_gel_conservation.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
SDS gel preservation
 +
}}
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Western blot|url=https://static.igem.org/mediawiki/2018/0/09/T--Tuebingen--Western_blot.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Western blot
 +
}}
 +
}}
 +
<html></div></html>
 +
<html><div id="CellsMethods" class="tab"></html>
 +
{{Tuebingen/MultiContent|
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Basic cell culture|url=https://static.igem.org/mediawiki/2018/4/42/T--Tuebingen--BasicCellCulture.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
SHSY5Y basic cell culture
 +
}}
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Freezing and thawing|url=https://static.igem.org/mediawiki/2018/d/d6/T--Tuebingen--FreezingThawing.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
SHSY5Y freezing and thawing
 +
}}
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Cell splitting|url=https://static.igem.org/mediawiki/2018/c/c6/T--Tuebingen--CellSplitting.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
SHSY5y cell splitting
 +
}}
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Differentiation|url=https://static.igem.org/mediawiki/2018/1/1d/T--Tuebingen--DifferentiationProtocol.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Differentiation protocol
 +
}}
 +
}}
 +
<html></div></html>
 +
<html><div id="ChemistryMethods" class="tab"></html>
 +
{{Tuebingen/MultiContent|
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Distillation|url=https://static.igem.org/mediawiki/2018/5/52/T--Tuebingen--Chemie_desti.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Explanation of distillation
 +
}}
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Chromatographie|url=https://static.igem.org/mediawiki/2018/7/77/T--Tuebingen--Chemie_chroma.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Explanation of chromatographie
 +
}}
 +
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Drying|url=https://2018.igem.org/File:T--Tuebingen--Chemie_Dry_Solvent.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Explanation how to dry solvents
 +
}}
 +
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=OH to SH|url=https://static.igem.org/mediawiki/2018/9/95/T--Tuebingen--Chemie_OH-SHalspdf.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Synthesis of the Thiol-Esli
 +
}}
 +
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=SH to SS|url=https://static.igem.org/mediawiki/2018/b/b4/T--Tuebingen--Chemie_SHSS.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Synthesis of the Disulfid-Esli
 +
}}
 +
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Azid-D|url=https://static.igem.org/mediawiki/2018/1/18/T--Tuebingen--Chemie_AzidD.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Synthesis of the Azid-Donor
 +
}}
 +
}}
 +
<html></div></html>
 +
<html></div><!-- closes the tabContent --></html>
 
{{Tuebingen/SectionEnd}}
 
{{Tuebingen/SectionEnd}}
−
{{Tuebingen/SectionStart|id=Methods|title=Methods}}
+
 
−
{{Tuebingen/SectionEnd}}
+
 
 
{{Tuebingen/SectionStart|id=Labbook|title=Labbook}}
 
{{Tuebingen/SectionStart|id=Labbook|title=Labbook}}
 +
{{Tuebingen/SingleContent|
 +
Here you can read our Labbook. It is the place, where we described everything that we did, and when. If you are interessted in our workflow, you can read everything below.
 +
}}
 +
<html><div class="tabMenu"><button onclick="openTab('MolbioLB', 'tabLB')">Molecular Biology</button><button onclick="openTab('ProteinsLB', 'tabLB')">Protein Expression</button><button onclick="openTab('CellsLB', 'tabLB')">Cell Culture</button><button onclick="openTab('ChemistryLB', 'tabLB')">Chemistry</button></div><div id="tabLB" class="tabContent"></html>
 +
<html><div id="MolbioLB" class="tab active"></html>
 +
{{Tuebingen/MultiContent|
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=MolBio Labbook|url=https://static.igem.org/mediawiki/2018/3/3e/T--Tuebingen--Labbook_Cloning.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Everything done in the MolBio Lab
 +
}}
 +
}}
 +
<html></div></html>
 +
<html><div id="ProteinsLB" class="tab"></html>
 +
{{Tuebingen/MultiContent|
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Purification, expression, toxassay|url=https://static.igem.org/mediawiki/2018/2/22/T--Tuebingen--Labbook_protein_expression.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Labbook: protein purification, expression and toxassay
 +
}}
 +
}}
 +
<html></div></html>
 +
<html><div id="CellsLB" class="tab"></html>
 +
{{Tuebingen/MultiContent|
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Cell Culture Labbook|url=https://2018.igem.org/File:T--Tuebingen--LabbookCellculture.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Labbook: Cell Culture
 +
}}
 +
}}
 +
<html></div></html>
 +
<html><div id="ChemistryLB" class="tab"></html>
 +
{{Tuebingen/MultiContent|
 +
{{Tuebingen/Half|
 +
{{Tuebingen/Link|text=Organic Chemistry Labbook |url=https://static.igem.org/mediawiki/2018/4/40/T--Tuebingen--Chemistry_Labbook.pdf}}
 +
}}
 +
{{Tuebingen/Half|
 +
Labbook: Organic synthesis
 +
}}
 +
}}
 +
 +
 +
<html></div></html>
 +
<html></div><!-- closes the tabContent --></html>
 
{{Tuebingen/SectionEnd}}
 
{{Tuebingen/SectionEnd}}
 +
 +
 
{{Tuebingen/SectionStart|id=Interlab|title=Interlab}}
 
{{Tuebingen/SectionStart|id=Interlab|title=Interlab}}
 +
 +
{{Tuebingen/SingleContent|
 +
In this year, our team again decided to participate in the fifth international iGEM InterLab study, which aims to identify and correct the sources of systematic variability in synthetic biology measurements. The overall goal is that eventually, measurements taken in different labs will not underly the problems of variability due to different measurement environments or devices anymore, but will be reliable and comparable for all members of the science community.
 +
}}
 +
 +
{{Tuebingen/SingleContent|
 +
The main question the InterLab Study 2018 tackeled was:
 +
}}
 +
 +
{{Tuebingen/PlainSubHeading|Can we reduce lab-to-lab variability in fluorescence measurements by normalizing to absolute cell count or colony-forming units (CFUs) instead of OD?}}
 +
 +
{{Tuebingen/SingleContent|
 +
If you are interested to read more about our InterLab study results, click here:}}
 +
{{Tuebingen/SingleContent|{{Tuebingen/ReadMoreButton|url=https://2018.igem.org/Team:Tuebingen/InterLab|text=InterLab Study}}}}
 +
 +
{{Tuebingen/SingleContent|
 +
{{Tuebingen/Image|url=https://static.igem.org/mediawiki/2018/8/87/T--Tuebingen--Interlab_Connection.jpg|description=Dies ist ein eine Beschreibung}}
 +
}}
 +
 
{{Tuebingen/SectionEnd}}
 
{{Tuebingen/SectionEnd}}
 
{{Tuebingen/Footer|}}
 
{{Tuebingen/Footer|}}

Latest revision as of 03:12, 18 October 2018

Labwork

Everybody's a mad scientist, and life is their lab. We're all trying to experiment to find a way to live, to solve problems, to fend off madness and chaos.- David Cronenberg
Title image
Introduction

BoNT C - Liscense to enter

As stated, we modified botulinum toxin in a way that lead to its detoxification. This, as well as the coupling of our detoxified BoNT C to other substances were the main aspects of our lab work, next to our special cell culture to test our library on neuron-like cells. The whole process we went through and the different methods we used to achieve our goals are described below.
An other important part of every iGEM year is the InterLab Study, which is one of the Bronze-Medal Criteria.
If you are intersted in our Bioinformatic part: BioInfo


Methods
Working neatly is very important to every scientist. Because of this, here we're describing our methods. You can click any of the tabs to see what we did in each laboratory.
Electrocompetent Cells
Generating Electrocompetent Cells
Electroporation
Transformation of Cells
Mini Prep
Mini Preparation of Plasmid DNA
Maxi Prep
Maxi Preparation of Plasmid DNA
Restriction Digest and Ligation
Restriction Digest and Ligation
Expression and harvesting
Expression of the protein and harvesting of the bacterial culture
His-tag purification
His-tag protein purification
Strep-tag purification
Strep-tag protein purification
Buffer preparation
Set up buffer
Desalting samples
Desalting samples
SDS gel preservation
SDS gel preservation
Western blot
Western blot
Basic cell culture
SHSY5Y basic cell culture
Freezing and thawing
SHSY5Y freezing and thawing
Cell splitting
SHSY5y cell splitting
Differentiation
Differentiation protocol
Distillation
Explanation of distillation
Chromatographie
Explanation of chromatographie
Drying
Explanation how to dry solvents
OH to SH
Synthesis of the Thiol-Esli
SH to SS
Synthesis of the Disulfid-Esli
Azid-D
Synthesis of the Azid-Donor


Labbook
Here you can read our Labbook. It is the place, where we described everything that we did, and when. If you are interessted in our workflow, you can read everything below.
MolBio Labbook
Everything done in the MolBio Lab
Purification, expression, toxassay
Labbook: protein purification, expression and toxassay
Cell Culture Labbook
Labbook: Cell Culture
Organic Chemistry Labbook
Labbook: Organic synthesis



Interlab

In this year, our team again decided to participate in the fifth international iGEM InterLab study, which aims to identify and correct the sources of systematic variability in synthetic biology measurements. The overall goal is that eventually, measurements taken in different labs will not underly the problems of variability due to different measurement environments or devices anymore, but will be reliable and comparable for all members of the science community.

The main question the InterLab Study 2018 tackeled was:

Can we reduce lab-to-lab variability in fluorescence measurements by normalizing to absolute cell count or colony-forming units (CFUs) instead of OD?

If you are interested to read more about our InterLab study results, click here:

Dies ist ein eine Beschreibung