Team:University College London/LabBook/Week4

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== Wednesday (4.7.12)==

'''Aim - Transformation of Key Aggregation Module BioBricks:''' Expt 4.1 will be transforming the Curli Cluster, Green Fluorescence Protein and Ribosome Binding Site BioBricks into our W3110 competent cell line. Transformed cells will be cultured under the selective pressure of antibiotic, after which the plasmids are purified and the presence of the correct BioBricks will be diagnosed with an Analytical Restriction Enzyme Digest and Gel Electrophoresis.  

Step 1 – Thawing Cells: Use W3110 cell line created in Week 2 (Expt 2.1)
Step 3 – Addition of BioBrick: To each 2ml eppendorf, add 1ul of the following BioBricks. Include an extra tube as a control, with no BioBrick added.

'''Method'''
<html><div class="protocol protocol-Transformation">Transformation Protocol 1</div><div class="protocolContent"></html>{{:Team:University_College_London/Protocols/Transformation1}}<html></div></html>

{| class="wikitable"
|-
!  colspan="2" |   !! Function !! Module
|-
| rowspan="3" |BioBrick|| BBa_I13522  || Green Fluorescence Protein(GFP) || Aggregation
|-
| BBa_B0034  || Ribosome Binding Site (RBS)|| All
|-
| BBa_K540000  || (rcn-csg BAEFG curli cluster) || Aggregation
|-
| Control || No BioBrick|| ||
|}

Step 9 – Plating samples on Agar Plates: The table below indicates the chosen inoculation volume (two for each BioBrick) and the correct gel antibiotic concentration for all samples.


{| class="wikitable"
|-
! colspan="2" |  Samples !! Volume Inoculated !! Antibiotic in Gel (ug/ml)
|-
| rowspan="6" |BioBrick ||rowspan="2" | BBa_I13522  || 10ul || rowspan="4" | Ampicillin(50ug/ml)
|-
| 90ul 
|-
| rowspan="2" | BBa_B0034 || 10ul 
|-
| 90ul 
|-
| rowspan="2" | BBa_K540000  || 10ul || rowspan="2" | Chloramphenicol (25ug/ml)
|-
| 90ul 
|-
| rowspan="2" | Control || Positive (No BioBrick)|| 36ul || No Antibiotic
|-
| Negative (No BioBrick)|| 36ul ||  2x Ampicillin(50ug/ml)
1x Chloramphenicol (25ug/ml)
|-
|}

== Thursday (5.7.12) ==

'''Aim 1 - Check results of Transformation.''' We expect to see growth on plates with transformed BioBricks, as well as the positive control. The negative control should have no growth.

'''Results:''' The table below indicates whether or not there was growth on each plate. 

{| class="wikitable"
|-
! colspan="2" |  Samples !! Volume Inoculated !! Colony Formation
|-
| rowspan="6" |BioBrick ||rowspan="2" | BBa_I13522  || 10ul || Yes
|-
| 90ul || Yes
|-
| rowspan="2" | BBa_B0034  || 10ul || No
|-
| 90ul || No
|-
| rowspan="2" | BBa_K540000  || 10ul || Yes
|-
| 90ul || Yes
|-
| rowspan="2" | Control || Positive (No BioBrick)|| 36ul || Yes
|-
| Negative (No BioBrick)|| 36ul || Ampicillin– One blank, one contaminated
Chloramphenicol - Blank
|-
|}

'''Conclusion:''' Transformation has been successful for K540000 and I13522, but B0034 failed. Colonies for K540000 and I13522 will be picked and inoculated into LB media for overnight culture. B0034 transformation will be attempted again.

'''Method'''

<html><div class="protocol protocol-ColPic">Picking Colonies Protocol</div><div class="protocolContent"></html>{{:Team:University_College_London/Protocols/ColPic}}<html></div></html>

'''Step 2 – Inoculating Colonies into a Selective Broth:''' The table below indicates the volume of broth and the concentration of antibiotic required for each BioBrick.


{| class="wikitable"
|-
! colspan="2" |  Samples  !! Broth !! Antibiotic
|-
|rowspan="6" |Biobrick || BBa_I13522 || rowspan="6" | Lysogeny Broth (5ml) || rowspan="6" |Ampicillin(50ug/ml)
|-
| BBa_K540000 
|-
|}

== Friday (6.7.12) ==

'''Aim – Check Results from Colony Picking:''' 

'''Results:''' The table below indicates there was growth for each BioBrick.

{| class="wikitable"
|-
! colspan="2" |  Samples  !! Colony Formation
|-
|rowspan="6" |Biobrick || BBa_I13522 || Yes
|-
| BBa_K54000 || Yes
|-
|}

'''Conclusion:''' BBa_K540000 and BBa_I13522 are both ready for miniprep and restriction enzyme digest. 

'''Method'''

<html><div class="protocol protocol-Miniprep">Miniprep Protocol 1 (Qiagen)</div><div class="protocolContent"></html>{{:Team:University_College_London/Protocols/Miniprep1}}<html></div></html>

Tuesday 10.7.12 for Analytical Digest and Gel Electrophoresis


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