Team:Stockholm/11 October 2010

From 2010.igem.org

(Difference between revisions)
(→Andreas)
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**3 μl ligation mix
**3 μl ligation mix
**30 min incubation on ice
**30 min incubation on ice
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== Mimmi ==
 +
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=== SOD activity assay ===
 +
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*Nondenaturing gel electrophoresis
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**Staining with NBT
 +
 +
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*SOD activity test with enzyme producing O<sub>2</sub><sup>-</sup>
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**mix 750µl culture with 600µl ice cold ethanol:chloroform (5:3)
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**vortex 20s, incubate 3min, vortex again 20s
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**centrifuge at 2500g for 45min in 4&deg;C
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**keep supernatant on ice
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{|
 +
! mix
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|
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|-
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| supernatant
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| rowspan="6" |
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*Measure A<sub>546</sub> for 10min at 25&deg;C
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*xanthine oxidase activity ajusted to increase in A<sub>546</sub> 0.1 U/min
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|-
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| phosphate buffer 50mM
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|-
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| EDTA 5mM
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|-
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| bovine serum albumin 40mg/l
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|-
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| NBT 0.2g/l
 +
|-
 +
| xanthine + oxidase 0.1mM
 +
|}
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 +
 +
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*SOD activity test with illumination
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 +
{|
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! mix
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|
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|
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|-
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| riboflavin
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| 1.17*10<sup>-6</sup>M
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| rowspan="8" |
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*Illuminate so the absorbance increases with 0.142U/6min
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*A<sub>560</sub> linear increase with time
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|-
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| methionine
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| 0.01M
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|-
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| sodium cyanide
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| 2*10<sup>-5</sup>M
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|-
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| NBT
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| 5.6*10<sup>-5</sup>M
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|-
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| potassium phosphate
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| 0.05M
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|-
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| align="center" | pH=7.8
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|
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|-
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| SOD
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| 20-260ng/ml
 +
|-
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|
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| tot 3.0ml
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|}

Revision as of 23:34, 25 October 2010

Home Project Idea Lab Work Results Modelling Team       Follow us on and        2010.igem.org

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Contents

Nina

Continuation of protein purification

I got help with the plugged drop column and got the fractions I needed of the lysis, wash and elution buffers.

These samples of 0.5 ml were stored in a freezer for running on an SDS gel.

Andreas

Removal of insertion in BioBrick suffixes

Plasmid prep

From 8/10 stored pellet

  • 50 μl elution buffer.
DNA concentration
Sample Conc [ng/μl] A260/A280
pSB1C3.SOD 163.1 1.94

Digestion

  pSB1C3.
SOD
10X FastDigest buffer 2
DNA (1 μg) 12.3
dH2O 3.7
FD EcoRI 1
FD SpeI 1
  20 μl
  • Incubation: 37 °C, 30 min

Gel verification

Gel verification of pSB1C3.SOD digested with EcoRI and SpeI.
3 μl λ; 3 μl sample.
λ = O'GeneRuler 1 kb DNA ladder

1 % agarose, 140 V

Expected bands

  • Vector: 2175 bp
  • Insert: 495 bp

Results
Band slightly larger than expected, but this may also be due to bound restriction enzymes and/or other disturbances. Proceeded to gel extraction.

Gel extraction

Digested pSB1C3.SOD separated on 1 % agarose gel at 110 V, 17 μl sample volume. SOD band extracted and DNA, as well as DNA from samples stored in -20 °C 7/10, were purified using the E.Z.N.A. Gel Extraction kit.

DNA measurements extremely low, but proceeded to ligation/cloning anyway.

Ligation

  pSB1C3.
IgGp 		pSB1C3.
bGFG 		pSB1C3.
ProtA 		pSB1C3.
yCCS 		pSB1C3.
SOD
10X T4 Ligase buffer 2 2 2 2 2
Vector DNA 3 3 3 3 3
Insert DNA 14 14 14 14 14
dH2O 0 0 0 0 0
T4 DNA ligase 1 1 1 1 1
  20 μl 20 μl 20 μl 20 μl 20 μl
  • Incubation: 22 °C, 15 min

Transformation

  • Mod. quick transformation
    • Top10
    • 3 μl ligation mix
    • 30 min incubation on ice



Mimmi

SOD activity assay

  • Nondenaturing gel electrophoresis
    • Staining with NBT


  • SOD activity test with enzyme producing O2-
    • mix 750µl culture with 600µl ice cold ethanol:chloroform (5:3)
    • vortex 20s, incubate 3min, vortex again 20s
    • centrifuge at 2500g for 45min in 4°C
    • keep supernatant on ice
mix
supernatant
  • Measure A546 for 10min at 25°C


  • xanthine oxidase activity ajusted to increase in A546 0.1 U/min
phosphate buffer 50mM
EDTA 5mM
bovine serum albumin 40mg/l
NBT 0.2g/l
xanthine + oxidase 0.1mM



  • SOD activity test with illumination
mix
riboflavin 1.17*10-6M
  • Illuminate so the absorbance increases with 0.142U/6min
  • A560 linear increase with time
methionine 0.01M
sodium cyanide 2*10-5M
NBT 5.6*10-5M
potassium phosphate 0.05M
pH=7.8
SOD 20-260ng/ml
tot 3.0ml
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