Team:NTNU Trondheim/Protocols

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Revision as of 08:02, 13 July 2012

Protocols

This is a list of recipes and protocols used by the team.

1 Transformation
2 Inoculation after transformation
3 DNA Isolation
4 DNA Concentration measurements
5 Restriction digest
6 Ligation

Transformation

Official iGEM transformation protocol: http://partsregistry.org/Help:Protocols/Transformation

We use this protocol with the following modifications:

45 s heat shock in stead of 60 s.
LB medium in stead of SOC.

The cells used are [http://products.invitrogen.com/ivgn/product/18265017 Subcloning Efficiency™ DH5α™ Competent Cells] from Life Technologies/Invitrogen

Inoculation after transformation

Using a sterile toothpick, pick/scratch a single colony from the transformants. Drop the toothpick into a plastic tube with 3 mL sterile liquid medium with the appropriate antibiotic(s). Close the tube but leave the cap slightly open to allow oxygen to enter, and incuate at 37 C with shaking.

DNA Isolation

We use the Promega Wizard Plus SV Minipreps DNA Purification System A1460 with the sentrifugation version of the [http://www.promega.com/~/media/files/resources/protocols/technical%20bulletins/0/wizard%20plus%20sv%20minipreps%20dna%20purification%20system%20protocol.pdf?la=en protocol] supplied by the vendor.

DNA Concentration measurements

Concentrations of DNA after isolation was measured with the [http://www.nanodrop.com/library/nd-1000-v3.7-users-manual-8.5x11.pdf NanoDrop ND-1000 Spectrophotometer].

Restriction digest

We are using the single reaction protocol from partsregistry.org : [http://partsregistry.org/Help:Protocols/Restriction_Digest]

250 ng of DNA is added together with the appropriate amount of dH2O, for a total volume of 16 uL.
Add 2,5 uL of NED-buffer 2
Add 0,5 uL og BSA
Add 0,5 uL of Enzyme 1
Add 0,5 uL of Enzyme 2
The total volume should now be 20 uL. Mix well and spin down.
Incubate the restriction digest at 37C for 1h
Run a portion of the digest on a gel (8ul, 100ng), to check that both plasmid backbone and part length are accurate.

Ligation

Ligation protocol from partsregistry.org [http://partsregistry.org/Help:Protocols/Ligation]:

Add 11 uL of dH2O
Add 2 uL of each sample to be ligated (insert and backbone)
Add 2ul of T4 DNA Ligase Reaction Buffer
Add 1ul of T4 DNA Ligase
Mix well, and spin down
Incubate for 30min at 16C and 20min at 80C to heat kill
Use 2ul of ligation to transform into competent cells

In stead of incubating as described above, the samples are kept at 37 degrees celsius in a water bath for 60 minutes.

Retrieved from "http://2012.igem.org/Team:NTNU_Trondheim/Protocols"

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 Let the gel run for 45 min at 90 V, and if the bands are porly separated, run a little longer. Beware that if the gel runs for a very long time, the smaller bands may run out of the gel.
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 ==Gel purification==