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#1 2019-07-04 07:44:50

koikkarah93
Member
Registered: 2019-07-04
Posts: 1

Issues with the Secondary PCR reaction

I have been attempting to do RF cloning method to insert a 70 bp sequence into a 6kbp vector.

The Primary PCR worked well with the required segments obtained.
The issue has been with the secondary PCR.

The procedure I used is as follows:
a. 100 ng of the vector
b. 1:20 ratio for the Insert.

I used the 2 step PCR method with an annealing temperature of 72C for 30 seconds since the portion I wanted to amplify in the Secondary PCR is nearly 1kB (70 bp from the insert and the rest from the Vector). The incubation with dpnI was done at 37C for 2 hours and then heated at 80C for 20 mins to deactivate it.

I used Mac1 one competent cells to transform the DNA. I used 2 ul of the mixture in 100 ul of competent cells.

However I could not observe any growth of colonies on the bacterial plates.

I am attempting this method for the very first time and would truly appreciate any assistance regarding my situation and if there is a mistake I have committed, please do point that out as well.

Amit

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