Cycle sequencing anyone?
Ed Marsden
ed.marsden at utoronto.ca
Sat Mar 22 22:51:13 EST 1997
Netters,
For the sake of simplicity, I've attempted to cycle sequence both the
commercial plasmids and my own ds isolate as opposed to using the
standard protocol (we're using the Boehringer Taq polymerase kit and DIG
detection).
Here's the scoop: After X-ray development, we cannot see ANY
bands - only background. The first x-ray was pretty dark so we cut the
exposure time in half which gave us less blackened background but still
no ladder (except mabye the wells?)
My professor and I agree that the problem may be due to the
sequencing reactions (I've followed the Boehringer protocol
religiously for all steps). I'm wondering if it would be advisable to
boost the concentrations of template, buffer, primer et al. and add more
dH2O to reduce the viscosity of the mixes? Increase the number of
cycling steps?
I don't believe that the detection protocol is awry as we do get
residual background due to the chemiluminescence (blotches on the film
due to a poor blocking job). The nylon transfer seems to be working well
also...
Any suggestions would be appreciated.
-Neil
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