This is a detailed troubleshooting tip for PCR.
Why do I have non-specific bands when I run my gel?
Causes:Template concentration is inappropriate
Measures:Use appropriate template concentrations. For a 50 μl
PCR reaction recommended concentrations are:
human genomic DNA= 0.1-1 μg; E.coli genomic
DNA = 10-100ng; lphage DNA= 0.5-2.5 ng;
plasmid DNA 10-100 ng
Causes:Damaged template DNA
Measures:Minimize damage to template DNA by avoiding vortexing,
heat treatment, strong UV, shearing or ultra sonication
Causes:Denaturation time is too short
Measures:Optimize the denaturation time in increments of 5 seconds
Causes:Denaturation temperature is too low
Measures:Optimize the temperature in increments of 0.5°C
Causes:Annealing temperature is too low
Measures:Raise the temperature in increments of 2°C
Causes:Extension time is too short
Measures:Lengthen the extension time in increments of 1 minute
Causes:Cycle number is too high
Measures:Reduce the number of cycles in decrements of 2 cycles





