In isolating the DNA from fecal matter i use binding buffer which contains 4M guanidine Hydrochloride and 1M potassium acetate,pH 5.5.and an equal amount is added to supernatant.
I have one question, what would happen if after alkaline lysis, the potassium acetate buffer is kept for longer than 10 mins for neutralisation? Do you think, genomic DNA will also neutralise and contaminate the plasmid DNA preparation?