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Why am I having trouble isolating any plasmid DNA from my clone?
This could be a few things:
1. Bad antibiotic - check to see if bacteria that don't harbor the same resistance will grow/not grow in the media or on the plate.
2. Something wrong with the method of DNA prep - try to prep other plasmids using the same kit/reagents. Try to prep plasmids with the same antibiotic resistance.
3. No plasmid to prep - Use a method of 'colony cracking' where you take some of the culture, pop the bacteria and run it straight on a gel without prepping for clean plasmid. This will let you know if anything is there to prep.
In general, clones should not be able to grow on a particular antibiotic if there is no plasmid expressing resistance.