Why do i keep getting back my starting vector when i screen my colonies even though control plate has no colonies at all. How is this possible?
Can you provide more details on your experiment? what are the differences in control vs samples. As asked by Daniel M Cohen.
Please post as many details as you can. Which plasmids, bacterial strains, restriction enzymes, digest conditions, method of DNA isolation or clean-up, ligation conditions, etc.
The possible is during your ligation reaction, your empty vector was self-ligation
to avoid it you can do dephosphorylation to your vector after you cut your vector
I recommend trying the "killer cut", if it is possible: http://bitesizebio.com/10184/use-less-vector-killer-cut-for-success-in-plasmid-cloning/.
If you do not treat your plasmid DNA with alkaline phosphatase, the plasmid DNA reanneals>
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