Negative

... nuclear extracts, performing IP against the protein (many antibodies are available) and checking DNA levels in the pull-downed material against negative (matrix protein) and positive control (like Creb) would be a good idea... But there is also DNA in the cytoplasm and I want to exclude cytoplasmic ...

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isn't the blue colony the negative one?

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... few 10's of times in the literature) although it is reported that illegitimate recombinations are more frequent in this bacteria than other gram-negative bacteria. We had been able to generate a single mutant using this method before, but we're having trouble deleting a gene within the same region ...

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... this one, I was wondering if anyone could point me in the right direction. The bacteria in question is: Circular, Raised, Entire, Dark yellow, Negative for the catalase test and Negative for the oxidase test. The only possible bacterium I can think of is Bacillus subtilis. Any other ideas? ...

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The proper way to make negative control is to set up a ligation of your digested vector with water (or TE buffer/elution buffer you are using) in place of insert DNA and use that ligation as negative control in transformation. That gives ...

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