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Genomic DNA electrophoresis? - (Nov/11/2010 )

I have an extract that has a bunch of different genome sizes (10kb - 3Mb). I'm trying to get at the genomes that are less than ~200kb and I'm thinking I can do this on a standard agarose gel (would rather avoid PFGE is possible).

Anyone know if I can get a separation of something like above 200kb and below 200kb on a gel? Any thoughts on what agarose (type and concentration) and voltage would work?

Also any insight of other ways to separate out genomes based on size would help too.



This isn't going to work. Agarose gels don't separate above about 20Kb or so, regardless of concentration. Field inversion gels (FIGE) would do this job easily.