Analyzing Vibrio parahaemolyticus diversity
Posted 12 May 2010 - 09:48 AM
I'm working on a new project where I'm comparing species/strain diversity of the bacteria Vibrio parahemolyticus in different areas in a salt marsh and I'm looking for a method that will allow me to do this. I want to stay away from culture methods because if i want to look at the whole diversity i need to include to non-cultureable strains also. Any ideas? Thanks!
Posted 12 May 2010 - 06:58 PM
Posted 13 May 2010 - 08:29 AM
Posted 13 May 2010 - 03:44 PM
Posted 13 May 2010 - 03:57 PM
I've acutally came across a paper that analyzed the 16s-23s region for vibrio species. They mentioned in the paper that the primers they developed were vibrio specific, but when i primer-blast the primers, they hit pretty much everything. I was hoping to develop some type of DGGE protocol.
I guess it depends on what you mean by "hit pretty much everything". Sure, there will be BLAST identities with stretches of sequence from many species, but would these primers actually amplify from these species in a PCR? A single 3' base mismatch of either primer would cause the PCR to fail...