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locating ghost bands on RAPDs

Brad A Didion t80bad1 at CORN.CSO.NIU.EDU
Mon Apr 17 12:16:54 EST 1995

In using RAPDs for detecting bands assoc. with trait loci, we've come up 
with a scenario in which the gel band is negatively assoc with the trait 
of interest. In other words, when the band is missing (ghost) the animal 
is genotyped as positive because the trait of interest is assoc with the 
ghost band.  So, how can we identify the ghost band.  Cloning/seq the 
negative band allowed PCR but this generated the neg band size in all 
animals...even those previously genotyped as positive (ghost band). My 
hope is that you're not confused as you ponder how to identify the 
positive allele. any help is appreciated. Brad.

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