How about some sort of molecular breeding/sexual PCR? Are there regions
of sufficient base pair identity that you could make internal primers to
create a library of recombinants? Then maybe do some RFLP analysis of
two-hybrid positives before plunging into the sequencing to reduce
redundancy?
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Lou Hom >K'93
lhom at ocf.berkeley.eduhttp://www.ocf.berkeley.edu/~lhom/