The rolling circle replication of the small, single-stranded
viroid RNAs requires a specific processing reaction to
produce monomeric RNAs that are ligated into the final
circular form. For avocado sunblotch viroid, peach latent
mosaic viroid, and chrysanthemum chlorotic mottle viroid,
the hammerhead self-cleavage reaction is considered to
provide this processing reaction. We have searched for
a similar type of reaction in the 246-nt coconut cadang
cadang viroid, the smallest viroid of the 24-member potato
spindle tuber viroid (PSTV) group. RNA transcripts prepared
from the cloned central or C domain of this viroid self-cleaved
specifically after denaturation with methylmercuric hydroxide
followed by incubation in the presence of spermidine but
in the absence of added magnesium ions. The unique cleavage
site was located in the bottom strand of the C domain within
a potential hairpin structure that is conserved within
members of all three subgroups of the PSTV group of viroids.