Nucleic Acids Research, Vol 24, Issue 15 2857-2867, Copyright © 1996 by Oxford University Press
MA Hershkovitz and EA Zimmer
The two internal transcribed spacers (ITS1 and ITS2) of nuclear ribosomal
DNA have become commonly exploited sources of informative variation for
interspecific-/intergeneric-level phylogenetic analyses among angiosperms
and other eukaryotes. We present an alignment in which one-third to
one-half of the ITS2 sequence is alignable above the family level in
angiosperms and a phenetic analysis showing that ITS2 contains information
sufficient to diagnose lineages at several hierarchical levels. Base
compositional analysis shows that angiosperm ITS2 is inherently GC-rich,
and that the proportion of T is much more variable than that for other
bases. We propose a general model of angiosperm ITS2 secondary structure
that shows common pairing relationships for most of the conserved sequence
tracts. Variations in our secondary structure predictions for sequences
from different taxa indicate that compensatory mutation is not limited to
paired positions.
ARTICLES
Conservation patterns in angiosperm rDNA ITS2 sequences
Laboratory of Molecular Systematics, MRC534, Smithsonian Institution, Washington, DC 20560, USA.
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