Nucleic Acids Research, Vol 24, Issue 10 1793-1798, Copyright © 1996 by Oxford University Press
F Bussiere, D Lafontaine and JP Perreault
We have created a catalogue comprising all viroid and viroid-like RNA
sequences which to our knowledge have been either published or were
available from on-line sequence libraries as of October 1, 1995. In the
development of this catalogue nomenclature ambiguities were removed, the
likely ancestral sequence of most species was determined and the most
stable secondary structures of these sequences were predicted using the
MulFold package. Only viroids of PSTVd-type possessed a rod- like secondary
structure, while most other viroids adopted branched secondary structures.
Several viroids have predicted secondary structures that include either a Y
or cruciform structure reminiscent of the tRNA-like end of virus genomes at
an extremity. However, it remains unknown whether or not these predicted
structures are adopted in solution, and if they serve a particular function
in vivo. Additional information such as the position of the self-catalytic
domains are included in the catalogue. An analysis of the data compilated
in the catalogue is included. The catalogue will be available on the world
wide web (http://www.callistro.si. usherb.ca/~jpperra), on computer disk
and in printed form. It should provide an excellent reference point for
further studies.
ARTICLES
Compilation and analysis of viroid and viroid-like RNA sequences
Departement de Biochimie, Faculte de Medecine, Universite de Sherbrooke, Quebec, Canada.
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