Publications - Published papers
Please find below publications of our group. Currently, we list 565 papers. Some of the publications are in collaboration with the group of Sonja Prohaska and are also listed in the publication list for her individual group. Access to published papers (
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) is restricted to our local network and chosen collaborators.
If you have problems accessing electronic information, please let us know:©NOTICE: All papers are copyrighted by the authors; If you would like to use all or a portion of any paper, please contact the author.
Nematode sbRNAs: homologs of vertebrate Y RNAs
Ilenia Boria, Andreas R. Gruber, Andrea Tanzer, Stephan Bernhart, Ronny Lorenz, Michael M. Mueller, Ivo L. Hofacker, Peter F. Stadler
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Status: Published
J. Mol. Evol. 70: 346-358 (2010)
Abstract
Stem bulge RNAs (sbRNAs) are a group of small, functionally yet uncharacterized noncoding RNAs found initially
in C. elegans with a few homologous sequences postulated in C. briggsae. In this study we report on a comprehensive
homology-based survey of this ncRNA family in the phylum Nematoda, resulting in a total of 233 new sbRNA homologs.
For the majority of these hits promoter regions and transcription termination signals characteristic for pol-III transcripts
were identified. Surprisingly, sequence and structure comparison with known RNA families revealed that sbRNAs are
homologs of vertebrate Y RNAs. Most of the sbRNAs show the characteristic Ro protein binding motif, and have in
addition a region highly similar to a functionally required motif for DNA replication previously thought to be unique to
vertebrate Y RNAs. The single Y RNA that was previously described in C. elegans, however, does not show this motif,
and in general bears the hallmarks of a highly derived family member.
Keywords
sbRNA, nematodes, Y RNA, homology search, noncoding RNA