NDLI: Nematode sbRNAs: Homologs of Vertebrate Y RNAs

Content Provider	Springer Nature Link
Author	Boria, Ilenia Gruber, Andreas R. Tanzer, Andrea Bernhart, Stephan H. Lorenz, Ronny Mueller, Michael M. Hofacker, Ivo L. Stadler, Peter F.
Copyright Year	2010
Abstract	Stem-bulge RNAs (sbRNAs) are a group of small, functionally yet uncharacterized noncoding RNAs first described in C. elegans, with a few homologous sequences postulated in C. briggsae. In this study, we report on a comprehensive survey of this ncRNA family in the phylum Nematoda. Employing homology search strategies based on both sequence and secondary structure models and a computational promoter screen we identified a total of 240 new sbRNA homologs. For the majority of these loci we identified both promoter regions and transcription termination signals characteristic for pol-III transcripts. 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 contain 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.
Starting Page	346
Ending Page	358
Page Count	13
File Format	PDF
ISSN	00222844
Journal	Journal of Molecular Evolution
Volume Number	70
Issue Number	4
e-ISSN	14321432
Language	English
Publisher	Springer-Verlag
Publisher Date	2010-03-27
Publisher Place	New York
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	sbRNA Nematodes Y RNA Homology search Noncoding RNA Animal Genetics and Genomics Plant Genetics & Genomics Plant Sciences Microbiology Evolutionary Biology Cell Biology
Content Type	Text
Resource Type	Article
Subject	Genetics Molecular Biology Ecology, Evolution, Behavior and Systematics

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