Nematode sbRNAs: Homologs of Vertebrate Y RNAs View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2010-04

AUTHORS

Ilenia Boria, Andreas R. Gruber, Andrea Tanzer, Stephan H. Bernhart, Ronny Lorenz, Michael M. Mueller, Ivo L. Hofacker, Peter F. Stadler

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. More... »

PAGES

346-358

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/s00239-010-9332-4

DOI

http://dx.doi.org/10.1007/s00239-010-9332-4

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1034984284

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/20349053


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