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Bioinformatics Advance Access originally published online on July 6, 2009
Bioinformatics 2009 25(18):2298-2301; doi:10.1093/bioinformatics/btp419
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© The Author 2009. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

Evidence for human microRNA-offset RNAs in small RNA sequencing data

David Langenberger 1,2, Clara Bermudez-Santana 1,2,3, Jana Hertel 1,2, Steve Hoffmann 1,2, Philipp Khaitovich 4 and Peter F. Stadler 1,2,5–8,*

1Bioinformatics Group, Department of Computer Science, 2Interdisciplinary Center for Bioinformatics, University of Leipzig, Härtelstraße 16-18, D-04107 Leipzig, Germany, 3Department of Biology, Universidad Nacional de Colombia, Carrera 45 No 26-85 -Edificio Uriel Gutierrez, Bogotá, D.C., Colombia, 4CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, 320 Yue Yang Road, 200031 Shanghai, China, 5Max Planck Institute for Mathematics in the Sciences, Inselstraße 22, 6RNomics Group, Fraunhofer Institut for Cell Therapy and Immunology, Perlickstraße 1,D-04103 Leipzig, Germany, 7Institute for Theoretical Chemistry, University of Vienna, Währingerstraße 17, A-1090 Vienna, Austria and 8The Santa Fe Institute, 1399 Hyde Park Rd., Santa Fe, NM, USA

*To whom correspondence should be addressed.


  Abstract

MicroRNA-offset-RNAs (moRNAs) were recently detected as highly abundant class of small RNAs in a basal chordate. Using short read sequencing data, we show here that moRNAs are also produced from human microRNA precursors, albeit at quite low expression levels. The expression levels of moRNAs are unrelated to those of the associated microRNAs. Surprisingly, microRNA precursors that also show moRNAs are typically evolutionarily old, comprising more than half of the microRNA families that were present in early Bilateria, while evidence for moRNAs was found only for a relative small fraction of microRNA families of recent origin.

Contact: studla{at}bioinf.uni-leipzig.de

Supplementary information: Supplementary data are available at Bioinformatics online and in machine-readable form at http://www.bioinf.uni-leipzig.de/Publications/SUPPLEMENTS/09-015/

Associate Editor: Ivo Hofacker

Received on May 6, 2009; revised on June 25, 2009; accepted on July 1, 2009

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