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MBE Advance Access originally published online on September 4, 2009
Molecular Biology and Evolution 2009 26(12):2821-2830; doi:10.1093/molbev/msp198
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© The Author 2009. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. All rights reserved. For permissions, please e-mail: journals.permissions@oxfordjournals.org

Research Articles

Evolution of 7SK RNA and Its Protein Partners in Metazoa

Manja Marz*,1, Alexander Donath*,1, Nina Verstraete{dagger}, Van Trung Nguyen{dagger}, Peter F. Stadler*,{ddagger},§,||,¶ and Olivier Bensaude{dagger}

* Bioinformatics Group, Department of Computer Science, and Interdisciplinary Center for Bioinformatics, University of Leipzig, Leipzig, Germany
{dagger} CNRS UMR 8541 Ecole Normale Superieure, Paris, France
{ddagger} Max-Planck Institute for Mathematics in the Sciences, Leipzig, Germany
§ Fraunhofer Institut für Zelltherapie und Immunologie (IZI), Leipzig, Germany
|| Department of Theoretical Chemistry, University of Vienna, Wien, Austria
Santa Fe Institute, Santa Fe, New Mexico

E-mail: manja{at}bioinf.uni-leipzig.de.

Accepted for publication August 23, 2009.

7SK RNA is a key player in the regulation of polymerase II transcription. 7SK RNA was considered as a highly conserved vertebrate innovation. The discovery of poorly conserved homologs in several insects and lophotrochozoans, however, implies a much earlier evolutionary origin. The mechanism of 7SK function requires interaction with the proteins HEXIM and La-related protein 7. Here, we present a comprehensive computational analysis of these two proteins in metazoa, and we extend the collection of 7SK RNAs by several additional candidates. In particular, we describe 7SK homologs in Caenorhabditis species. Furthermore, we derive an improved secondary structure model of 7SK RNA, which shows that the structure is quite well-conserved across animal phyla despite the extreme divergence at sequence level.

Key Words: 7SK RNA • HEXIM • LARP7 • MePCE • polymerase III transcription • noncoding RNA • secondary structure

1 These authors contributed equally.


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