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Nucleic Acids Research 2005 33(14):4485-4495; doi:10.1093/nar/gki756
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Published online 8 August 2005

© The Author 2005. Published by Oxford University Press. All rights reserved
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions{at}oupjournals.org

Article

Identification and analysis of ribonuclease P and MRP RNA in a broad range of eukaryotes

Paul Piccinelli1, Magnus Alm Rosenblad1,2 and Tore Samuelsson1,*

1Department of Medical Biochemistry, Goteborg University Box 440, SE-405 30 Göteborg, Sweden 2SWEGENE Bioinformatics, Goteborg University Box 413, SE-405 30 Goteborg, Sweden

*To whom correspondence should be addressed. Tel: +46 31 773 34 68; Fax +46 31 41 61 08; Email: tore.samuelsson{at}medkem.gu.se

Received April 20, 2005. Revised June 3, 2005. Accepted July 21, 2005.

RNases P and MRP are ribonucleoprotein complexes involved in tRNA and rRNA processing, respectively. The RNA subunits of these two enzymes are structurally related to each other and play an essential role in the enzymatic reaction. Both of the RNAs have a highly conserved helical region, P4, which is important in the catalytic reaction. We have used a bioinformatics approach based on conserved elements to computationally analyze available genomic sequences of eukaryotic organisms and have identified a large number of novel nuclear RNase P and MRP RNA genes. For MRP RNA for instance, this investigation increases the number of known sequences by a factor of three. We present secondary structure models of many of the predicted RNAs. Although all sequences are able to fold into the consensus secondary structure of P and MRP RNAs, a striking variation in size is observed, ranging from a Nosema locustae MRP RNA of 160 nt to much larger RNAs, e.g. a Plasmodium knowlesi P RNA of 696 nt. The P and MRP RNA genes appear in tandem in some protists, further emphasizing the close evolutionary relationship of these RNAs.


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