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Non-Coding RNA 2017, 3(1), 3; doi:10.3390/ncrna3010003

Evolution of Fungal U3 snoRNAs: Structural Variation and Introns

1
Bioinformatics Group, Department Computer Science, and Interdisciplinary Center for Bioinformatics, University Leipzig, Härtelstrasse 16-18, D-04107 Leipzig, Germany
2
German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Competence Center for Scalable Data Services and Solutions, and Leipzig Research Center for Civilization Diseases, University Leipzig, D-04107 Leipzig, Germany
3
Max Planck Institute for Mathematics in the Sciences, Inselstraße 22, D-04103 Leipzig, Germany
4
Fraunhofer Institute for Cell Therapy and Immunology, Perlickstrasse 1, D-04103 Leipzig, Germany
5
Department of Theoretical Chemistry of the University of Vienna, Währingerstrasse 17, A-1090 Vienna, Austria
6
Center for RNA in Technology and Health, University of Copenhagen, Grønnegårdsvej 3, 1870 Frederiksberg C, Denmark
7
Santa Fe Institute, 1399 Hyde Park Road, Santa Fe, NM 87501, USA
8
Helmholtz Centre for Environmental Research—UFZ, Young Investigators Group Bioinformatics and Transcriptomics Permoserstraße 15, D-04318 Leipzig, Germany
*
Author to whom correspondence should be addressed.
Academic Editor: George A. Calin
Received: 21 November 2016 / Revised: 16 December 2016 / Accepted: 23 December 2016 / Published: 5 January 2017
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Abstract

The U3 small nucleolar RNA (snoRNA) is an essential player in the initial steps of ribosomal RNA biogenesis which is ubiquitously present in Eukarya. It is exceptional among the small nucleolar RNAs in its size, the presence of multiple conserved sequence boxes, a highly conserved secondary structure core, its biogenesis as an independent gene transcribed by polymerase III, and its involvement in pre-rRNA cleavage rather than chemical modification. Fungal U3 snoRNAs share many features with their sisters from other eukaryotic kingdoms but differ from them in particular in their 5’ regions, which in fungi has a distinctive consensus structure and often harbours introns. Here we report on a comprehensive homology search and detailed analysis of the evolution of sequence and secondary structure features covering the entire kingdom Fungi. View Full-Text
Keywords: small nucleolar RNA; pre-rRNA processing; RNA secondary structure; spliceosomal introns; RNA–RNA interactions; evolution small nucleolar RNA; pre-rRNA processing; RNA secondary structure; spliceosomal introns; RNA–RNA interactions; evolution
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Canzler, S.; Stadler, P.F.; Hertel, J. Evolution of Fungal U3 snoRNAs: Structural Variation and Introns. Non-Coding RNA 2017, 3, 3.

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