Home LiteratureArticle Details
PMID: 11387227 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

RNomics: an experimental approach that identifies 201 candidates for novel, small, non-messenger RNAs in mouse.

The EMBO journal ·Vol. 20 ·No. 11 ·2001-06-01 ·Pages 2943-53

Hüttenhofer A, Kiefmann M, Meier-Ewert S, O'Brien J, Lehrach H, Bachellerie JP, Brosius J

Abstract

In mouse brain cDNA libraries generated from small RNA molecules we have identified a total of 201 different expressed RNA sequences potentially encoding novel small non-messenger RNA species (snmRNAs). Based on sequence and structural motifs, 113 of these RNAs can be assigned to the C/D box or H/ACA box subclass of small nucleolar RNAs (snoRNAs), known as guide RNAs for rRNA. While 30 RNAs represent mouse homologues of previously identified human C/D or H/ACA snoRNAs, 83 correspond to entirely novel snoRNAS: Among these, for the first time, we identified four C/D box snoRNAs and four H/ACA box snoRNAs predicted to direct modifications within U2, U4 or U6 small nuclear RNAs (snRNAs). Furthermore, 25 snoRNAs from either class lacked antisense elements for rRNAs or snRNAS: Therefore, additional snoRNA targets have to be considered. Surprisingly, six C/D box snoRNAs and one H/ACA box snoRNA were expressed exclusively in brain. Of the 88 RNAs not belonging to either snoRNA subclass, at least 26 are probably derived from truncated heterogeneous nuclear RNAs (hnRNAs) or mRNAS: Short interspersed repetitive elements (SINEs) are located on five RNA sequences and may represent rare examples of transcribed SINES: The remaining RNA species could not as yet be assigned either to any snmRNA class or to a part of a larger hnRNA/mRNA. It is likely that at least some of the latter will represent novel, unclassified snmRNAS:

MeSH Terms
Animals Base Pairing Base Sequence Brain/metabolism DNA, Complementary Databases as Topic Gene Library Genetic Techniques Humans Mice/genetics Molecular Sequence Data Nucleic Acid Conformation RNA/chemistry,genetics RNA, Ribosomal/chemistry,genetics RNA, Small Nucleolar/chemistry,genetics Rats
Chemicals
DNA, Complementary RNA, Ribosomal RNA, Small Nucleolar RNA
Authors & Affiliations
7 authors, click to expand affiliations / ORCID
Hüttenhofer A
Institute of Experimental Pathology/Molecular Neurobiology, ZMBE, 48149 Münster, Max-Planck-Institute of Molecular Genetics, 14195 Berlin-Dahlem, Germany. huttenh@uni-muenster.de
Kiefmann M
Meier-Ewert S
O'Brien J
Lehrach H
Bachellerie J P
Brosius J
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Article Info
Journal
The EMBO journal
Abbr.
EMBO J
ISSN
0261-4189
DOI
10.1093/emboj/20.11.2943
Email
huttenh@uni-muenster.de
Published
2001-06-01
Pages
2943-53
Language
English
Region
England
NLM ID
8208664
PMCID
PMC125495
Subset
IM
Databases
GENBANK
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External Links
PubMed source DOI: 10.1093/emboj/20.11.2943 PMC Full Text View journal details
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