Evolution of small nucleolar RNAs in nematodes
Open accessAbstract
In contrast to mRNAs, which are templates for translating proteins, non-protein coding (npc) RNAs (also known as 'non-coding' RNA, ncRNA), exhibit various functions in different compartments and developmental stages of the cell. Small nucleolar RNAs (snoRNAs), one of the largest classes of npcRNAs, guide post-transcriptional modifications of other RNAs that are crucial for appropriate RNA folding as well as for RNA-RNA and RNA-protein interactions. Although snoRNA genes comprise a significant fraction of the eutherian genome, identifying and characterizing large numbers of them is not sufficiently accessible by classical computer searches alone. Furthermore, most previous investigations of snoRNAs yielded only limited indications of their evolution. Using data obtained by a combination of high-throughput cDNA library screening and computational search strategies based on a modified DNAMAN program, we characterized 151 npcRNAs, and in particular 121 snoRNAs, from Caenorhabditis elegans and extensively compared them with those in the related, Caenorhabditis briggsae. Detailed comparisons of paralog snoRNAs in the two nematodes revealed, in addition to trans-duplication, a novel, cis-duplication distribution strategy with insertions near to the original loci. Some snoRNAs coevolved with their modification target sites, demonstrating the close interaction of complementary regions. Some target sites modified by snoRNAs were changed, added or lost, documenting a high degree of evolutionary plasticity of npcRNAs.
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The presence of structural requirements important in snoRNA function and evidence of expression are consistent with snoRTE elements being functional in platypus.
“The presence of both the structural requirements known to be important in snoRNA function 24 and evidence of their expression are consistent with these snoRTE elements being functional in the platypus.”
From Genome analysis of the platypus reveals unique signatures of evolution (2008) · cites this paper as [24]
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Genome analysis of the platypus reveals unique signatures of evolution
paper, A. L. O. A. A. T. A. A. A. T. E. O. T. (2008) · Nature · doi:10.1038/nature06936 · Cited by 719 · see citing works
Functional diversity of small nucleolar RNAs
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- Authors
- Zemann, A., op de Bekke, A., Kiefmann, M., Brosius, J., & Schmitz, J.
- Affiliations
- University of Münster (DE)
- Corresponding author
- Zemann, A.
- ORCID
- Schmitz, J.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2006-05-19
- Volume
- 34
- Issue
- 9
- Pages
- 2676-2685
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- PMC
- PMC1464110
- OpenAlex
- W2157376556
- Cited by
- 95
- References
- 42
- Citations by year
- 2025: 1 · 2024: 2 · 2023: 4 · 2022: 1 · 2021: 16 · 2020: 1 · 2019: 2 · 2018: 2 · 2017: 1 · 2016: 4 · 2015: 1 · 2014: 1 · 2013: 4 · 2012: 4
- FWCI
- 5.17
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Locations
- Nucleic Acids Research (publishedVersion)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Funders
- European Commission
- Bundesministerium für Bildung und Forschung
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA modifications and cancer
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA and protein synthesis mechanisms
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Chromosomal and Genetic Variations
- Keywords
- small nucleolar RNA, non-coding RNA, post-transcriptional RNA modification, Caenorhabditis elegans, Caenorhabditis briggsae, nematode evolution, evolutionary plasticity
- MeSH terms
- Animals, Caenorhabditis, Phylogeny, RNA, Ribosomal, Gene Library, Caenorhabditis elegans, RNA, Helminth, Evolution, Molecular, Computational Biology, Gene Duplication, RNA, Small Nucleolar, RNA, Untranslated
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