ArticleScientific reports2019
Computational discovery of hidden breaks in 28S ribosomal RNAs across eukaryotes and consequences for RNA Integrity Numbers.
Article in Scientific reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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26 citing papers in PubMed, 53 citations in OpenAlex.
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- Simple protocol for combined extraction of exocrine secretions and RNA in small arthropods.Biology methods & protocols · 2024Article
- Cephalopod-omics: Emerging Fields and Technologies in Cephalopod Biology.Integrative and comparative biology · 2023Article
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- De novo genome assembly and genome skims reveal LTRs dominate the genome of a limestone endemic Mountainsnail (Oreohelix idahoensis).BMC genomics · 2022Article
- MicroRNAs are deeply linked to the emergence of the complex octopus brain.Science advances · 2022Article
- De novo transcriptome reconstruction in aquacultured early life stages of the cephalopod Octopus vulgaris.Scientific data · 2022Article
- Exploring LSU and ITS rDNA Sequences forMicroorganisms · 2022Article
- Typical structure of rRNA coding genes in diplonemids points to two independent origins of the bizarre rDNA structures of euglenozoans.BMC ecology and evolution · 2022Article
- Non-Coding RNAs and Oral Cancer: Small Molecules With Big Functions.Frontiers in oncology · 2022Review
- Bioinformatic Tools for the Analysis and Prediction of ncRNA Interactions.International journal of molecular sciences · 2021Review
- Sticky problems: extraction of nucleic acids from molluscs.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2021Article
- ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics.Genome biology · 2021Article
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In some eukaryotes, a 'hidden break' has been described in which the 28S ribosomal RNA molecule is cleaved into two subparts. The break is common in protostome animals (arthropods, molluscs, annelids etc.), but a break has also been reported in some vertebrates and non-metazoan eukaryotes. We present a new computational approach to determine the presence of the hidden break in 28S rRNAs using mapping of RNA-Seq data. We find a homologous break is present across protostomes although it has been lost in a small number of taxa. We show that rare breaks in vertebrate 28S rRNAs are not homologous to the protostome break. A break is found in just 4 out of 331 species of non-animal eukaryotes studied and, in three of these, the break is located in the same position as the protostome break suggesting a striking instance of convergent evolution. RNA Integrity Numbers (RIN) rely on intact 28S rRNA and will be consistently underestimated in the great majority of animal species with a break.
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