ArticleNucleic acids research2007
Evolutionary rates vary among rRNA structural elements.
Article in Nucleic acids research, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
38 citing papers in PubMed, 111 citations in OpenAlex.
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- Automatic generation of pseudoknotted RNAs taxonomy.BMC bioinformatics · 2023Article
- Macroevolutionary patterns in intragenomic rDNA variability among planktonic foraminifera.PeerJ · 2023Article
- Phylogenies of the 16S rRNA gene and its hypervariable regions lack concordance with core genome phylogenies.Microbiome · 2022Article
- The Structural Determinants of Intra-Protein Compensatory Substitutions.Molecular biology and evolution · 2022Article
- Template switching in DNA replication can create and maintain RNA hairpins.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- The complete mitochondrial genome sequences ofMitochondrial DNA. Part B, Resources · 2020Article
- The Agropyron cristatum karyotype, chromosome structure and cross-genome homoeology as revealed by fluorescence in situ hybridization with tandem repeats and wheat single-gene probes.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2018Article
- Translation: The Universal Structural Core of Life.Molecular biology and evolution · 2018Article
- Size-variable zone in V3 region of 16S rRNA.RNA biology · 2017Article
- Direct 16S rRNA-seq from bacterial communities: a PCR-independent approach to simultaneously assess microbial diversity and functional activity potential of each taxon.Scientific reports · 2016Article
- Pseudoknots in RNA folding landscapes.Bioinformatics (Oxford, England) · 2016Article
- De Novo Transcriptome Analysis of Medicinally Important Plantago ovata Using RNA-Seq.PloS one · 2016Article
- Basin Hopping Graph: a computational framework to characterize RNA folding landscapes.Bioinformatics (Oxford, England) · 2014Article
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Understanding patterns of rRNA evolution is critical for a number of fields, including structure prediction and phylogeny. The standard model of RNA evolution is that compensatory mutations in stems make up the bulk of the changes between homologous sequences, while unpaired regions are relatively homogeneous. We show that considerable heterogeneity exists in the relative rates of evolution of different secondary structure categories (stems, loops, bulges, etc.) within the rRNA, and that in eukaryotes, loops actually evolve much faster than stems. Both rates of evolution and abundance of different structural categories vary with distance from functionally important parts of the ribosome such as the tRNA path and the peptidyl transferase center. For example, fast-evolving residues are mainly found at the surface; stems are enriched at the subunit interface, and junctions near the peptidyl transferase center. However, different secondary structure categories evolve at different rates even when these effects are accounted for. The results demonstrate that relative rates and patterns of evolution are lineage specific, suggesting that phylogenetically and structurally specific models will improve evolutionary and structural predictions.
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