ArticlePLoS computational biology2012
Comparative analysis of RNA families reveals distinct repertoires for each domain of life.
Article in PLoS computational biology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 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
35 citing papers in PubMed, 63 citations in OpenAlex.
- Universal paralogs provide a window into evolution before the last universal common ancestor.Cell genomics · 2026Review
- The Last Universal Common Ancestor of Ribosome-Encoding Organisms: Portrait of LUCA.Journal of molecular evolution · 2024Review
- RNA cis-regulators are important for Streptococcus pneumoniae in vivo success.PLoS genetics · 2024Article
- Electron transport chains as a window into the earliest stages of evolution.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- A consensus view of the proteome of the last universal common ancestor.Ecology and evolution · 2022Article
- Diversity and prevalence of ANTAR RNAs across actinobacteria.BMC microbiology · 2021Article
- The very early evolution of protein translocation across membranes.PLoS computational biology · 2021Article
- Regulatory context drives conservation of glycine riboswitch aptamers.PLoS computational biology · 2019Article
- Origin, Evolution, and Loss of Bacterial Small RNAs.Microbiology spectrum · 2018Review
- rRNA Mimicry in RNA Regulation of Gene Expression.Microbiology spectrum · 2018Review
- Environmental Adaptation from the Origin of Life to the Last Universal Common Ancestor.Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life · 2018Article
- Analysis of the genome of the New Zealand giant collembolan (Holacanthella duospinosa) sheds light on hexapod evolution.BMC genomics · 2017Article
- Emergence of New sRNAs in Enteric Bacteria is Associated with Low Expression and Rapid Evolution.Journal of molecular evolution · 2017Article
- Piecemeal Buildup of the Genetic Code, Ribosomes, and Genomes from Primordial tRNA Building Blocks.Life (Basel, Switzerland) · 2016Article
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- Loss of Conserved Noncoding RNAs in Genomes of Bacterial Endosymbionts.Genome biology and evolution · 2016Article
- Does the Ribosome Challenge our Understanding of the RNA World?Journal of molecular evolution · 2016Article
- In silico ribozyme evolution in a metabolically coupled RNA population.Biology direct · 2015Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 2 countries.
Funding
Abstract
The RNA world hypothesis, that RNA genomes and catalysts preceded DNA genomes and genetically-encoded protein catalysts, has been central to models for the early evolution of life on Earth. A key part of such models is continuity between the earliest stages in the evolution of life and the RNA repertoires of extant lineages. Some assessments seem consistent with a diverse RNA world, yet direct continuity between modern RNAs and an RNA world has not been demonstrated for the majority of RNA families, and, anecdotally, many RNA functions appear restricted in their distribution. Despite much discussion of the possible antiquity of RNA families, no systematic analyses of RNA family distribution have been performed. To chart the broad evolutionary history of known RNA families, we performed comparative genomic analysis of over 3 million RNA annotations spanning 1446 families from the Rfam 10 database. We report that 99% of known RNA families are restricted to a single domain of life, revealing discrete repertoires for each domain. For the 1% of RNA families/clans present in more than one domain, over half show evidence of horizontal gene transfer (HGT), and the rest show a vertical trace, indicating the presence of a complex protein synthesis machinery in the Last Universal Common Ancestor (LUCA) and consistent with the evolutionary history of the most ancient protein-coding genes. However, with limited interdomain transfer and few RNA families exhibiting demonstrable antiquity as predicted under RNA world continuity, our results indicate that the majority of modern cellular RNA repertoires have primarily evolved in a domain-specific manner.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.