ArticleProceedings of the National Academy of Sciences of the United States of America2015
Revealing the density of encoded functions in a viral RNA.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
42 citing papers in PubMed, 77 citations in OpenAlex.
- Decoding sequence recognition code of nucleic acid-binding proteins of human-infecting DNA viruses.iMeta · 2026Article
- Elucidating double stranded DNA viral scaffolding protein structures through advances in cryogenic electron microscopy data processing.Current opinion in structural biology · 2025Review
- Disassembly of Virus-Like Particles and the Stabilizing Role of the Nucleic Acid Cargo.The journal of physical chemistry. B · 2025Article
- Context-dependent structure formation of hairpin motifs in bacteriophage MS2 genomic RNA.Biophysical journal · 2024Article
- Theoretical Studies on Assembly, Physical Stability, and Dynamics of Viruses.Sub-cellular biochemistry · 2024Review
- Effect of ionic strength on the assembly of simian vacuolating virus capsid protein around poly(styrene sulfonate).The European physical journal. E, Soft matter · 2023Article
- Article
- Microcompartment assembly around multicomponent fluid cargoes.The Journal of chemical physics · 2022Article
- Engineering CRISPR/Cas9 for Multiplexed Recombinant Coagulation Factor Production.International journal of molecular sciences · 2022Article
- Packaging contests between viral RNA molecules and kinetic selectivity.PLoS computational biology · 2022Article
- In vitro functional analysis of gRNA sites regulating assembly of hepatitis B virus.Communications biology · 2021Article
- The impact of local assembly rules on RNA packaging in a T = 1 satellite plant virus.PLoS computational biology · 2021Article
- Article
- Machine-learning a virus assembly fitness landscape.PloS one · 2021Article
- Assembly of infectious enteroviruses depends on multiple, conserved genomic RNA-coat protein contacts.PLoS pathogens · 2020Article
- Visualizing a viral genome with contrast variation small angle X-ray scattering.The Journal of biological chemistry · 2020Article
- Physical virology: From virus self-assembly to particle mechanics.Wiley interdisciplinary reviews. Nanomedicine and nanobiotechnology · 2020Review
- RNA-Mediated Virus Assembly: Mechanisms and Consequences for Viral Evolution and Therapy.Annual review of biophysics · 2019Review
- Investigating the Biological Relevance ofJournal of virology · 2019Article
- Nonequilibrium self-assembly dynamics of icosahedral viral capsids packaging genome or polyelectrolyte.Nature communications · 2018Article
Corrections and comments
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Authors and funding
10 authors at 6 institutions in 1 country.
Funding
Abstract
We present direct experimental evidence that assembly of a single-stranded RNA virus occurs via a packaging signal-mediated mechanism. We show that the sequences of coat protein recognition motifs within multiple, dispersed, putative RNA packaging signals, as well as their relative spacing within a genomic fragment, act collectively to influence the fidelity and yield of capsid self-assembly in vitro. These experiments confirm that the selective advantages for viral yield and encapsidation specificity, predicted from previous modeling of packaging signal-mediated assembly, are found in Nature. Regions of the genome that act as packaging signals also function in translational and transcriptional enhancement, as well as directly coding for the coat protein, highlighting the density of encoded functions within the viral RNA. Assembly and gene expression are therefore direct molecular competitors for different functional folds of the same RNA sequence. The strongest packaging signal in the test fragment, encodes a region of the coat protein that undergoes a conformational change upon contact with packaging signals. A similar phenomenon occurs in other RNA viruses for which packaging signals are known. These contacts hint at an even deeper density of encoded functions in viral RNA, which if confirmed, would have profound consequences for the evolution of this class of pathogens.
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Registered trials
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.