ArticleNucleic acids research2012
The folding of the hepatitis C virus internal ribosome entry site depends on the 3'-end of the viral genome.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed, 39 citations in OpenAlex.
- Robust Functionality and Regulation of Selectively Expressed RNA as AAV Vectors and In Vitro Transcribed Molecules.Pharmaceutics · 2025Article
- RNA levers and switches controlling viral gene expression.Trends in biochemical sciences · 2023Review
- Inter- and Intramolecular RNA-RNA Interactions Modulate the Regulation of Translation Mediated by the 3' UTR in West Nile Virus.International journal of molecular sciences · 2023Article
- The Genomic 3' UTR of Flaviviruses Is a Translation Initiation Enhancer.International journal of molecular sciences · 2022Article
- In Vitro Methods to Decipher the Structure of Viral RNA Genomes.Pharmaceuticals (Basel, Switzerland) · 2021Review
- CriTER-A: A Novel Temperature-Dependent Noncoding RNA Switch in the Telomeric Transcriptome ofInternational journal of molecular sciences · 2021Article
- Hepatitis C Virus Translation Regulation.International journal of molecular sciences · 2020Review
- The Role of the RNA-RNA Interactome in the Hepatitis C Virus Life Cycle.International journal of molecular sciences · 2020Review
- Physical and Functional Analysis of Viral RNA Genomes by SHAPE.Annual review of virology · 2019Review
- Potential of the Other Genetic Information Coded by the Viral RNA Genomes as Antiviral Target.Pharmaceuticals (Basel, Switzerland) · 2019Review
- The HCV genome domains 5BSL3.1 and 5BSL3.3 act as managers of translation.Scientific reports · 2018Article
- Roles of the 5' Untranslated Region of Nonprimate Hepacivirus in Translation Initiation and Viral Replication.Journal of virology · 2018Article
- Development of an Infectious Cell Culture System for Hepatitis C Virus Genotype 6a Clinical Isolate Using a Novel Strategy and Its Sensitivity to Direct-Acting Antivirals.Frontiers in microbiology · 2018Article
- Distinct roles for the IIId2 sub-domain in pestivirus and picornavirus internal ribosome entry sites.Nucleic acids research · 2017Article
- Nuclear Magnetic Resonance Study of RNA Structures at the 3'-End of the Hepatitis C Virus Genome.Biochemistry · 2017Article
- The chaperone-like activity of the hepatitis C virus IRES and CRE elements regulates genome dimerization.Scientific reports · 2017Article
- The 5BSL3.2 Functional RNA Domain Connects Distant Regions in the Hepatitis C Virus Genome.Frontiers in microbiology · 2017Review
- Theory Meets Experiment: Metal Ion Effects in HCV Genomic RNA Kissing Complex Formation.Frontiers in molecular biosciences · 2017Review
- The cis-acting replication element of the Hepatitis C virus genome recruits host factors that influence viral replication and translation.Scientific reports · 2016Article
- Netrin-1 Protects Hepatocytes Against Cell Death Through Sustained Translation During the Unfolded Protein Response.Cellular and molecular gastroenterology and hepatology · 2016Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Hepatitis C virus (HCV) translation initiation is directed by an internal ribosome entry site (IRES) and regulated by distant regions at the 3'-end of the viral genome. Through a combination of improved RNA chemical probing methods, SHAPE structural analysis and screening of RNA accessibility using antisense oligonucleotide microarrays, here, we show that HCV IRES folding is fine-tuned by the genomic 3'-end. The essential IRES subdomains IIIb and IIId, and domain IV, adopted a different conformation in the presence of the cis-acting replication element and/or the 3'-untranslatable region compared to that taken up in their absence. Importantly, many of the observed changes involved significant decreases in the dimethyl sulfate or N-methyl-isatoic anhydride reactivity profiles at subdomains IIIb and IIId, while domain IV appeared as a more flexible element. These observations were additionally confirmed in a replication-competent RNA molecule. Significantly, protein factors are not required for these conformational differences to be made manifest. Our results suggest that a complex, direct and long-distance RNA-RNA interaction network plays an important role in the regulation of HCV translation and replication, as well as in the switching between different steps of the viral cycle.
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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.