Functional long-range RNA–RNA interactions in positive-strand RNA viruses

Molecular crowders and cosolutes promote folding cooperativity of RNA under physiological ionic conditions

(2014) C. A. Strulson et al.   RNA

3′ Cap-Independent Translation Enhancers of Plant Viruses

(2013) Anne E. Simon et al.   Annual Review of Microbiology

Long-Range Architecture in a Viral RNA Genome

(2013) Eva J. Archer et al.   BIOCHEMISTRY

The Kissing-Loop T-Shaped Structure Translational Enhancer of Pea Enation Mosaic Virus Can Bind Simultaneously to Ribosomes and a 5' Proximal Hairpin

(2013) F. Gao et al.   JOURNAL OF VIROLOGY

Novel cis-Acting Element within the Capsid-Coding Region Enhances Flavivirus Viral-RNA Replication by Regulating Genome Cyclization

(2013) Z.-Y. Liu et al.   JOURNAL OF VIROLOGY

Differential RNA Sequence Requirement for Dengue Virus Replication in Mosquito and Mammalian Cells

(2013) S. M. Villordo et al.   JOURNAL OF VIROLOGY

Rbfox proteins regulate alternative mRNA splicing through evolutionarily conserved RNA bridges

(2013) Michael T Lovci et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

End-to-end crosstalk within the hepatitis C virus genome mediates the conformational switch of the 3′X-tail region

(2013) Cristina Romero-López et al.   NUCLEIC ACIDS RESEARCH

Structural complexity of Dengue virus untranslated regions: cis -acting RNA motifs and pseudoknot interactions modulating functionality of the viral genome

(2013) Joanna Sztuba-Solinska et al.   NUCLEIC ACIDS RESEARCH

In Vitro Secondary Structure of the Genomic RNA of Satellite Tobacco Mosaic Virus

(2013) Shreyas S. Athavale et al.   PLoS One

Unmasking the information encoded as structural motifs of viral RNA genomes: a potential antiviral target

(2013) Cristina Romero-López et al.   REVIEWS IN MEDICAL VIROLOGY

Direct evidence for RNA-RNA interactions at the 3' end of the Hepatitis C virus genome using surface plasmon resonance

(2013) W. Palau et al.   RNA

Do RNA viruses require genome cyclisation for replication?

(2013) William B. Lott et al.   TRENDS IN BIOCHEMICAL SCIENCES

Base Pairing Interaction between 5′- and 3′-UTRs Controls icaR mRNA Translation in Staphylococcus aureus

(2013) Igor Ruiz de los Mozos et al.   PLoS Genetics

Global Organization of a Positive-strand RNA Virus Genome

(2013) Baodong Wu et al.   PLoS Pathogens

Non-canonical translation in RNA viruses

(2012) A. E. Firth et al.   JOURNAL OF GENERAL VIROLOGY

A Ribosome-Binding, 3′ Translational Enhancer Has a T-Shaped Structure and Engages in a Long-Distance RNA-RNA Interaction

(2012) Feng Gao et al.   JOURNAL OF VIROLOGY

Tombusvirus Y-Shaped Translational Enhancer Forms a Complex with eIF4F and Can Be Functionally Replaced by Heterologous Translational Enhancers

(2012) Beth L. Nicholson et al.   JOURNAL OF VIROLOGY

Long-Distance RNA-RNA Interactions in the Coronavirus Genome Form High-Order Structures Promoting Discontinuous RNA Synthesis during Transcription

(2012) P. A. Mateos-Gomez et al.   JOURNAL OF VIROLOGY

The folding of the hepatitis C virus internal ribosome entry site depends on the 3′-end of the viral genome

(2012) Cristina Romero-López et al.   NUCLEIC ACIDS RESEARCH

Hepatitis C virus RNA: molecular switches mediated by long-range RNA–RNA interactions?

(2012) Sumangala Shetty et al.   NUCLEIC ACIDS RESEARCH

RNA dimerization plays a role in ribosomal frameshifting of the SARS coronavirus

(2012) Daniella Ishimaru et al.   NUCLEIC ACIDS RESEARCH

A twist in the tail: SHAPE mapping of long-range interactions and structural rearrangements of RNA elements involved in HCV replication

(2012) Andrew Tuplin et al.   NUCLEIC ACIDS RESEARCH

The 3′-Terminal Hexamer Sequence of Classical swine fever virus RNA Plays a Role in Negatively Regulating the IRES-Mediated Translation

(2012) Shih-Wei Huang et al.   PLoS One

Novel ATP-Independent RNA Annealing Activity of the Dengue Virus NS3 Helicase

(2012) Leopoldo G. Gebhard et al.   PLoS One

Core protein-mediated 5′–3′ annealing of the West Nile virus genomic RNA in vitro

(2012) Roland Ivanyi-Nagy et al.   VIRUS RESEARCH

Internal RNA Replication Elements are Prevalent in Tombusviridae

(2012) Beth L. Nicholson et al.   Frontiers in Microbiology

The functional RNA domain 5BSL3.2 within the NS5B coding sequence influences hepatitis C virus IRES-mediated translation

(2011) Cristina Romero-López et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Defining the Roles of cis-Acting RNA Elements in Tombusvirus Replicase Assembly In Vitro

(2011) K. B. Pathak et al.   JOURNAL OF VIROLOGY

Gene N Proximal and Distal RNA Motifs Regulate Coronavirus Nucleocapsid mRNA Transcription

(2011) P. A. Mateos-Gomez et al.   JOURNAL OF VIROLOGY

Subgenomic mRNA transcription in Tombusviridae

(2011) Sadaf D. Jiwan et al.   RNA Biology

Diverse roles of host RNA binding proteins in RNA virus replication

(2011) Zhenghe Li et al.   RNA Biology

The Cap-Binding Translation Initiation Factor, eIF4E, Binds a Pseudoknot in a Viral Cap-Independent Translation Element

(2011) Zhaohui Wang et al.   STRUCTURE

Subgenomic mRNA transcription in tobacco necrosis virus

(2011) Sadaf D. Jiwan et al.   VIROLOGY

A long-distance RNA–RNA interaction plays an important role in programmed −1 ribosomal frameshifting in the translation of p88 replicase protein of Red clover necrotic mosaic virus

(2011) Yuri Tajima et al.   VIROLOGY

Subgenomic messenger RNAs: Mastering regulation of (+)-strand RNA virus life cycle

(2011) Joanna Sztuba-Solińska et al.   VIROLOGY

Long-distance kissing loop interactions between a 3′ proximal Y-shaped structure and apical loops of 5′ hairpins enhance translation of Saguaro cactus virus

(2011) Maitreyi Chattopadhyay et al.   VIROLOGY

3′ Cap-independent translation enhancers of positive-strand RNA plant viruses

(2011) Beth L Nicholson et al.   Current Opinion in Virology

Multifaceted Regulation of Translational Readthrough by RNA Replication Elements in a Tombusvirus

(2011) Peter A. Cimino et al.   PLoS Pathogens

5'-3'-UTR interactions regulate p53 mRNA translation and provide a target for modulating p53 induction after DNA damage

(2010) J. Chen et al.   GENES & DEVELOPMENT

Evidence for a Premature Termination Mechanism of Subgenomic mRNA Transcription in a Carmovirus

(2010) B. Wu et al.   JOURNAL OF VIROLOGY

The 5' and 3' Downstream AUG Region Elements Are Required for Mosquito-Borne Flavivirus RNA Replication

(2010) P. Friebe et al.   JOURNAL OF VIROLOGY

Interplay of RNA Elements in the Dengue Virus 5' and 3' Ends Required for Viral RNA Replication

(2010) P. Friebe et al.   JOURNAL OF VIROLOGY

SHAPE-directed RNA secondary structure prediction

(2010) Justin T. Low et al.   METHODS

Solution structure of the cap-independent translational enhancer and ribosome-binding element in the 3' UTR of turnip crinkle virus

(2010) X. Zuo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Tombusvirus recruitment of host translational machinery via the 3' UTR

(2010) B. L. Nicholson et al.   RNA

A balance between circular and linear forms of the dengue virus genome is crucial for viral replication

(2010) S. M. Villordo et al.   RNA

Genetic analysis of West Nile virus containing a complete 3′CSI RNA deletion

(2010) Bo Zhang et al.   VIROLOGY

Structural and functional diversity of viral IRESes

(2009) Laurent Balvay et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Cis-acting RNA elements in human and animal plus-strand RNA viruses

(2009) Ying Liu et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Structure of a Viral Cap-independent Translation Element That Functions via High Affinity Binding to the eIF4E Subunit of eIF4F

(2009) Zhaohui Wang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

RNA-Based Regulation of Transcription and Translation of Aureusvirus Subgenomic mRNA1

(2009) W. Xu et al.   JOURNAL OF VIROLOGY

A long-range RNA-RNA interaction between the 5' and 3' ends of the HCV genome

(2009) C. Romero-Lopez et al.   RNA

A Discontinuous RNA Platform Mediates RNA Virus Replication: Building an Integrated Model for RNA–based Regulation of Viral Processes

(2009) Baodong Wu et al.   PLoS Pathogens

Structural Domains within the 3' Untranslated Region of Turnip Crinkle Virus

(2008) J. C. McCormack et al.   JOURNAL OF VIROLOGY

A Hepatitis C Virus cis-Acting Replication Element Forms a Long-Range RNA-RNA Interaction with Upstream RNA Sequences in NS5B

(2008) S. Diviney et al.   JOURNAL OF VIROLOGY

Higher-Order RNA Structural Requirements and Small-Molecule Induction of Tombusvirus Subgenomic mRNA Transcription

(2008) S. Wang et al.   JOURNAL OF VIROLOGY

Identification of a Coronavirus Transcription Enhancer

(2008) J. L. Moreno et al.   JOURNAL OF VIROLOGY

The 3' proximal translational enhancer of Turnip crinkle virus binds to 60S ribosomal subunits

(2008) V. A. Stupina et al.   RNA

Functional analysis of dengue virus cyclization sequences located at the 5′ and 3′UTRs

(2008) Diego E. Alvarez et al.   VIROLOGY

Terminal structures of West Nile virus genomic RNA and their interactions with viral NS5 protein

(2008) Hongping Dong et al.   VIROLOGY

Context-influenced cap-independent translation of Tombusvirus mRNAs in vitro

(2008) Beth L. Nicholson et al.   VIROLOGY

West Nile virus genome cyclization and RNA replication require two pairs of long-distance RNA interactions

(2008) Bo Zhang et al.   VIROLOGY

Genome cyclization as strategy for flavivirus RNA replication

(2008) Sergio M. Villordo et al.   VIRUS RESEARCH

Translation mechanisms involving long-distance base pairing interactions between the 5′ and 3′ non-translated regions and internal ribosomal entry are conserved for both genomic RNAs of Blackcurrant reversion nepovirus

(2007) Alexey Karetnikov et al.   VIROLOGY