The coronavirus proofreading exoribonuclease mediates extensive viral recombination

Genomic characterization of the 2019 novel human-pathogenic coronavirus isolated from a patient with atypical pneumonia after visiting Wuhan

(2020) Jasper Fuk-Woo Chan et al.   Emerging Microbes & Infections

The Architecture of SARS-CoV-2 Transcriptome

(2020) Dongwan Kim et al.   CELL

Fitness barriers limit reversion of a proofreading-deficient coronavirus

(2019) Kevin W. Graepel et al.   JOURNAL OF VIROLOGY

Structure of the SARS-CoV nsp12 polymerase bound to nsp7 and nsp8 co-factors

(2019) Robert N. Kirchdoerfer et al.   Nature Communications

Small-Molecule Antiviral β-D-N4-Hydroxycytidine Inhibits a Proofreading-Intact Coronavirus with a High Genetic Barrier to Resistance

(2019) Maria L. Agostini et al.   JOURNAL OF VIROLOGY

Minimap2: pairwise alignment for nucleotide sequences

(2018) Heng Li   BIOINFORMATICS

NanoPack: visualizing and processing long-read sequencing data

(2018) Wouter De Coster et al.   BIOINFORMATICS

Molecular characteristic and pathogenicity analysis of a virulent recombinant avain infectious bronchitis virus isolated in China

(2018) K Y Feng et al.   POULTRY SCIENCE

Coronavirus Susceptibility to the Antiviral Remdesivir (GS-5734) Is Mediated by the Viral Polymerase and the Proofreading Exoribonuclease

(2018) Maria L. Agostini et al.   mBio

A Survey of Virus Recombination Uncovers Canonical Features of Artificial Chimeras Generated During Deep Sequencing Library Preparation

(2018) Jean Peccoud et al.   G3-Genes Genomes Genetics

Predicting Intraserotypic Recombination in Enterovirus 71

(2018) Andrew Woodman et al.   JOURNAL OF VIROLOGY

Structural and molecular basis of mismatch correction and ribavirin excision from coronavirus RNA

(2017) François Ferron et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Two novel porcine epidemic diarrhea virus (PEDV) recombinants from a natural recombinant and distinct subtypes of PEDV variants

(2017) Nanhua Chen et al.   VIRUS RESEARCH

Further Evidence for Bats as the Evolutionary Source of Middle East Respiratory Syndrome Coronavirus

(2017) S. J. Anthony et al.   mBio

Reduced accumulation of defective viral genomes contributes to severe outcome in influenza virus infected patients

(2017) Jasmina Vasilijevic et al.   PLoS Pathogens

Parallel ClickSeq and Nanopore sequencing elucidates the rapid evolution of defective-interfering RNAs in Flock House virus

(2017) Elizabeth Jaworski et al.   PLoS Pathogens

Poliovirus Polymerase Leu420 Facilitates RNA Recombination and Ribavirin Resistance

(2016) Brian J. Kempf et al.   JOURNAL OF VIROLOGY

High-Resolution Analysis of Coronavirus Gene Expression by RNA Sequencing and Ribosome Profiling

(2016) Nerea Irigoyen et al.   PLoS Pathogens

Low-Fidelity Polymerases of Alphaviruses Recombine at Higher Rates To Overproduce Defective Interfering Particles

(2015) Enzo Z. Poirier et al.   JOURNAL OF VIROLOGY

Severe Acute Respiratory Syndrome (SARS) Coronavirus ORF8 Protein Is Acquired from SARS-Related Coronavirus from Greater Horseshoe Bats through Recombination

(2015) Susanna K. P. Lau et al.   JOURNAL OF VIROLOGY

Structural basis and functional analysis of the SARS coronavirus nsp14–nsp10 complex

(2015) Yuanyuan Ma et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Continuous and Discontinuous RNA Synthesis in Coronaviruses

(2015) Isabel Sola et al.   Annual Review of Virology

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Structure-Function Relationships Underlying the Replication Fidelity of Viral RNA-Dependent RNA Polymerases

(2014) Grace Campagnola et al.   JOURNAL OF VIROLOGY

Attenuation and Restoration of Severe Acute Respiratory Syndrome Coronavirus Mutant Lacking 2'-O-Methyltransferase Activity

(2014) V. D. Menachery et al.   JOURNAL OF VIROLOGY

One severe acute respiratory syndrome coronavirus protein complex integrates processive RNA polymerase and exonuclease activities

(2014) Lorenzo Subissi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Thinking Outside the Triangle: Replication Fidelity of the Largest RNA Viruses

(2014) Everett Clinton Smith et al.   Annual Review of Virology

Discovery of functional genomic motifs in viruses with ViReMa–a Virus Recombination Mapper–for analysis of next-generation sequencing data

(2013) Andrew Routh et al.   NUCLEIC ACIDS RESEARCH

Reverse genetics with a full-length infectious cDNA of the Middle East respiratory syndrome coronavirus

(2013) T. Scobey et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Coronaviruses as DNA Wannabes: A New Model for the Regulation of RNA Virus Replication Fidelity

(2013) Everett Clinton Smith et al.   PLoS Pathogens

Coronaviruses Lacking Exoribonuclease Activity Are Susceptible to Lethal Mutagenesis: Evidence for Proofreading and Potential Therapeutics

(2013) Everett Clinton Smith et al.   PLoS Pathogens

A live, impaired-fidelity coronavirus vaccine protects in an aged, immunocompromised mouse model of lethal disease

(2012) Rachel L Graham et al.   NATURE MEDICINE

Genomic Characterization of a Newly Discovered Coronavirus Associated with Acute Respiratory Distress Syndrome in Humans

(2012) S. van Boheemen et al.   mBio

Structure and Functional Relevance of a Transcription-Regulating Sequence Involved in Coronavirus Discontinuous RNA Synthesis

(2011) D. Dufour et al.   JOURNAL OF VIROLOGY

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

Subgenomic messenger RNA amplification in coronaviruses

(2010) H.-Y. Wu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Infidelity of SARS-CoV Nsp14-Exonuclease Mutant Virus Replication Is Revealed by Complete Genome Sequencing

(2010) Lance D. Eckerle et al.   PLoS Pathogens

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

The 3'-to-5' Exonuclease Activity of Vaccinia Virus DNA Polymerase Is Essential and Plays a Role in Promoting Virus Genetic Recombination

(2009) D. B. Gammon et al.   JOURNAL OF VIROLOGY