D. A. Matthews

Recombinant SARS-CoV-2 lacking initiating and internal methionine codons within ORF10 is attenuated in vivo

This study shows that a recombinant SARS-CoV-2 virus lacking ORF10 start and internal methionine codons is attenuated in hamsters, with reduced lower respiratory tract viral titre and increased reversion to wild-type.

SARS-CoV-2 NSP12 associates with the TRiC complex and the P323L substitution is a host adaption.

The paper identifies NSP12's interaction with the TRiC complex and shows the P323L substitution enhances viral adaptation by reducing sensitivity to PP2A perturbations.

The SARS-CoV-2 protein ORF3c is a mitochondrial modulator of innate immunity

This study identifies ORF3c as a SARS-CoV-2 protein that localizes to mitochondria and inhibits IFN-β production without affecting NF-κB or JAK-STAT signaling.

Development of SARS-CoV-2 replicons for the ancestral virus and variant of concern Delta for antiviral screening.

The paper develops SARS-CoV-2 replicons for the ancestral virus and Delta variant to screen antiviral compounds, showing sensitivity to remdesivir.

Allostery in STAT3 Variant D170A is Mediated by a Rigid Core

This paper investigates the allosteric mechanism of STAT3 variant D170A, showing that the coiled-coil domain regulates SH2 domain conformation through a rigid core.

Rapid selection of P323L in the SARS-CoV-2 polymerase (NSP12) in humans and non-human primate models and confers a large plaque phenotype

The paper tracks the rapid emergence of the P323L mutation in SARS-CoV-2 polymerase in human and non-human primate models, showing it confers a larger plaque phenotype compared to P323.

Direct RNA sequencing of Respiratory Syncytial Virus infected human cells generates a detailed overview of RSV polycistronic mRNA and transcript abundance

This study uses direct RNA sequencing to analyze RSV mRNA transcripts in infected cells, revealing gene abundance patterns and polyadenylate tail lengths.

Identification and quantification of SARS-CoV-2 leader subgenomic mRNA gene junctions in nasopharyngeal samples shows phasic transcription in animal models of COVID-19 and dysregulation at later time points that can also be identified in humans

The paper identifies and quantifies SARS-CoV-2 leader-TRS-junctions in samples, showing phasic sgmRNA transcription in animal models and dysregulation in humans.

Sequential infection with influenza A virus followed by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) leads to more severe disease and encephalitis in a mouse model of COVID-19.

This study shows that sequential infection with influenza A virus followed by SARS-CoV-2 in mice leads to more severe disease and encephalitis compared to single infections.

The furin cleavage site of SARS-CoV-2 spike protein is a key determinant for transmission due to enhanced replication in airway cells.

This study shows the furin cleavage site in SARS-CoV-2 spike protein enhances replication in airway cells, contributing to transmission efficiency.

Neuropilin-1 is a host factor for SARS-CoV-2 infection

This study shows that SARS-CoV-2's S1 protein binds to NRP1 via the CendR motif, enhancing infection and identifying NRP1 as a therapeutic target.

Characterisation of the transcriptome and proteome of SARS-CoV-2 using direct RNA sequencing and tandem mass spectrometry reveals evidence for a cell passage induced in-frame deletion in the spike glycoprotein that removes the furin-like cleavage site