Publications by authors named "David A Matthews"

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Characterisation of the transcriptome and proteome of SARS-CoV-2 reveals a cell passage induced in-frame deletion of the furin-like cleavage site from the spike glycoprotein.
Andrew D Davidson, Maia Kavanagh Williamson, Sebastian Lewis, Deborah Shoemark, Miles W Carroll, Kate J Heesom, Maria Zambon, Joanna Ellis, Philip A Lewis, Julian A Hiscox

Genome Med· July 2020

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Discontinuous EBOV RNA synthesis events in patients with Ebola virus disease and their relationship to viral load and outcome of infection.
Xiaofeng Dong, Isabel Garcia-Dorival, Natasha Y Rickett, Andrew Bosworth, Sophie Smither, David A Matthews

J Virol· November 2025

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A direct RNA-seq-based EBV latency transcriptome offers insights into the biogenesis of EBV gene products.
Aaron Mamane-Logsdon, Isabelle Zane, June See Chong, Oscar Hou In Chou, Jiajun Huang, David A Matthews

J Gen Virol· August 2025

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A Novel Toolkit of SARS-CoV-2 Sub-Genomic Replicons for Efficient Antiviral Screening.
Maximilian Erdmann, Peter A C Wing, Isobel Webb, Maia Kavanagh Williamson, Tuksin Jearanaiwitayakul, David A Matthews

Viruses· April 2025

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Examining the feasibility of replacing ORF3a with fluorescent genes to construct SARS-CoV-2 reporter viruses.
Isobel Webb, Maximillian Erdmann, Rachel Milligan, Megan Savage, David A Matthews

J Gen Virol· February 2025

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Using minor variant genomes and machine learning to study the genome biology of SARS-CoV-2 over time.
Xiaofeng Dong, David A Matthews, Giulia Gallo, Alistair Darby, I'ah Donovan-Banfield

Nucleic Acids Res· February 2025

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Characterizing the Impact of Cyanobacterial Blooms on the Photoreactivity of Surface Waters from New York Lakes: A Combined Statewide Survey and Laboratory Investigation.
Joseph Wasswa, MaryGail Perkins, David A Matthews, Teng Zeng

Environ Sci Technol· May 2024

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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.
Jordan J Clark, Rebekah Penrice-Randal, Parul Sharma, Xiaofeng Dong, Shaun H Pennington, David A Matthews

Viruses· May 2024

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The SARS-CoV-2 protein ORF3c is a mitochondrial modulator of innate immunity.
Hazel Stewart, Yongxu Lu, Sarah O'Keefe, Anusha Valpadashi, Luis Daniel Cruz-Zaragoza, David A Matthews

iScience· November 2023

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SARS-CoV-2 NSP12 associates with TRiC and the P323L substitution acts as a host adaption.
Muhannad Alruwaili, Stuart Armstrong, Tessa Prince, Maximillian Erdmann, David A Matthews

J Virol· November 2023

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Adenovirus Transcriptome in Human Cells Infected with ChAdOx1-Vectored Candidate HIV-1 Vaccine Is Dominated by High Levels of Correctly Spliced HIVconsv1&62 Transgene RNA.
David A Matthews, Rachel Milligan, Edmund G Wee, Tomáš Hanke

Vaccines (Basel)· July 2023

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The P323L substitution in the SARS-CoV-2 polymerase (NSP12) confers a selective advantage during infection.
Hannah Goldswain, Xiaofeng Dong, Rebekah Penrice-Randal, Muhannad Alruwaili, Ghada T Shawli, David A Matthews

Genome Biol· March 2023

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Voluntary risk mitigation behaviour can reduce impact of SARS-CoV-2: a real-time modelling study of the January 2022 Omicron wave in England.
Ellen Brooks-Pollock, Kate Northstone, Lorenzo Pellis, Francesca Scarabel, Amy Thomas, David A Matthews

BMC Med· January 2023

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Direct RNA sequencing of respiratory syncytial virus infected human cells generates a detailed overview of RSV polycistronic mRNA and transcript abundance.
I'ah Donovan-Banfield, Rachel Milligan, Sophie Hall, Tianyi Gao, Eleanor Murphy, David A Matthews

PLoS One· November 2022

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Host protein kinases required for SARS-CoV-2 nucleocapsid phosphorylation and viral replication.
Tomer M Yaron, Brook E Heaton, Tyler M Levy, Jared L Johnson, Tristan X Jordan, David A Matthews

Sci Signal· October 2022

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Analysis of SARS-CoV-2 known and novel subgenomic mRNAs in cell culture, animal model, and clinical samples using LeTRS, a bioinformatic tool to identify unique sequence identifiers.
Xiaofeng Dong, Rebekah Penrice-Randal, Hannah Goldswain, Tessa Prince, Nadine Randle, David A Matthews

Gigascience· May 2022

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Nanopore ReCappable sequencing maps SARS-CoV-2 5' capping sites and provides new insights into the structure of sgRNAs.
Camilla Ugolini, Logan Mulroney, Adrien Leger, Matteo Castelli, Elena Criscuolo, David A Matthews

Nucleic Acids Res· April 2022

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Structural insights in cell-type specific evolution of intra-host diversity by SARS-CoV-2.
Kapil Gupta, Christine Toelzer, Maia Kavanagh Williamson, Deborah K Shoemark, A Sofia F Oliveira, David A Matthews

Nat Commun· January 2022

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Coupling Suspect and Nontarget Screening with Mass Balance Modeling to Characterize Organic Micropollutants in the Onondaga Lake-Three Rivers System.
Shiru Wang, MaryGail Perkins, David A Matthews, Teng Zeng

Environ Sci Technol· November 2021

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TMPRSS2 promotes SARS-CoV-2 evasion from NCOA7-mediated restriction.
Hataf Khan, Helena Winstone, Jose M Jimenez-Guardeño, Carl Graham, Katie J Doores, David A Matthews

PLoS Pathog· November 2021

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Amplicon and Metagenomic Analysis of Middle East Respiratory Syndrome (MERS) Coronavirus and the Microbiome in Patients with Severe MERS.
Waleed Aljabr, Muhannad Alruwaili, Rebekah Penrice-Randal, Abdulrahman Alrezaihi, Abbie Jasmine Harrison, David A Matthews

mSphere· August 2021

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Editorial: Host Innate Immune Responses to Infection by Avian- and Bat-Borne Viruses.
Efstathios S Giotis, David A Matthews, Jacqueline Smith

Front Cell Infect Microbiol· July 2021

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The furin cleavage site in the SARS-CoV-2 spike protein is required for transmission in ferrets.
Thomas P Peacock, Daniel H Goldhill, Jie Zhou, Laury Baillon, Rebecca Frise, David A Matthews

Nat Microbiol· July 2021

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SARS-CoV-2 vaccine ChAdOx1 nCoV-19 infection of human cell lines reveals low levels of viral backbone gene transcription alongside very high levels of SARS-CoV-2 S glycoprotein gene transcription.
Abdulaziz Almuqrin, Andrew D Davidson, Maia Kavanagh Williamson, Philip A Lewis, Kate J Heesom, David A Matthews

Genome Med· March 2021

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Analysis of an Ebola virus disease survivor whose host and viral markers were predictive of death indicates the effectiveness of medical countermeasures and supportive care.
Andrew Bosworth, Natasha Y Rickett, Xiaofeng Dong, Lisa F P Ng, Isabel García-Dorival, David A Matthews

Genome Med· January 2021

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