Open Access Week: top downloaded papers from our Publish and Read community

Posted on October 25, 2023   by Microbiology Society

This Open Access (OA) Week the theme is 'Community over Commercialisation' and we are showcasing the top read 2023 papers from our Publish and Read community: each one was published OA thanks to a Publish and Read agreement at the corresponding author’s institution.


Researchers at institutions with a Publish and Read agreement benefit from uncapped OA publishing with no article processing charges and unlimited read access to our portfolio.

Authors who publish with us will be supporting the Microbiology Society as a not-for-profit organisation. Publishing one article with us generates enough revenue to give grants to four early career members to attend our Annual Conference.

To check if your institution is part of a Publish and Read deal, please see here.

See the top 3 most downloaded Publish and Read papers in each journal, published OA in 2023 thanks to Publish and Read agreements.

Access Microbiology

Evaluation of five commercial DNA extraction kits using Salmonella as a model for implementation of rapid Nanopore sequencing in routine diagnostic laboratories

Shannon H. C. Eagle, James Robertson, D. Patrick Bastedo, Kira Liu, John H. E. Nash

Research Article


Viral infectivity in paediatric SARS-CoV-2 clinical samples does not vary by age

Madaline M. Schmidt, Hannah W. Despres, David J. Shirley, Michael E. Bose, Kate C. McCaul​, Jessica W. Crothers​, Kelly J. Henrickson​, Benjamin Lee​, Emily A. Bruce

Short Communication


Microbial communities in freshwater used for hydraulic fracturing are unable to withstand the high temperatures and pressures characteristic of fractured shales

Sophie L. Nixon, Alvaro M. Plominsky​, Natali Hernandez-Becerra, Christopher Boothman, Douglas H. Bartlett

Research Article


International Journal of Systematic and Evolutionary Microbiology

International Code of Nomenclature of Prokaryotes. Prokaryotic Code (2022 Revision)

Aharon Oren, David R. Araha​, Markus Göker​, Edward R. B. Moore​, Ramon Rossello-Mora​, Iain C. Sutcliffe

Research Article


Allobaculum mucilyticum sp. nov. and Allobaculum fili sp. nov., isolated from the human intestinal tract

Guus H. van Muijlwijk, Tyler A. Rice​, Richard A. Flavell, Noah W. Palm, Marcel R. de Zoete

Research Article


Terrisporobacter hibernicus sp. nov., isolated from bovine faeces in Northern Ireland

Molly Mitchell, Scott V. Nguyen, Mairead Connor​, Derek J. Fairley, Orla Donoghue, Helina Marshall, Leonard Koolman, Geoff McMullan, Kirsten E. Schaffer, John W. McGrath, Séamus Fanning

Research Article


Journal of General Virology

Virus taxonomy and the role of the International Committee on Taxonomy of Viruses (ICTV)

Stuart G. Siddell, Donald B. Smith, Evelien Adriaenssens, Poliane Alfenas-Zerbini, Bas E. Dutilh, Maria Laura Garcia, Sandra Junglen, Mart Krupovic, Jens H. Kuhn, Amy J. Lambert, Elliot J. Lefkowitz, Małgorzata Łobocka, Arcady R. Mushegian, Hanna M. Oksanen, David L. Robertson, Luisa Rubino, Sead Sabanadzovic, Peter Simmonds, Nobuhiro Suzuki, Koenraad Van Doorslaer, Anne-Mieke Vandamme, Arvind Varsani, F. Murilo Zerbini

Review Article


Longitudinal detection of prion shedding in nasal secretions of CWD-infected white-tailed deer

Caitlyn N. Kraft, Nathaniel D. Denkers, Candace K. Mathiason, Edward A. Hoover

Short Communication


The health of influenza surveillance and pandemic preparedness in the wake of the COVID-19 pandemic

Rodney Stuart Daniels, John William McCauley

Review Article


Journal of Medical Microbiology

The bacteriology of diabetic foot ulcers and infections and incidence of Staphylococcus aureus Small Colony Variants

James Lee, Matipaishe Mashayamombe​, Tom P. Walsh​, Beatrice K. P. Kuang​, Guilherme N. Pena, Sarah Vreugde, Clare Cooksley, Miguel Carda-Diéguez, Alex Mira, David Jesudason​, Robert Fitridge​, Peter S. Zilm​, Joseph Dawson, Stephen P. Kidd

Research Article


A comparison of culture methods and polymerase chain reaction in detecting Clostridioides difficile from hospital surfaces

Rachel J. Grainger, Aoife Kearney, Hilary Humphreys, Niall T. Stevens

Short Communication


Detection of IgM, IgG, IgA and neutralizing antibody responses to SARS-CoV-2 infection and mRNA vaccination

Charles J. Fleischmann, Christina A. Bulman​, Cassandra Yun​, Kara L. Lynch, Alan H. B. Wu​, Jeffrey D. Whitman

Short Communication


Microbial Genomics

Comparison of R9.4.1/Kit10 and R10/Kit12 Oxford Nanopore flowcells and chemistries in bacterial genome reconstruction

Nicholas D. Sanderson, Natalia Kapel​, Gillian Rodger, Hermione Webster, Samuel Lipworth​, Teresa L. Street, Timothy Peto, Derrick Crook, Nicole Stoesser

Research Article


Nanopore-only assemblies for genomic surveillance of the global priority drug-resistant pathogen, Klebsiella pneumoniae

Ebenezer Foster-Nyarko, Hugh Cottingham, Ryan R. Wick​, Louise M. Judd, Margaret M. C. Lam​, Kelly L. Wyres, Thomas D. Stanton​, Kara K. Tsang​, Sophia David​, David M. Aanensen, Sylvain Brisse​, Kathryn E. Holt

Research Article


Multiplex MinION sequencing suggests enteric adenovirus F41 genetic diversity comparable to pre-COVID-19 era

This article is part of the Implementation of Genomics in Clinical and Public Health Microbiology collection

Mailis Maes, Fahad Khokhar, Sam A. J. Wilkinson, Andrew D. Smith​, Ganna Kovalenko, Gordon Dougan, Joshua Quick, Nicholas J. Loman, Stephen Baker, Martin D. Curran, Jordan P. Skittrall1​, Charlotte J. Houldcroft

Short Communication



A global perspective on bacterial diversity in the terrestrial deep subsurface

A. Soares, A. Edwards, D. An​, A. Bagnoud​, J. Bradley​, E. Barnhart, M. Bomberg, K. Budwill​, S. M. Caffrey, M. Fields​, J. Gralnick​, V. Kadnikov, L. Momper​, M. Osburn, A. Mu​, J. W. Moreau, D. Moser​, L. Purkamo​, S. M. Rassner, C. S. Sheik​, B. Sherwood Lollar​, B. M. Toner​, G. Voordouw, K. Wouters​, A. C. Mitchell1​

Research Article


Removal of AMR plasmids using a mobile, broad host-range CRISPR-Cas9 delivery tool

David Walker-Sünderhauf, Uli Klümper, Elizabeth Pursey, Edze R. Westra​, William H. Gaze, Stineke van Houte

Research Article


Microbial Primer: The logic of bacterial plasmids

This article is part of our Microbial Primers collection.

Georgina S. Lloyd​, Christopher M. Thomas

Papers published 1st January – 16th October 2023, download data up to 16th October 2023