Publications by authors named "John Rossen"

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Comparison of three commercial DNA extraction kits and assemblers for AMR determinant detection in Pseudomonas aeruginosa and Enterobacter cloacae using long-read sequencing.
Anurag Kumar Bari, Basil Britto Xavier, Tim Severs, Bhanu Sinha, John W A Rossen

J Microbiol Methods· December 2025

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CefiderocolFinder: a tool for detecting genetic adaptations implicated in cefiderocol resistance.
Bryan van den Brand, Daan W Notermans, Nelianne J Verkaik, Simon Lansu, John W A Rossen

Clin Microbiol Infect· December 2025

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Limitations of genomic surveillance: a Clostridioides difficile case study in the Netherlands.
Joffrey van Prehn, Simone Abma-Blatter, Sylvia Debast, Margriet E M Kraakman, Rob Mariman, John W A Rossen

Clin Microbiol Infect· November 2025

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Performance of shotgun metagenomics on whole blood from patients with suspected bloodstream infection: Challenges remain.
David Nestor, Nilay Peker, Natacha Couto, Alina N Hiss, Alexander Herbig, John W A Rossen

J Microbiol Methods· October 2025

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Host factors associated with respiratory particle emission and virus presence within respiratory particles: a systematic review.
Nils Horstink, Kirsten Lassing, Marjolein Knoester, Lucie C Vermeulen, John W A Rossen

Front Microbiol· October 2025

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Cefiderocol-resistant pathogens in German hospital wastewater: a reservoir for multidrug resistance.
Tim Erler, Laura Carlsen, Jennifer Dengler, Jens Andre Hammerl, Andreas J Stroehlein, John W A Rossen

Sci Rep· August 2025

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Antimicrobial treatment affects the microbiome and resistome of both treated and untreated rehabilitating harbour seals (Phoca vitulina).
Ana Rubio-Garcia, Roosmarijn E C Luiken, Inês Marcelino, John W A Rossen, Jan H van Zeijl

Anim Microbiome· July 2025

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Surveillance and Genomic Characterisation of Colistin-Resistant Gram-Negative Bacteria in the Drains of High-Risk Hospital Units.
Giuseppe Fleres, Alessia Mirabile, Mariëtte Lokate, John W A Rossen, Natacha Couto

J Glob Antimicrob Resist· May 2025

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Critical Steps in Shotgun Metagenomics-Based Diagnosis of Bloodstream Infections Using Nanopore Sequencing.
Amelia Björnberg, David Nestor, Nilay Peker, Bhanu Sinha, Natacha Couto, John Rossen

APMIS· January 2025

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species complex: From wastewater to the environment.
Ilse Verburg, Lucia Hernández Leal, Karola Waar, John W A Rossen, Heike Schmitt

One Health· December 2024

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Towards unified reporting of genome sequencing results in clinical microbiology.
Eugenio Mutschler, Tim Roloff, Aitana Neves, Hege Vangstein Aamot, Belén Rodriguez-Sanchez, John Rossen

PeerJ· August 2024

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Horizontal gene transfer of a cfiA element between two different Bacteroides species within a clinical specimen.
Alida C M Veloo, Kathleen E Boiten, Antoni P A Hendrickx, Joffrey van Prehn, John W A Rossen

Clin Microbiol Infect· April 2024

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Characterising the gut microbiome of stranded harbour seals (Phoca vitulina) in rehabilitation.
Ana Rubio-Garcia, Aldert L Zomer, Ruoshui Guo, John W A Rossen, Jan H van Zeijl

PLoS One· December 2023

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Widespread Detection of Yersiniabactin Gene Cluster and Its Encoding Integrative Conjugative Elements (ICE) among Nonoutbreak OXA-48-Producing Clinical Isolates from Spain and the Netherlands.
Afif P Jati, Pedro J Sola-Campoy, Thijs Bosch, Leo M Schouls, Antoni P A Hendrickx, John W A Rossen

Microbiol Spectr· August 2023

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Characterization of the flanking region of the Shiga toxin operon in Stx2a bacteriophages reveals a diversity of the NanS-p sialate O-acetylesterase gene.
Stefanía B Pascal, Ramiro Lorenzo, María Victoria Nieto Farías, John W A Rossen, Paula M A Lucchesi

AIMS Microbiol· August 2023

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Motor development of children after a human Parechovirus or Enterovirus infection: 24 months follow-up.
Stephanie C de Crom, M Ted van Hinsbergh, Inge A van Beijsterveldt, A Marceline van Furth, John W Rossen

Minerva Pediatr (Torino)· April 2023

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Longitudinal study of the short- and long-term effects of hospitalisation and oral trimethoprim-sulfadiazine administration on the equine faecal microbiome and resistome.
Mathijs J P Theelen, Roosmarijn E C Luiken, Jaap A Wagenaar, Marianne M Sloet van Oldruitenborgh-Oosterbaan, John W A Rossen

Microbiome· February 2023

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Prevalence of foodborne and zoonotic viral pathogens in raw cow milk samples.
Babak Pakbin, John W A Rossen, Wolfram Manuel Brück, Naim Montazeri, Samaneh Allahyari

FEMS Microbiol Lett· November 2022

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Next-generation sequencing in routine clinical microbiology and infectious diseases: an ESGMD-ESGEM ESCMID postgraduate course.
Hege Vangstein Aamot, Eric C J Claas, Natacha Couto, Henrik Westh, Gilbert Greub, John W A Rossen

New Microbes New Infect· November 2022

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Host DNA depletion can increase the sensitivity of spp. detection through shotgun metagenomics in sputum.
Nienke A Kok, Nilay Peker, Leonard Schuele, Jessica L de Beer, John W A Rossen

Front Microbiol· October 2022

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Antibiotic Resistance and Molecular Characterization of Strains Isolated from Powdered Infant Formula Milk.
Babak Pakbin, Wolfram Manuel Brück, Samaneh Allahyari, John W A Rossen, Razzagh Mahmoudi

Foods· April 2022

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Exploring a prolonged enterovirus C104 infection in a severely ill patient using nanopore sequencing.
Hayley Cassidy, Leonard Schuele, Erley Lizarazo-Forero, Natacha Couto, John W A Rossen

Virus Evol· March 2022

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MALDI-TOF MS Using a Custom-Made Database, Biomarker Assignment, or Mathematical Classifiers Does Not Differentiate spp. and .
Maaike J C van den Beld, John W A Rossen, Noah Evers, Mirjam A M D Kooistra-Smid, Frans A G Reubsaet

Microorganisms· February 2022

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Genomic Investigation of Two Outbreaks in a Veterinary Intensive Care Unit in The Netherlands.
Soe Yu Naing, Joost Hordijk, Birgitta Duim, Els M Broens, Linda van der Graaf-van Bloois, John W Rossen

Pathogens· January 2022

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Evaluation of whole-genome sequence data analysis approaches for short- and long-read sequencing of .
Nilay Peker, Leonard Schuele, Nienke Kok, Miguel Terrazos, Stefan M Neuenschwander, John Wa Rossen

Microb Genom· November 2021

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