Author

R. J. L. Willems

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Microbiology· 10

Signature Assays, Organisms & Methods

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Organism:human· 8 Assay:whole-genome sequencing· 8 Approach:experimental assay· 5 Approach:statistical model· 5 Research Focus:cell type annotation· 4 Organism:E. coli· 3 Research Focus:variant calling· 2 Assay:bulk RNA-seq· 1

Frequent Co-Authors

W. van Schaik· 5 shared M. R. C. Rogers· 4 shared A. B. Janssen· 3 shared J. Corander· 3 shared J. R. Bayjanov· 3 shared M. Bonten· 3 shared M. J. M. Bonten· 3 shared A. R. Freitas· 2 shared

Activity by Year

2017-2022 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 19 mutual co-author links

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5 shared papersMicrobiology

W. van Schaik

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Author profile →

10 papers

Recent·Most cited

The population-level impact of Enterococcus faecalis genetics on intestinal colonisation and extraintestinal infection

C. Chaguza, A. K. Pöntinen, J. Top, S. Arredondo-Alonso, A. R. Freitas, C. Novais, C. Torres, S. D. Bentley, L. Peixe, T. M. Coque, R. J. L. Willems, J. Corander

This study investigates the genetic factors influencing E. faecalis intestinal colonization and extraintestinal infection using GWAS and heritability analysis across 750 isolates.

bioRxiv · Sep 26, 2022 · PreprintMicrobiology

Evolution of chlorhexidine susceptibility and of the EfrEF operon among Enterococcus faecalis from diverse environments, clones and time spans

A. P. Pereira, P. Antunes, R. J. L. Willems, J. Corander, T. M. Coque, L. Peixe, A. R. Freitas, C. Novais

This study examines CHX susceptibility and ChlR-EfrEF variability in E. faecalis isolates from diverse environments, finding increased tolerance in food chain and recent human isolates.

bioRxiv · Jan 27, 2022Microbiology

Microevolution of acquired colistin resistance in Enterobacteriaceae from ICU patients receiving selective decontamination of the digestive tract.

A. B. Janssen, D. van Hout, M. Bonten, R. J. L. Willems, W. van Schaik

This study identifies mechanisms of acquired colistin resistance in Enterobacteriaceae from ICU patients on SDD, revealing novel variants and highlighting resistance emergence during prophylactic use.

Journal of Antimicrobial Chemotherapy · Jul 26, 2020Peer-reviewedMicrobiology

In vitro evolution of colistin resistance in the Klebsiella pneumoniae complex follows multiple evolutionary trajectories with variable effects on fitness and virulence characteristics.

A. B. Janssen, D. J. Doorduijn, G. Mills, M. R. C. Rogers, M. Bonten, S. Rooijakkers, R. J. L. Willems, J. A. Bengoechea, W. van Schaik

This study shows that Klebsiella pneumoniae complex strains can develop colistin resistance through multiple evolutionary paths, with variable effects on fitness and virulence.

bioRxiv · May 24, 2020Microbiology

Non-clonal emergence of colistin resistance associated with mutations in the BasRS two component system in Escherichia coli bloodstream isolates

A. B. Janssen, T. L. Bartholomew, N. P. Marciszewska, M. Bonten, R. J. L. Willems, J. A. Bengoechea, W. Schaik

This study identifies mutations in the BasRS two-component system as a novel mechanism of colistin resistance in E. coli bloodstream isolates, independent of plasmid-mediated resistance.

bioRxiv · Feb 13, 2020 · PreprintMicrobiology

Extended-spectrum beta-lactamase (ESBL)-producing and non-ESBL-producing Escherichia coli isolates causing bacteremia in the Netherlands (2014 - 2016) differ in clonal distribution, antimicrobial resistance gene and virulence gene content

D. van Hout, T. D. Verschuuren, P. C. J. Bruijning-Verhagen, T. Bosch, A. C. Schürch, R. J. L. Willems, M. J. M. Bonten, J. A. J. W. Kluytmans

This study compares clonal distribution, antimicrobial resistance genes, and virulence gene content between ESBL-producing and non-ESBL-producing E. coli isolates causing bacteremia in Dutch hospitals.

bioRxiv · Oct 21, 2019Microbiology

Enterococcus faecium genome dynamics during long-term asymptomatic patient gut colonization

J. R. Bayjanov, J. Baan, M. R. C. Rogers, A. Troelstra, R. J. L. Willems, W. van Schaik

This study analyzes genome dynamics of Enterococcus faecium during long-term asymptomatic gut colonization in patients, revealing high genomic flexibility and horizontal gene transfer.

bioRxiv · Feb 15, 2019Microbiology

mlplasmids: a user-friendly tool to predict plasmid- and chromosome-derived sequences for single species

S. Arredondo-Alonso, M. R. C. Rogers, J. C. Braat, T. D. Verschuuren, J. Top, J. Corander, R. J. L. Willems, A. C. Schurch

The paper introduces mlplasmids, an SVM-based tool to classify short-read WGS contigs as plasmid- or chromosome-derived in bacterial species, achieving high accuracy across three species.

bioRxiv · May 23, 2018Microbiology

Gut microbiota and resistome dynamics in intensive care patients receiving selective digestive tract decontamination

E. Buelow, T. de Jesus Bello Gonzalez, S. Fuentes, W. A. A. de Steenhuijsen Piters, L. Lahti, J. R. Bayjanov, E. A. M. Majoor, J. C. Braat, M. S. M. van Mourik, E. A. N. Oostdijk, R. J. L. Willems, M. J. M. Bonten, M. W. J. van Passel, H. Smidt, W. van Schaik

This study examines gut microbiota and resistome changes in ICU patients undergoing selective decontamination, finding reduced diversity and specific resistance gene abundance.

bioRxiv · Jan 25, 2017Microbiology

Fitness determinants of vancomycin-resistant Enterococcus faecium during growth in human serum

X. Zhang, A. M. Guzman Prieto, V. de Maat, T. K. Prajsnar, J. R. Bayjanov, M. de Been, M. R. C. Rogers, M. J. M. Bonten, S. Mesnage, R. J. L. Willems, W. van Schaik

This study identifies genes essential for vancomycin-resistant Enterococcus faecium growth in human serum and their role in virulence.

bioRxiv · Jan 21, 2017Microbiology