Author

D. J. Stekel

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· 6 Ecology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 3 Research Focus:benchmarking· 2 Approach:statistical model· 2 Approach:benchmark study· 1 Assay:bulk RNA-seq· 1 Research Focus:database / resource· 1 Approach:deep learning· 1 Assay:DNA methylation· 1

Frequent Co-Authors

A. D. Millard· 4 shared R. Cook· 4 shared J. Hobman· 3 shared J. L. Hobman· 3 shared J.-U. Kreft· 3 shared B. Rihtman· 2 shared M. A. Jones· 2 shared M. Jones· 2 shared

Activity by Year

2020-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

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4 shared papersMicrobiology

A. D. Millard

Mutual co-authors in cluster

Author profile →

7 papers

Recent·Most cited

Is it selfish to be filamentous in biofilms? Individual-based modeling links microbial growth strategies with morphology using the new and modular iDynoMiCS 2.0

B. J. R. Cockx, T. Foster, R. J. Clegg, K. Alden, S. Arya, D. J. Stekel, B. F. Smets, J.-U. Kreft

The paper introduces iDynoMiCS 2.0, an individual-based modeling platform for microbial communities, showing that filamentous bacteria outcompete spherical bacteria regardless of growth strategy.

bioRxiv · Jun 27, 2023Ecology

The long and short of it: Benchmarking viromics using Illumina, Nanopore and PacBio sequencing technologies

R. Cook, N. Brown, B. Rihtman, S. Michniewski, T. Redgwell, D. J. Stekel, J. Hobman, Y. Chen, A. Nelson, D. Scanlan, M. A. Jones, D. Smith, A. D. Millard

This paper benchmarks viromics using Illumina, Nanopore, and PacBio sequencing technologies to assess their impact on viral community reconstruction and error rates.

bioRxiv · Feb 12, 2023Microbiology

Predicting bioactivity of antibiotic metabolites by molecular docking and dynamics

H. Chio, E. E. Guest, J. L. Hobman, T. Dottorini, J. D. Hirst, D. J. Stekel

The paper predicts the bioactivity of antibiotic metabolites using molecular docking and dynamics simulations, identifying potential bioactive metabolites that could contribute to antimicrobial resistance.

bioRxiv · Sep 6, 2022Microbiology

Antimicrobial resistance in dairy slurry tanks: a critical point for measurement and control

M. Baker, A. D. Williams, S. P. T. Hooton, R. Helliwell, E. King, T. Dodsworth, R. M. Baena-Nogueras, A. Warry, C. A. Ortori, H. Todman, C. J. Gray-Hammerton, A. C. W. Pritchard, E. Iles, R. Cook, R. D. Emes, , D. J. Stekel

This study identifies dairy slurry tanks as critical for antimicrobial resistance (AMR) prevalence and control, showing that 60 days of storage can reduce ARB spread by >99%.

bioRxiv · Feb 22, 2022Microbiology

INfrastructure for a PHAge REference Database: Identification of large-scale biases in the current collection of phage genomes

R. Cook, N. Brown, T. Redgwell, B. Rihtman, M. Barnes, D. J. Stekel, M. Clokie, J. Hobman, M. Jones, A. D. Millard

The paper develops a tool to extract phage genomes and identifies biases in their representation, such as overrepresentation of lytic phages and limited host diversity.

bioRxiv · May 1, 2021Microbiology

Hybrid assembly of an agricultural slurry virome reveals a diverse and stable community with the potential to alter the metabolism and virulence of veterinary pathogens

R. Cook, S. Hooton, U. Trivedi, L. King, C. Dodd, J. Hobman, D. J. Stekel, M. Jones, A. D. Millard

The paper analyzes the virome of agricultural slurry using hybrid sequencing, revealing a diverse and stable community with potential to influence bacterial metabolism and virulence.

bioRxiv · Oct 8, 2020Microbiology

Towards a general model for predicting minimal metal concentrations co-selecting for antibiotic resistance plasmids

S. Arya, A. Williams, S. Vazquez Reina, C. W. Knapp, J.-U. Kreft, J. L. Hobman, D. J. Stekel

The paper develops a mathematical model to predict minimal metal concentrations that co-select for antibiotic resistance plasmids, applying it to copper, zinc, mercury, lead, and silver.

bioRxiv · Sep 14, 2020Microbiology