Evidence map›Paper›PMID 42133196›Full record

ArticleMolecular biology reports2026

Comparison of Oxford Nanopore Technologies sequencing protocols using R9.4.1 and R10.4.1 flow cells under 20-hour and 48-hour conditions for genotyping methicillin methicillin-resistant Staphylococcus aureus (MRSA).

Mário Sérgio Braga do Couto, Karin Helmersen, Aluisio Valerio Deola, Glauber Wagner, Hege Vangstein Aamot, Fabienne Antunes Ferreira

Abstract readComparative Study
PubMed Full text at PMC Publisher
In one paragraph

Article in Molecular biology reports, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

  1. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

Mário Sérgio Braga do CoutoBacterial Molecular Genetics Laboratory (GeMBac), Department of Microbiology, Immunology, and Parasitology, Biological Sciences Center, Universidade Federal de Santa Catarina, Campus Universitário Reitor João David Ferreira Lima, Trindade, Florianópolis, 88040-960, SC, Brazil.
Karin HelmersenDepartment of Microbiology and Infection Control, Akershus University Hospital, Lorenskog, Norway.
Aluisio Valerio DeolaBioinformatics Laboratory, Department of Microbiology, Immunology, and Parasitology, Biological Sciences Center, Campus Universitário Reitor João David Ferreira Lima, Trindade, Florianópolis, 88040-960, SC, Brazil.
Glauber WagnerBioinformatics Laboratory, Department of Microbiology, Immunology, and Parasitology, Biological Sciences Center, Campus Universitário Reitor João David Ferreira Lima, Trindade, Florianópolis, 88040-960, SC, Brazil.
Hege Vangstein AamotDepartment of Microbiology and Infection Control, Akershus University Hospital, Lorenskog, Norway.
Fabienne Antunes FerreiraBacterial Molecular Genetics Laboratory (GeMBac), Department of Microbiology, Immunology, and Parasitology, Biological Sciences Center, Universidade Federal de Santa Catarina, Campus Universitário Reitor João David Ferreira Lima, Trindade, Florianópolis, 88040-960, SC, Brazil. fabienne.ferreira@ufsc.br.ORCID http://orcid.org/0000-0002-6444-6007

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundRapid and accurate whole-genome sequencing (WGS) is increasingly important for detecting antimicrobial resistance and virulence determinants in clinical microbiology. Although short-read platforms remain widely used, long-read sequencing technologies have gained relevance due to their ability to resolve complex genomic regions. METHODS AND

resultsWe analyzed 92 draft genomes generated from 23 clinical methicillin-resistant Staphylococcus aureus (MRSA) isolates to compare Oxford Nanopore Technologies sequencing protocols using R9.4.1 (Kit V10) and R10.4.1 (Kit V14) flow cells under 20-hour and 48-hour conditions. The 20-hour R10.4.1 protocol (ONT20h R10) showed the best overall performance, with improved detection of antimicrobial resistance genes, virulence factors, plasmids, and mobile genetic elements. This protocol achieved perfect agreement with phenotypic antimicrobial susceptibility testing (accuracy 100%, κ = 1.0), supporting its suitability for rapid genomic analysis. Highly repetitive mobile genetic elements remained challenging to fully resolve, reflecting the technical difficulty of assembling complex repeats.

conclusionOverall, this study supports the use of rapid long-read sequencing as a complementary approach for clinical microbiology and genomic surveillance, particularly when timely genomic information is required.

Indexed as

Genotyping TechniquesMethicillin-Resistant Staphylococcus aureusNanopore SequencingGenome, BacterialGenotypeHigh-Throughput Nucleotide SequencingHumansStaphylococcal InfectionsWhole Genome SequencingAntibiotic resistanceFlow cellGenome analysisMRSANanopore sequencingWhole genome sequencing

Identifiers

PMID42133196
PMCPMC13176134

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