ArticleJournal of clinical microbiology2016
Evaluation of an Optimal Epidemiological Typing Scheme for Legionella pneumophila with Whole-Genome Sequence Data Using Validation Guidelines.
Article in Journal of clinical microbiology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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Who cites it
38 citing papers in PubMed, 67 citations in OpenAlex.
- 'Epidemiology ofMicrobial genomics · 2026Article
- Outbreak of Legionnaires' Disease Linked to Newly Installed Residential Water Heaters, the Netherlands, 2022-2023.Emerging infectious diseases · 2026Review
- Role of Next-Generation Sequencing in Excluding the Nosocomial Origin of a Case of Legionnaires' Disease Integrating Environmental Surveillance and Clinical Diagnosis.Microorganisms · 2026Article
- Article
- Comparison of Phenotypic and Whole-Genome Sequencing-Derived Antimicrobial Resistance Profiles ofAntibiotics (Basel, Switzerland) · 2025Article
- Comparative genome analysis investigation of nosocomial and community-acquired cases of Legionnaires' disease caused by ST2858 and ST378.Microbiology spectrum · 2025Article
- Comparison of whole genome sequencing typing tools for the typing of Belgian Legionella pneumophila outbreaks isolates.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2025Article
- Evaluating Fourier-transform infrared spectroscopy with IR Biotyper as a faster and simpler method for investigating the sources of an outbreak of legionellosis.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2024Article
- An outbreak of Legionnaires' disease linked to a municipal and industrial wastewater treatment plant, The Netherlands, September-October 2022.Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin · 2024Article
- From Investigating a Case of Cellulitis to Exploring Nosocomial Infection Control of ST1Microorganisms · 2024Article
- Matchtigs: minimum plain text representation of k-mer sets.Genome biology · 2023Article
- Comparative Genomics ofMicroorganisms · 2023Article
- Culture-Free Phylogenetic Analysis of Legionella pneumophila Using Targeted CRISPR/Cas9 Next-Generation Sequencing.Microbiology spectrum · 2022Article
- Genome analysis ofLife science alliance · 2022Article
- Genomic Epidemiology Links Burkholderia pseudomallei from Individual Human Cases to B. pseudomallei from Targeted Environmental Sampling in Northern Australia.Journal of clinical microbiology · 2022Article
- Article
- Acute Pneumonia Caused by Clinically IsolatedMicroorganisms · 2022Article
- Non-IDCases · 2022Article
- Occurrence ofPathogens (Basel, Switzerland) · 2021Article
- A Bioinformatic Pipeline for Improved Genome Analysis and Clustering of Isolates during Outbreaks of Legionnaires' Disease.Journal of clinical microbiology · 2021Article
Corrections and comments
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Authors and funding
10 authors at 2 institutions in 2 countries.
Funding
Abstract
Sequence-based typing (SBT), analogous to multilocus sequence typing (MLST), is the current "gold standard" typing method for investigation of legionellosis outbreaks caused by Legionella pneumophila However, as common sequence types (STs) cause many infections, some investigations remain unresolved. In this study, various whole-genome sequencing (WGS)-based methods were evaluated according to published guidelines, including (i) a single nucleotide polymorphism (SNP)-based method, (ii) extended MLST using different numbers of genes, (iii) determination of gene presence or absence, and (iv) a kmer-based method. L. pneumophila serogroup 1 isolates (n = 106) from the standard "typing panel," previously used by the European Society for Clinical Microbiology Study Group on Legionella Infections (ESGLI), were tested together with another 229 isolates. Over 98% of isolates were considered typeable using the SNP- and kmer-based methods. Percentages of isolates with complete extended MLST profiles ranged from 99.1% (50 genes) to 86.8% (1,455 genes), while only 41.5% produced a full profile with the gene presence/absence scheme. Replicates demonstrated that all methods offer 100% reproducibility. Indices of discrimination range from 0.972 (ribosomal MLST) to 0.999 (SNP based), and all values were higher than that achieved with SBT (0.940). Epidemiological concordance is generally inversely related to discriminatory power. We propose that an extended MLST scheme with ∼50 genes provides optimal epidemiological concordance while substantially improving the discrimination offered by SBT and can be used as part of a hierarchical typing scheme that should maintain backwards compatibility and increase discrimination where necessary. This analysis will be useful for the ESGLI to design a scheme that has the potential to become the new gold standard typing method for L. pneumophila.
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Registered trials
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