ArticleJournal of clinical microbiology2014
Whole-genome-based Mycobacterium tuberculosis surveillance: a standardized, portable, and expandable approach.
Article in Journal of clinical microbiology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 117 papers, 1 of them a synthesis that pooled it.
What it found
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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.
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.
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Who cites it
117 citing papers in PubMed, 1 synthesis or guideline pooled it, 200 citations in OpenAlex.
- Pathways of TB Transmission in Children-A Systematic Review of Molecular Epidemiological Studies.International journal of environmental research and public health · 2023Pooled it
- Towards culture-free sequencing of Mycobacterium tuberculosis: evaluating new targeted and whole-genome approaches for genotyping and drug resistance profiling.Genome medicine · 2026Trial
- Epidemiological features and antibiotic resistance ofFrontiers in microbiology · 2026Article
- Retrospective analysis of non-tuberculous mycobacterial skin infections: diagnostic accuracy, treatment efficacy, and PCR-based species detection in a Chinese primary care hospital.Journal of clinical microbiology · 2025Article
- Cross-border investigation of a tuberculosis outbreak in Vienna linked to a multi-country cluster among foreign-born individuals, Europe, 2021 to 2025.Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin · 2025Article
- The dark matter of bacterial genomic surveillance-antimicrobial resistance plasmid transmissions in the hospital setting.Journal of clinical microbiology · 2025Article
- Genomic diversity and tracing ofMicrobial genomics · 2025Article
- A core genome MLST scheme for Borrelia burgdorferi sensu lato improves insights into the evolutionary history of the species complex.Cell reports methods · 2025Article
- Molecular typing of Mycobacterium tuberculosis: a review of current methods, databases, softwares, and analytical tools.FEMS microbiology reviews · 2025Review
- Detection of antimicrobial resistance via state-of-the-art technologies versus conventional methods.Frontiers in microbiology · 2025Review
- The invasive GAS puzzle in Italy: genomic insights from a hospital cohort in a fragmented surveillance landscape.Frontiers in cellular and infection microbiology · 2025Article
- Review
- Article
- On the onset and dispersal of a major MDR TB clone among HIV-negative patients, Tunisia.Antimicrobial resistance and infection control · 2024Article
- Drug-Resistant Characteristics, Genetic Diversity, and Transmission Dynamics of Multidrug-ResistantInfection and drug resistance · 2024Article
- A core-genome multilocus sequence typing scheme for the detection of genetically relatedJournal of clinical microbiology · 2023Article
- Current and Future Technologies for the Detection of Antibiotic-Resistant Bacteria.Diagnostics (Basel, Switzerland) · 2023Review
- Mixed infections in genotypic drug-resistant Mycobacterium tuberculosis.Scientific reports · 2023Article
- Molecular epidemiology and transmission dynamics of multi-drug resistant tuberculosis strains using whole genome sequencing in the Amhara region, Ethiopia.BMC genomics · 2023Article
- Molecular Capture ofInternational journal of molecular sciences · 2023Article
57 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Whole-genome sequencing (WGS) allows for effective tracing of Mycobacterium tuberculosis complex (MTBC) (tuberculosis pathogens) transmission. However, it is difficult to standardize and, therefore, is not yet employed for interlaboratory prospective surveillance. To allow its widespread application, solutions for data standardization and storage in an easily expandable database are urgently needed. To address this question, we developed a core genome multilocus sequence typing (cgMLST) scheme for clinical MTBC isolates using the Ridom SeqSphere(+) software, which transfers the genome-wide single nucleotide polymorphism (SNP) diversity into an allele numbering system that is standardized, portable, and not computationally intensive. To test its performance, we performed WGS analysis of 26 isolates with identical IS6110 DNA fingerprints and spoligotyping patterns from a longitudinal outbreak in the federal state of Hamburg, Germany (notified between 2001 and 2010). The cgMLST approach (3,041 genes) discriminated the 26 strains with a resolution comparable to that of SNP-based WGS typing (one major cluster of 22 identical or closely related and four outlier isolates with at least 97 distinct SNPs or 63 allelic variants). Resulting tree topologies are highly congruent and grouped the isolates in both cases analogously. Our data show that SNP- and cgMLST-based WGS analyses facilitate high-resolution discrimination of longitudinal MTBC outbreaks. cgMLST allows for a meaningful epidemiological interpretation of the WGS genotyping data. It enables standardized WGS genotyping for epidemiological investigations, e.g., on the regional public health office level, and the creation of web-accessible databases for global TB surveillance with an integrated early warning system.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.