ReviewClinical microbiology reviews2015
Whole-genome sequencing in outbreak analysis.
Review in Clinical microbiology reviews, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 134 papers, 4 of them syntheses that pooled 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.
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.
Who cites it
134 citing papers in PubMed, 4 syntheses or guidelines pooled it, 284 citations in OpenAlex.
- Epidemiology of clinical antimicrobial-resistant Enterobacterales in Togo over three decades: a systematic review and meta-analysis, with recommendations and alternative solutions.BMC infectious diseases · 2025Pooled it
- Human papillomavirus, vaginal microbiota and metagenomics: the interplay between development and progression of cervical cancer.Frontiers in microbiology · 2024Pooled it
- Healthcare-associated hepatitis B and C transmission to patients in the EU/EEA and UK: a systematic review of reported outbreaks between 2006 and 2021.BMC public health · 2022Pooled it
- A Systematic Review of Risk Analysis Tools for Differentiating Unnatural From Natural Epidemics.Military medicine · 2017Pooled it
- Fifty Years of Non-pestis Yersinia Outbreaks in the United States: Patterns, Vehicles, and Surveillance Challenges, 1971-2024.Journal of food science · 2026Article
- Evaluating the probiotic potential of Bacillus pumilus HFS2 isolated from the gut microbiota of Heteropneustes fossilis for aquaculture applications.Journal, genetic engineering & biotechnology · 2026Article
- Hospital-wide pathogen transmission surveillance combining epidemiological, genetic, and spectroscopic approaches.Microbiology spectrum · 2026Article
- Article
- Harnessing genomic and bioinformatics for surveillance of pathogens in Africa: a scoping review of existing training and gaps in training.BMC infectious diseases · 2026Article
- Prediction of genetic relatedness ofAntimicrobial agents and chemotherapy · 2026Article
- Metagenomics as an Effective Diagnostic Approach for Exploring Oral Microbial Diversity and Dental Diseases: A Narrative Review.International journal of clinical pediatric dentistry · 2026Review
- Whole-genome sequencing-based pathogen characterization for streptococcal infection directly from positive blood culture samples.Journal of clinical microbiology · 2026Article
- Genomic characterization of clinical and environmental isolates of Bacillus anthracis in Peru.PLoS neglected tropical diseases · 2026Article
- The molecular revolution in fungal diagnostics: bridging gaps across clinical, agricultural, and environmental mycology.Mycology · 2026Review
- Article
- Whole-Genome Sequencing Uncovers Chromosomal and Plasmid-Borne Multidrug Resistance and Virulence Genes in Poultry-AssociatedbioRxiv : the preprint server for biology · 2025Article
- Molecular and genomic insights into multidrug-resistant (MDR) and extensively drug-resistant (XDR) Pseudomonas aeruginosa causing burn wound infections in Bangladesh.Scientific reports · 2025Article
- Comparative Genomic Analysis of TwoMicroorganisms · 2025Article
- Metagenomic Identification of Fusarium solani Strain as Cause of US Fungal Meningitis Outbreak Associated with Surgical Procedures in Mexico, 2023.Emerging infectious diseases · 2025Article
- Use of a national repository of Fourier-transform infrared spectroscopy spectra enables fast detection of silent outbreaks and prevention of spread of new antibiotic-resistant sequence types.Antimicrobial resistance and infection control · 2025Article
74 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
5 authors at 1 institution in 1 country.
Funding
Abstract
In addition to the ever-present concern of medical professionals about epidemics of infectious diseases, the relative ease of access and low cost of obtaining, producing, and disseminating pathogenic organisms or biological toxins mean that bioterrorism activity should also be considered when facing a disease outbreak. Utilization of whole-genome sequencing (WGS) in outbreak analysis facilitates the rapid and accurate identification of virulence factors of the pathogen and can be used to identify the path of disease transmission within a population and provide information on the probable source. Molecular tools such as WGS are being refined and advanced at a rapid pace to provide robust and higher-resolution methods for identifying, comparing, and classifying pathogenic organisms. If these methods of pathogen characterization are properly applied, they will enable an improved public health response whether a disease outbreak was initiated by natural events or by accidental or deliberate human activity. The current application of next-generation sequencing (NGS) technology to microbial WGS and microbial forensics is reviewed.
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What OpenQuestion holds
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.