ArticleFoodborne pathogens and disease2019
Interpretation of Whole-Genome Sequencing for Enteric Disease Surveillance and Outbreak Investigation.
Article in Foodborne pathogens and disease, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 60 papers.
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Who cites it
60 citing papers in PubMed.
- cgDist: Nucleotide-level distance calculation from cgMLST allelic profiles.NAR genomics and bioinformatics · 2026Article
- Reoccurring, Emerging, and Persisting (REP) Strains: A Framework for Surveillance and Investigation of Pathogens of Public Health Importance.Journal of food protection · 2026Review
- When to take action in food-borne disease outbreaks?Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin · 2025Article
- Effects of Decentralized Sequencing on National Listeria monocytogenes Genomic Surveillance, Australia, 2016-2023.Emerging infectious diseases · 2025Article
- Lessons from 5 Years of Routine Whole-Genome Sequencing for Epidemiologic Surveillance of Shiga Toxin-Producing Escherichia coli, France, 2018-2022.Emerging infectious diseases · 2025Article
- Genomic diversity and tracing ofMicrobial genomics · 2025Article
- Article
- Applying prospective tree-temporal scan statistics to genomic surveillance data to detect emerging SARS-CoV-2 variants and salmonellosis clusters in New York City.International journal of epidemiology · 2025Article
- Whole-Genome Shotgun Sequencing from Chicken Clinical Tracheal Samples for Bacterial and Novel Bacteriophage Identification.Veterinary sciences · 2025Article
- Outbreak ofAnimals : an open access journal from MDPI · 2025Article
- Implementing whole genome sequencing for foodborne pathogen surveillance: insights and recommendations based on expert experiences.Frontiers in microbiology · 2025Article
- Outbreak investigations ofEpidemiology and infection · 2024Article
- Outbreak-associatedJournal of clinical microbiology · 2024Article
- Development and implementation of a core genome multilocus sequence typing scheme forJournal of clinical microbiology · 2024Article
- Genomic Evaluation of Multidrug-Resistant Extended-Spectrum β-Lactamase (ESBL)-ProducingEnvironmental science & technology · 2024Article
- Genetic Diversity inMicroorganisms · 2024Article
- Multistate outbreak ofFood control · 2024Article
- Article
- Enhancing Clinical Utility: Utilization of International Standards and Guidelines for Metagenomic Sequencing in Infectious Disease Diagnosis.International journal of molecular sciences · 2024Review
- Bacterial enrichment prior to third-generation metagenomic sequencing improves detection of BRD pathogens and genetic determinants of antimicrobial resistance in feedlot cattle.Frontiers in microbiology · 2024Article
Corrections and comments
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The routine use of whole-genome sequencing (WGS) as part of enteric disease surveillance is substantially enhancing our ability to detect and investigate outbreaks and to monitor disease trends. At the same time, it is revealing as never before the vast complexity of microbial and human interactions that contribute to outbreak ecology. Since WGS analysis is primarily used to characterize and compare microbial genomes with the goal of addressing epidemiological questions, it must be interpreted in an epidemiological context. In this article, we identify common challenges and pitfalls encountered when interpreting sequence data in an enteric disease surveillance and investigation context, and explain how to address them.
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