ArticlePeerJ2016
Identification of Salmonella for public health surveillance using whole genome sequencing.
Article in PeerJ, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 157 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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
157 citing papers in PubMed, 1 synthesis or guideline pooled it, 261 citations in OpenAlex.
- Pooled it
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- A multi-country outbreak ofEuro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin · 2026Article
- Evaluation of Oxford nanopore sequencing for antimicrobial resistance surveillance inMicrobiology spectrum · 2026Article
- Targeted amplicon sequencing for enhanced detection of spiked Shiga toxin-producingMicrobiology spectrum · 2026Article
- Investigation of a prolonged nursery outbreak ofEpidemiology and infection · 2026Article
- Molecular epidemiological and genetic variability ofMicrobiology spectrum · 2026Article
- Whole-Genome Sequencing for Antimicrobial Resistance Detection: A Simulation-Based Evaluation of WHO-Recommended Workflow in Pakistan.Pakistan journal of medical sciences · 2026Article
- Mind the gap! TypingMicrobial genomics · 2026Article
- Prevalence and whole genome sequencing analysis of Salmonella isolated from a homebred chicken farm in Jiangsu province.Frontiers in veterinary science · 2026Article
- Identification of a new Salmonella serovar - Salmonella Weitmar (8:z41:1,5).GMS infectious diseases · 2026Article
- HeterogeneousJournal of medical microbiology · 2025Article
- AmpliconTyper - a tool for analysing ONT multiplex PCR data from environmental and other complex samples.Microbial genomics · 2025Article
- Not Your Usual Culprit: Relapsing Salmonella enterica Serovar Infantis Urinary Tract Infection.Cureus · 2025Article
- Risk Factors and Prevalence ofAnimals : an open access journal from MDPI · 2025Article
- The TyphiNET data visualisation dashboard: unlocking Salmonella Typhi genomics data to support public health.Genome medicine · 2025Article
- Molecular epidemiology ofAntimicrobial agents and chemotherapy · 2025Article
- Article
- Key role of whole genome sequencing in resolving an international outbreak of monophasic Salmonella Typhimurium linked to chocolate products.BMC infectious diseases · 2025Article
- Potential links between human bloodstream infection by Salmonella enterica serovar Typhimurium and international transmission to Colombia.PLoS neglected tropical diseases · 2025Article
97 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
13 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In April 2015, Public Health England implemented whole genome sequencing (WGS) as a routine typing tool for public health surveillance of Salmonella, adopting a multilocus sequence typing (MLST) approach as a replacement for traditional serotyping. The WGS derived sequence type (ST) was compared to the phenotypic serotype for 6,887 isolates of S. enterica subspecies I, and of these, 6,616 (96%) were concordant. Of the 4% (n = 271) of isolates of subspecies I exhibiting a mismatch, 119 were due to a process error in the laboratory, 26 were likely caused by the serotype designation in the MLST database being incorrect and 126 occurred when two different serovars belonged to the same ST. The population structure of S. enterica subspecies II-IV differs markedly from that of subspecies I and, based on current data, defining the serovar from the clonal complex may be less appropriate for the classification of this group. Novel sequence types that were not present in the MLST database were identified in 8.6% of the total number of samples tested (including S. enterica subspecies I-IV and S. bongori) and these 654 isolates belonged to 326 novel STs. For S. enterica subspecies I, WGS MLST derived serotyping is a high throughput, accurate, robust, reliable typing method, well suited to routine public health surveillance. The combined output of ST and serovar supports the maintenance of traditional serovar nomenclature while providing additional insight on the true phylogenetic relationship between isolates.
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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.