ArticleAntimicrobial agents and chemotherapy2016
Whole-Genome Sequencing for Detecting Antimicrobial Resistance in Nontyphoidal Salmonella.
Article in Antimicrobial agents and chemotherapy, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 193 papers, 1 of them a synthesis 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
193 citing papers in PubMed, 1 synthesis or guideline pooled it, 373 citations in OpenAlex.
- Combatting Salmonella: a focus on antimicrobial resistance and the need for effective vaccination.BMC infectious diseases · 2025Pooled it
- Evaluation of Oxford nanopore sequencing for antimicrobial resistance surveillance inMicrobiology spectrum · 2026Article
- Antibiotic-Specific Genotype-Phenotype Concordance and Cross-Database Interoperability in PublicInternational journal of molecular sciences · 2026Article
- Review
- Antimicrobial Resistance in the Food Chain: Bridging Knowledge Gaps for Effective Detection and Control.Antibiotics (Basel, Switzerland) · 2026Review
- Antimicrobial resistance in nontyphoidalFrontiers in public health · 2026Article
- Investigation of Antimicrobial Resistance Genes and Clonal Relatedness of Outbreak-AssociatedInfection and drug resistance · 2026Article
- Phenotypic and genome-based characterization ofFrontiers in microbiology · 2026Article
- Article
- Prevalence and Antimicrobial Resistance of Nontyphoidal Salmonella in Retail Meat in Puerto Rico: A Two-Year Study (2022-2023).Journal of food protection · 2025Article
- Antibiotics and Antibiotic Resistance Genes in the Environment: Dissemination, Ecological Risks, and Remediation Approaches.Microorganisms · 2025Review
- Genomic features, antimicrobial resistance and pathogenicity assessment of Escherichia coli serotype O177:H51 strain JS01 isolated from a diseased chicken.BMC microbiology · 2025Article
- Antibiotic-ResistantFood science of animal resources · 2025Review
- Genomic characterization and identification of multiple drug resistance genes in clinical isolates of Acinetobacter baumannii through whole genome sequencing.Molecular biology reports · 2025Article
- Characterizing the resistome ofFrontiers in microbiology · 2025Article
- Outbreak of Esophagitis and Ingluvitis Caused byVeterinary sciences · 2024Article
- Comprehensive review of salmonellosis: current status of the disease and future perspectives.Italian journal of food safety · 2024Review
- Prevalence and Antimicrobial Susceptibility of Foodborne Pathogens from Raw Livestock Meat in China, 2021.Microorganisms · 2024Article
- Genomic analysis of antibiotic resistance genes and mobile genetic elements in eight strains of nontyphoidmSystems · 2024Article
- Genome-Based Analysis of Genetic Diversity, Antimicrobial Susceptibility, and Virulence Gene Distribution inAnimals : an open access journal from MDPI · 2024Article
133 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
10 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Laboratory-based in vitro antimicrobial susceptibility testing is the foundation for guiding anti-infective therapy and monitoring antimicrobial resistance trends. We used whole-genome sequencing (WGS) technology to identify known antimicrobial resistance determinants among strains of nontyphoidal Salmonella and correlated these with susceptibility phenotypes to evaluate the utility of WGS for antimicrobial resistance surveillance. Six hundred forty Salmonella of 43 different serotypes were selected from among retail meat and human clinical isolates that were tested for susceptibility to 14 antimicrobials using broth microdilution. The MIC for each drug was used to categorize isolates as susceptible or resistant based on Clinical and Laboratory Standards Institute clinical breakpoints or National Antimicrobial Resistance Monitoring System (NARMS) consensus interpretive criteria. Each isolate was subjected to whole-genome shotgun sequencing, and resistance genes were identified from assembled sequences. A total of 65 unique resistance genes, plus mutations in two structural resistance loci, were identified. There were more unique resistance genes (n = 59) in the 104 human isolates than in the 536 retail meat isolates (n = 36). Overall, resistance genotypes and phenotypes correlated in 99.0% of cases. Correlations approached 100% for most classes of antibiotics but were lower for aminoglycosides and beta-lactams. We report the first finding of extended-spectrum β-lactamases (ESBLs) (blaCTX-M1 and blaSHV2a) in retail meat isolates of Salmonella in the United States. Whole-genome sequencing is an effective tool for predicting antibiotic resistance in nontyphoidal Salmonella, although the use of more appropriate surveillance breakpoints and increased knowledge of new resistance alleles will further improve correlations.
Indexed as
Identifiers
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.