ArticleScientific reports2020
Genome-based Salmonella serotyping as the new gold standard.
Article in Scientific reports, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 35 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
35 citing papers in PubMed, 1 synthesis or guideline pooled it, 76 citations in OpenAlex.
- Research progress into the principles and methods underlying capsular typing of Glaesserella parasuis.Veterinary research · 2024Pooled it
- Integrated analysis of MALDI-TOF MS and whole-genome sequencing for subtypingFrontiers in microbiology · 2026Article
- Article
- Population structure analysis ofFrontiers in microbiology · 2025Article
- Isolation, Characterization, and Application of Bacteriophage forVeterinary medicine international · 2025Article
- Bridging Classical Methodologies inMicroorganisms · 2024Review
- Genomic epidemiology of ceftriaxone-resistant non-typhoidal Salmonella enterica strain in China.BMC genomics · 2024Article
- The integrated genomic surveillance system of Andalusia (SIEGA) provides a One Health regional resource connected with the clinic.Scientific reports · 2024Article
- Emerging Strategies against Non-TyphoidalCurrent issues in molecular biology · 2024Review
- Genomic investigation of Salmonella enterica Serovar Welikade from a pediatric diarrhea case first time in Shanghai, China.BMC genomics · 2024Article
- A Proof-of-Concept Protein Microarray-Based Approach for Serotyping ofPathogens (Basel, Switzerland) · 2024Article
- Serovars, Virulence and Antimicrobial Resistance Genes of Non-TyphoidalAntibiotics (Basel, Switzerland) · 2023Article
- Genomic Surveillance ofAntibiotics (Basel, Switzerland) · 2023Article
- Development of a rapid diagnostic test based on loop-mediated isothermal amplification to identify the most frequent non-typhoidal Salmonella serovars from culture.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2023Article
- Application of a CRISPR Sequence-Based Method for a Large-Scale Assessment of Salmonella Serovars in Ontario Poultry Production Environments.Applied and environmental microbiology · 2023Article
- Phylogeny and Genomic Characterization of Clinical Salmonella enterica Serovar Newport Collected in Tennessee.Microbiology spectrum · 2023Article
- Genetic diversity of Salmonella enterica isolated over 13 years from raw California almonds and from an almond orchard.PloS one · 2023Article
- Genomic surveillance of Salmonella spp. in the Philippines during 2013-2014.Transactions of the Royal Society of Tropical Medicine and Hygiene · 2022Article
- Genomic Characterization ofMicroorganisms · 2022Article
- Risk Factors for Persistent Infection of Non-Typhoidal Salmonella in Poultry Farms, North Central Nigeria.Antibiotics (Basel, Switzerland) · 2022Article
Corrections and comments
- Erratum issued
Authors and funding
5 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Salmonella enterica is the second most reported bacterial cause of food-borne infections in Europe. Therefore molecular surveillance activities based on pathogen subtyping are an important measure of controlling Salmonellosis by public health agencies. In Germany, at the federal level, this work is carried out by the National Reference Center for Salmonella and other Bacterial Enteric Pathogens (NRC). With rise of next generation sequencing techniques, the NRC has introduced whole-genome-based typing methods for S. enterica in 2016. In this study we report on the feasibility of genome-based in silico serotyping in the German setting using raw sequence reads. We found that SeqSero and seven gene MLST showed 98% and 95% concordance, respectively, with classical serotyping for the here evaluated serotypes, including the most common German serotypes S. Enteritidis and S. Typhimurium as well as less frequently found serotypes. The level of concordance increased to >99% when the results of both in silico methods were combined. However, both tools exhibited misidentification of monophasic variants, in particular monophasic S. Typhimurium and therefore need to be fine-tuned for reliable detection of this epidemiologically important variant. We conclude that with adjustments Salmonella genome-based serotyping might become the new gold standard.
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.