ArticleNature communications2022
Population structure analysis and laboratory monitoring of Shigella by core-genome multilocus sequence typing.
Article in Nature communications, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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
24 citing papers in PubMed, 34 citations in OpenAlex.
- Global distribution and genomic characteristics ofInfectious medicine · 2026Article
- Genomic and epidemiological characteristics ofPathogens and global health · 2025Article
- Occurrence of CRISPR-Cas genes and lack of association with antibiotic resistance in Shigella isolates collected from patients with diarrhea in Ahvaz, southwest Iran.BMC infectious diseases · 2025Article
- Investigating the population structure of Moraxella catarrhalis using a cgMLST scheme and LIN code system.Nature communications · 2025Article
- Genome sequencing of an ESBL-producingMicrobiology resource announcements · 2025Article
- Development and validation of a core-genome multilocus sequence typing scheme forMicrobial genomics · 2025Article
- Development of a core genome multilocus sequence typing scheme and life identification number code classification system forMicrobial genomics · 2025Article
- Cross-border outbreak ofEuro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin · 2025Article
- Understanding the population structure ofbioRxiv : the preprint server for biology · 2025Article
- Characterization ofmBio · 2025Article
- Prevalence and genomic insights into type III-A CRISPR-Cas system acquisition in globalFrontiers in cellular and infection microbiology · 2025Article
- High carriage and possible hidden spread of multidrug-resistant Salmonella among asymptomatic workers in Yulin, China.Nature communications · 2024Article
- Genome and antibiotic resistance characteristics ofMicrobial genomics · 2024Article
- High-Throughput Luminescence-Based Serum Bactericidal Assay Optimization and Characterization to Assess Human Sera Functionality Against MultipleInternational journal of molecular sciences · 2024Article
- Genomic analysis ofMicrobial genomics · 2023Article
- Concordance between Genotypic and Phenotypic Drug-Resistant Profiles ofMicrobiology spectrum · 2023Article
- Characterization of Shigella flexneri Serotype 6 Strains Isolated from Bangladesh and Identification of a New Phylogenetic Cluster.Journal of bacteriology · 2023Article
- ShigaPass: anMicrobial genomics · 2023Article
- Rapid emergence of extensively drug-resistant Shigella sonnei in France.Nature communications · 2023Article
- Analysis of Genetic Relatedness between Gastric and OralInternational journal of molecular sciences · 2023Article
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 4 institutions in 4 countries.
Funding
Abstract
The laboratory surveillance of bacillary dysentery is based on a standardised Shigella typing scheme that classifies Shigella strains into four serogroups and more than 50 serotypes on the basis of biochemical tests and lipopolysaccharide O-antigen serotyping. Real-time genomic surveillance of Shigella infections has been implemented in several countries, but without the use of a standardised typing scheme. Here, we study over 4000 reference strains and clinical isolates of Shigella, covering all serotypes, with both the current serotyping scheme and the standardised EnteroBase core-genome multilocus sequence typing scheme (cgMLST). The Shigella genomes are grouped into eight phylogenetically distinct clusters, within the E. coli species. The cgMLST hierarchical clustering (HC) analysis at different levels of resolution (HC2000 to HC400) recognises the natural population structure of Shigella. By contrast, the serotyping scheme is affected by horizontal gene transfer, leading to a conflation of genetically unrelated Shigella strains and a separation of genetically related strains. The use of this cgMLST scheme will facilitate the transition from traditional phenotypic typing to routine whole-genome sequencing for the laboratory surveillance of Shigella infections.
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.