Evidence map›Paper›PMID 37316492›Full record

ReviewNature communications2023

A global genomic analysis of Salmonella Concord reveals lineages with high antimicrobial resistance in Ethiopia.

Wim L Cuypers, Pieter Meysman, François-Xavier Weill, Rene S Hendriksen, Getenet Beyene, John Wain, Satheesh Nair, Marie A Chattaway, Blanca M Perez-Sepulveda, Pieter-Jan Ceyssens and 19 more

Open access · goldAbstract readReview
In one paragraph

Review in Nature communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed, 1 pooled it
3.8field-weighted citation impact, top 7% of its field
1 · What the graph read from 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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

11 citing papers in PubMed, 1 synthesis or guideline pooled it, 19 citations in OpenAlex.

  1. Pooled it
  2. Review
  3. Review
  4. Genetic and Phenotypic Characterization of aAntibiotics (Basel, Switzerland) · 2026
    Article
  5. Non-typhoidalItalian journal of food safety · 2026
    Article
  6. Characterization ofAntibiotics (Basel, Switzerland) · 2026
    Article
  7. Article
  8. Avian-specificeLife · 2025
    Article
  9. Review
  10. Review
  11. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

29 authors at 18 institutions in 12 countries.

Wim L CuypersAdrem Data Lab, Department of Computer Science, University of Antwerp, Antwerp, Belgium. wim.cuypers@uantwerpen.be.ORCID 0000-0002-1895-3526
Pieter MeysmanAdrem Data Lab, Department of Computer Science, University of Antwerp, Antwerp, Belgium.ORCID 0000-0001-5903-633X
François-Xavier WeillInstitut Pasteur, Université Paris Cité, Unité des bactéries pathogènes entériques, F-75015, Paris, France.ORCID 0000-0001-9941-5799
Rene S HendriksenTechnical University of Denmark, National Food Institute (DTU-Food), Research Group of Global Capacity Building, Kgs., Lyngby, Denmark.
Getenet BeyeneDepartment of Medical Laboratory Sciences, Faculty of Health Sciences, Jimma University, Jimma, Ethiopia.
John WainQuadram Institute Bioscience, Norwich Research Park, Norwich, UK.
Satheesh NairGastrointestinal Bacterial Reference Unit, United Kingdom Health Security Agency, Colindale, London, UK.
Marie A ChattawayGastrointestinal Bacterial Reference Unit, United Kingdom Health Security Agency, Colindale, London, UK.ORCID 0000-0002-5288-9089
Blanca M Perez-SepulvedaInstitute of Infection, Veterinary & Ecological Sciences, University of Liverpool, Liverpool, UK.ORCID 0000-0002-2891-4010
Pieter-Jan CeyssensDivision of Human Bacterial Diseases, Sciensano, Brussels, Belgium.
Tessa de BlockClinical Reference Laboratory, Department of Clinical Sciences, Institute of Tropical Medicine, Antwerp, Belgium.
Winnie W Y LeeGastrointestinal Bacterial Reference Unit, United Kingdom Health Security Agency, Colindale, London, UK.
Maria Pardos de la GandaraInstitut Pasteur, Université Paris Cité, Unité des bactéries pathogènes entériques, F-75015, Paris, France.ORCID 0000-0002-3273-6392
Christian KornschoberAustrian Agency for Health and Food Safety (AGES), Institute for Medical Microbiology and Hygiene, 8010, Graz, Austria.
Jacob Moran-GiladDepartment of Health Policy and Management, School of Public Health, Faculty of Health Sciences, Ben Gurion University of the Negev, Beer Sheva, Israel.
Kees T VeldmanDepartment of Bacteriology, Host Pathogen Interaction & Diagnostics, Wageningen Bioveterinary Research, Lelystad, The Netherlands.ORCID 0000-0002-2560-3276
Martin CormicanAntimicrobial Resistance and Microbial Ecology Group, School of Medicine, University of Galway, Galway, Ireland.
Mia TorpdahlDepartment of Bacteriology, Mycology & Parasitology, Statens Serum Institut, 5 Artillerivej, DK-2300, Copenhagen S, Denmark.
Patricia I FieldsDivision of Foodborne, Waterborne and Environmental Diseases, Centers for Disease Control and Prevention, Atlanta, GA, USA.
Tomáš ČernýNational Reference Laboratory for salmonella, State Veterinary Institute Prague, Prague, Czech Republic.
Liselotte HardyUnit of Tropical Bacteriology, Department of Clinical Sciences, Institute of Tropical Medicine, Antwerp, Belgium.ORCID 0000-0002-8785-5081
Bieke TackUnit of Tropical Bacteriology, Department of Clinical Sciences, Institute of Tropical Medicine, Antwerp, Belgium.ORCID 0000-0002-1129-0440
Kate C MellorLondon School of Hygiene and Tropical Medicine, Bloomsbury, London, UK.
Nicholas ThomsonLondon School of Hygiene and Tropical Medicine, Bloomsbury, London, UK.ORCID 0000-0002-4432-8505
Gordon DouganCambridge Institute of Therapeutic Immunology & Infectious Disease (CITIID),Department of Medicine, University of Cambridge, Cambridge, CB2 0SP, United Kingdom.
Stijn DeborggraeveDepartment of Biomedical Sciences, Institute of Tropical Medicine, Antwerp, Belgium.
Jan JacobsUnit of Tropical Bacteriology, Department of Clinical Sciences, Institute of Tropical Medicine, Antwerp, Belgium.ORCID 0000-0002-8657-6777
Kris LaukensAdrem Data Lab, Department of Computer Science, University of Antwerp, Antwerp, Belgium.ORCID 0000-0002-8217-2564
Sandra Van PuyveldeWellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridge, United Kingdom. sandra.vanpuyvelde@uantwerpen.be.ORCID 0000-0001-8434-5732
Instituut voor Tropische Geneeskunde · BEUniversity of Antwerp · BEUK Health Security Agency · GBInstitut Pasteur · FRUniversity of London · GBAustrian Agency for Health and Food Safety · ATBen-Gurion University of the Negev · ILCenters for Disease Control and Prevention · USJimma University · ETOllscoil na Gaillimhe – University of Galway · IESciensano (Belgium) · BEStatens Serum Institut · DKState Veterinary Administration · CZTechnical University of Denmark · DKUniversity of Cambridge · GBUniversity of East Anglia · GBUniversity of Liverpool · GBWageningen University & Research · NL

Funding

Biotechnology and Biological Sciences Research Council BB/CCG1720/1Biotechnology and Biological Sciences Research Council BB/R012504/1Biotechnology and Biological Sciences Research Council BBS/E/F/000PR10349Medical Research Council MC_PC_16093Wellcome TrustWellcome Trust 206194
6 · The paper itself

Abstract

Antimicrobial resistant Salmonella enterica serovar Concord (S. Concord) is known to cause severe gastrointestinal and bloodstream infections in patients from Ethiopia and Ethiopian adoptees, and occasional records exist of S. Concord linked to other countries. The evolution and geographical distribution of S. Concord remained unclear. Here, we provide a genomic overview of the population structure and antimicrobial resistance (AMR) of S. Concord by analysing genomes from 284 historical and contemporary isolates obtained between 1944 and 2022 across the globe. We demonstrate that S. Concord is a polyphyletic serovar distributed among three Salmonella super-lineages. Super-lineage A is composed of eight S. Concord lineages, of which four are associated with multiple countries and low levels of AMR. Other lineages are restricted to Ethiopia and horizontally acquired resistance to most antimicrobials used for treating invasive Salmonella infections in low- and middle-income countries. By reconstructing complete genomes for 10 representative strains, we demonstrate the presence of AMR markers integrated in structurally diverse IncHI2 and IncA/C2 plasmids, and/or the chromosome. Molecular surveillance of pathogens such as S. Concord supports the understanding of AMR and the multi-sector response to the global AMR threat. This study provides a comprehensive baseline data set essential for future molecular surveillance.

Indexed as

Anti-Bacterial AgentsDrug Resistance, BacterialEthiopiaGenomicsHumansSalmonellaAnti-Bacterial Agents

Identifiers

PMID37316492
PMCPMC10267216
OpenAlexW4380685036

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.