Evidence map›Paper›PMID 25232170›Full record

ArticleJournal of clinical microbiology2014

Inconsistency of phenotypic and genomic characteristics of Campylobacter fetus subspecies requires reevaluation of current diagnostics.

Linda van der Graaf-van Bloois, William G Miller, Emma Yee, Martine Rijnsburger, Jaap A Wagenaar, Birgitta Duim

Open access · bronzeAbstract readComparative StudyEvaluation Study
In one paragraph

Article in Journal of clinical microbiology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.

0numbers the graph read from it
0cells of the map it votes in
32citing papers in PubMed
6.0field-weighted citation impact, top 4% 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

32 citing papers in PubMed, 50 citations in OpenAlex.

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  9. Genomic epidemiology ofFrontiers in veterinary science · 2022
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  10. Phylogenomic analysis forVeterinary world · 2021
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  11. Accurate and fast identification ofVeterinary and animal science · 2021
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  12. Article
  13. Article
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  15. Article
  16. Phylogenomic Analysis ofFrontiers in microbiology · 2020
    Article
  17. Complete Genome Sequences of the Campylobacter fetus subsp.Microbiology resource announcements · 2019
    Article
  18. Pathogenomics of EmergingClinical microbiology reviews · 2019
    Review
  19. Article
  20. Living in Cold Blood:Frontiers in microbiology · 2019
    Review
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

6 authors at 3 institutions in 2 countries.

Linda van der Graaf-van BlooisDepartment of Infectious Diseases and Immunology, Faculty of Veterinary Medicine, Utrecht University, Utrecht, the Netherlands WHO Collaborating Centre for Campylobacter and OIE Reference Laboratory for Campylobacteriosis, Utrecht, the Netherlands.
William G MillerProduce Safety and Microbiology Research Unit, Agricultural Research Service, U.S. Department of Agriculture, Albany, California, USA.
Emma YeeProduce Safety and Microbiology Research Unit, Agricultural Research Service, U.S. Department of Agriculture, Albany, California, USA.
Martine RijnsburgerVU University Medical Center, Department of Medical Microbiology and Infection Control, Amsterdam, the Netherlands.
Jaap A WagenaarDepartment of Infectious Diseases and Immunology, Faculty of Veterinary Medicine, Utrecht University, Utrecht, the Netherlands WHO Collaborating Centre for Campylobacter and OIE Reference Laboratory for Campylobacteriosis, Utrecht, the Netherlands Central Veterinary Institute of Wageningen UR, Lelystad, the Netherlands.
Birgitta DuimDepartment of Infectious Diseases and Immunology, Faculty of Veterinary Medicine, Utrecht University, Utrecht, the Netherlands WHO Collaborating Centre for Campylobacter and OIE Reference Laboratory for Campylobacteriosis, Utrecht, the Netherlands b.duim@uu.nl.
Utrecht University · NLAgricultural Research Service · USAmsterdam UMC Location VUmc · NL

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Classifications of the Campylobacter fetus subspecies fetus and venerealis were first described in 1959 and were based on the source of isolation (intestinal versus genital) and the ability of the strains to proliferate in the genital tract of cows. Two phenotypic assays (1% glycine tolerance and H2S production) were described to differentiate the subspecies. Multiple molecular assays have been applied to differentiate the C. fetus subspecies, but none of these tests is consistent with the phenotypic identification methods. In this study, we defined the core genome and accessory genes of C. fetus, which are based on the closed genomes of five C. fetus strains. Phylogenetic analysis of the core genomes of 23 C. fetus strains of the two subspecies showed a division into two clusters. The phylogenetic core genome clusters were not consistent with the phenotypic classifications of the C. fetus subspecies. However, they were consistent with the molecular characteristics of the strains, which were determined by multilocus sequence typing, sap typing, and the presence/absence of insertion sequences and a type I restriction modification system. The similarity of the genome characteristics of three of the phenotypically defined C. fetus subsp. fetus strains to C. fetus subsp. venerealis strains, when considering the core genome and accessory genes, requires a critical evaluation of the clinical relevance of C. fetus subspecies identification by phenotypic assays.

Indexed as

AnimalsBacteriological TechniquesCampylobacter fetusCampylobacter InfectionsCattleCattle DiseasesCluster AnalysisDNA, BacterialGenome, BacterialGenotypeMolecular TypingPhenotypePhylogenyDNA, Bacterial

Identifiers

PMID25232170
PMCPMC4313284
OpenAlexW2142165000

What OpenQuestion holds

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Registered trials

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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.