Evidence map›Paper›PMID 31107203›Full record

ArticleMicrobial genomics2019

Emergence and divergence of major lineages of Shiga-toxin-producing Escherichia coli in Australia.

Danielle J Ingle, Anders Gonçalves da Silva, Mary Valcanis, Susan A Ballard, Torsten Seemann, Amy V Jennison, Ivan Bastian, Rolf Wise, Martyn D Kirk, Benjamin P Howden and 1 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Microbial genomics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed
–field-weighted citation impact
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

7 citing papers in PubMed.

  1. Article
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  6. Early termination of the Shiga toxin transcript generates a regulatory small RNA.Proceedings of the National Academy of Sciences of the United States of America · 2020
    Article
  7. 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

11 authors.

Danielle J Ingle1 Microbiological Diagnostic Unit Public Health Laboratory at the University of Melbourne, The Peter Doherty Institute for Infection and Immunity, Melbourne, Australia.
Anders Gonçalves da Silva1 Microbiological Diagnostic Unit Public Health Laboratory at the University of Melbourne, The Peter Doherty Institute for Infection and Immunity, Melbourne, Australia.
Mary Valcanis1 Microbiological Diagnostic Unit Public Health Laboratory at the University of Melbourne, The Peter Doherty Institute for Infection and Immunity, Melbourne, Australia.
Susan A Ballard1 Microbiological Diagnostic Unit Public Health Laboratory at the University of Melbourne, The Peter Doherty Institute for Infection and Immunity, Melbourne, Australia.
Torsten Seemann1 Microbiological Diagnostic Unit Public Health Laboratory at the University of Melbourne, The Peter Doherty Institute for Infection and Immunity, Melbourne, Australia.
Amy V Jennison4 Public Health Microbiology, Forensic and Scientific Services, Queensland Department of Health, Queensland, Australia.
Ivan Bastian5 SA Pathology, South Australia, Australia.
Rolf Wise5 SA Pathology, South Australia, Australia.
Martyn D Kirk2 National Centre for Epidemiology and Population Health, The Australian National University, Canberra, Australia.
Benjamin P Howden1 Microbiological Diagnostic Unit Public Health Laboratory at the University of Melbourne, The Peter Doherty Institute for Infection and Immunity, Melbourne, Australia.
Deborah A Williamson1 Microbiological Diagnostic Unit Public Health Laboratory at the University of Melbourne, The Peter Doherty Institute for Infection and Immunity, Melbourne, Australia.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Shiga-toxin-producing Escherichia coli (STEC) infection is an important global cause of foodborne disease. To date however, genomics-based studies of STEC have been predominately focused upon STEC collected in the Northern Hemisphere. Here, we demonstrate the population structure of 485 STEC isolates in Australia, and show that several clonal groups (CGs) common to Australia were infrequently detected in a representative selection of contemporary STEC genomes from around the globe. Further, phylogenetic analysis demonstrated that lineage II of the global O157:H7 STEC was most prevalent in Australia, and was characterized by a frameshift mutation in flgF, resulting in the H-non-motile phenotype. Strong concordance between in silico and phenotypic serotyping was observed, along with concordance between in silico and conventional detection of stx genes. These data represent the most comprehensive STEC analysis from the Southern Hemisphere, and provide a framework for future national genomics-based surveillance of STEC in Australia.

Indexed as

Genome, BacterialMolecular EpidemiologyAustraliaComputer SimulationDrug Resistance, BacterialEscherichia coli InfectionsEscherichia coli O157Escherichia coli ProteinsEvolution, MolecularHumansMultilocus Sequence TypingMutationPhenotypePhylogenyPublic HealthSerotypingEscherichia coli ProteinsShiga Toxinenteric pathogensepidemiologyevolutiongenomic epidemiologySTEC

Identifiers

PMID31107203
PMCPMC6562248

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.