Evidence map›Paper›PMID 31209523›Full record

ArticleIntensive care medicine2019

Identification of respiratory microbiota markers in ventilator-associated pneumonia.

Stéphane Emonet, Vladimir Lazarevic, Corinne Leemann Refondini, Nadia Gaïa, Stefano Leo, Myriam Girard, Valérie Nocquet Boyer, Hannah Wozniak, Lena Després, Gesuele Renzi and 4 more

Registry-linked trialOpen access · hybridAbstract read
In one paragraph

Article in Intensive care medicine, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. It is linked to trial NCT04849039 ("Pulmonary Microbiota and Related Immunity Role in Predicting Ventilator Associated- Pneumonia), which is not on this map. Cited by 54 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
54citing papers in PubMed, 2 pooled it
7.1field-weighted citation impact, top 2% 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.

NCT04849039 unknown statusnot on this mapstarted 2020, after this paper: background citation

"Pulmonary Microbiota and Related Immunity Role in Predicting Ventilator Associated- Pneumonia (VAP) Development in Mechanical Ventilated Patients"

TypeobservationalSponsorFondazione IRCCS Ca' Granda, Ospedale Maggiore PoliclinicoRan2020 to 2023Enrolled700ConditionsMechanical Ventilation
3 · Its place in the literature

Who cites it

54 citing papers in PubMed, 2 syntheses or guidelines pooled it, 87 citations in OpenAlex.

  1. Pooled it
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  13. Respiratory Microbiome of Carbapenem-ResistantPathogens (Basel, Switzerland) · 2025
    Article
  14. Article
  15. Observational
  16. Review
  17. Article
  18. Clinical relevance of lung microbiota composition in critically ill children with acute lower respiratory tract infections: insights from a retrospective analysis of metagenomic sequencing.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2025
    Article
  19. Review
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4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

14 authors at 1 institution in 2 countries.

Stéphane EmonetDivision of Infectious Diseases, Geneva University Hospitals and Faculty of Medicine, University of Geneva, 4 Rue Gabrielle-Perret-Gentil, 1211, Geneva, Switzerland. stephane.emonet@hcuge.ch.ORCID http://orcid.org/0000-0002-1201-742X
Vladimir LazarevicGenomic Research Laboratory, Geneva University Hospitals and Faculty of Medicine, University of Geneva, Geneva, Switzerland.
Corinne Leemann RefondiniDivision of Intensive Care, Geneva University Hospitals and Faculty of Medicine, University of Geneva, Geneva, Switzerland.
Nadia GaïaGenomic Research Laboratory, Geneva University Hospitals and Faculty of Medicine, University of Geneva, Geneva, Switzerland.
Stefano LeoGenomic Research Laboratory, Geneva University Hospitals and Faculty of Medicine, University of Geneva, Geneva, Switzerland.
Myriam GirardGenomic Research Laboratory, Geneva University Hospitals and Faculty of Medicine, University of Geneva, Geneva, Switzerland.
Valérie Nocquet BoyerDivision of Intensive Care, Geneva University Hospitals and Faculty of Medicine, University of Geneva, Geneva, Switzerland.
Hannah WozniakDivision of Intensive Care, Geneva University Hospitals and Faculty of Medicine, University of Geneva, Geneva, Switzerland.
Lena DesprésDivision of Intensive Care, Geneva University Hospitals and Faculty of Medicine, University of Geneva, Geneva, Switzerland.
Gesuele RenziBacteriology Laboratory, Geneva University Hospitals and Faculty of Medicine, University of Geneva, Geneva, Switzerland.
Khaled MostaguirClinical Research Centre, Geneva University Hospitals and Faculty of Medicine, University of Geneva, Geneva, Switzerland.
Elise Dupuis LozeronClinical Research Centre and Division of Clinical Epidemiology, Geneva University Hospitals and Faculty of Medicine, University of Geneva, Geneva, Switzerland.
Jacques SchrenzelDivision of Infectious Diseases, Geneva University Hospitals and Faculty of Medicine, University of Geneva, 4 Rue Gabrielle-Perret-Gentil, 1211, Geneva, Switzerland.
Jérôme PuginDivision of Intensive Care, Geneva University Hospitals and Faculty of Medicine, University of Geneva, Geneva, Switzerland.
University of Geneva · CH

Funding

CSRD VA 1
6 · The paper itself

Abstract

purposeTo compare bacteria recovered by standard cultures and metataxonomics, particularly with regard to ventilator-associated pneumonia (VAP) pathogens, and to determine if the presence of particular bacteria or microbiota in tracheal and oropharyngeal secretions during the course of intubation was associated with the development of VAP.

methodsIn this case-control study, oropharyngeal secretions and endotracheal aspirate were collected daily in mechanically ventilated patients. Culture and metataxonomics (16S rRNA gene-based taxonomic profiling of bacterial communities) were performed on serial upper respiratory samples from patients with late-onset definite VAP and their respective controls.

resultsMetataxonomic analyses showed that a low relative abundance of Bacilli at the time of intubation in the oropharyngeal secretions was strongly associated with the subsequent development of VAP. On the day of VAP, the quantity of human and bacterial DNA in both tracheal and oropharyngeal secretions was significantly higher in patients with VAP than in matched controls with similar ventilation times. Molecular techniques identified the pathogen(s) of VAP found by culture, but also many more bacteria, classically difficult to culture, such as Mycoplasma spp. and anaerobes.

conclusionsMolecular analyses of respiratory specimens identified markers associated with the development of VAP, as well as important differences in the taxa abundance between VAP and controls. Further prospective trials are needed to test the predictive value of these markers, as well as the relevance of uncultured bacteria in the pathogenesis of VAP.

Indexed as

MicrobiotaAdultAgedAPACHEBiomarkersCase-Control StudiesCohort StudiesCulture TechniquesFemaleHumansIntensive Care UnitsMaleMiddle AgedOropharynxPneumonia, Ventilator-AssociatedProspective StudiesBiomarkersRNA, Ribosomal, 16SEtiologyMetataxonomicsMolecularPathogenesisPneumoniaPreventionVAP

Identifiers

PMID31209523
PMCPMC6667422
OpenAlexW2950561897

What OpenQuestion holds

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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.