COVID-19 - Coronavirus disease 2019

Role of the microbiota in the evolution of the SARS-CoV-2 disease in hospitalized patients – MICROBIOCOVID

Submission summary

Patients hospitalized for COVID-19 may need intensive care (e.g. mechanical ventilation) during hospitalization. Some risk factors are already known (e.g. sex, comorbidities, initial clinical presentation inflammatory cytokines), but better targeting of such patients is still needed, at least because existing risk factors are not strong enough to provide an accurate prediction. Care organization would benefit for such a predictive tool.
Oropharyngeal and gut microbiota could fill a significant gap in predictive performances. We therefore propose to take advantage of the French-COVID cohort and sample 200 patients (oropharyngeal and rectal swab) admitted in infectious disease department at Bichat Hospital and at high risk of needing intensive care during hospitalization. We plan to perform metagenomic sequencing and bioinformatic analysis of these samples to characterize the diversity of bacterial species present in the oropharynx and the gut and to identify new factors associated with the need for intensive care. Aside metagenomic analyses, we will perform semi-quantitative cultures of the oropharyngeal and gut microbiota to identify and quantify pathogens in order to predict the risk of bacterial infections in COVD-19 patients.
For patients transferred in intensive care unit, we will to perform another series of samples to better characterize the evolution of microbiota during mechanical ventilation and identify factors associated with the risk of developing a ventilator-associated pneumonia.

Project coordination

Xavier Lescure (DMU APHP.Nord : Urgences, Gériatrie, Médecine Interne, Maladies Infectieuses, Réanimation Médicale, Soins palliatifs, PASS)

The author of this summary is the project coordinator, who is responsible for the content of this summary. The ANR declines any responsibility as for its contents.


INVICTUS DMU APHP.Nord : Urgences, Gériatrie, Médecine Interne, Maladies Infectieuses, Réanimation Médicale, Soins palliatifs, PASS
IAME Infection, anti-microbien, modélisation, évolution

Help of the ANR 197,640 euros
Beginning and duration of the scientific project: April 2020 - 18 Months

Useful links

Explorez notre base de projets financés



ANR makes available its datasets on funded projects, click here to find more.

Sign up for the latest news:
Subscribe to our newsletter