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Extensive microbiological respiratory tract specimen characterization in critically ill COVID‐19 patients
- Source :
- Apmis
- Publication Year :
- 2021
- Publisher :
- John Wiley and Sons Inc., 2021.
-
Abstract
- Microbial co‐infections may contribute to the pulmonary deterioration in COVID‐19 patients needing intensive care treatment. The present study portrays the extent of co‐infections in COVID‐19 ICU patients. Conventional culture, molecular detections for atypical aetiologies, QiaStat‐Dx® respiratory panel V2 detecting 21 respiratory pathogens and ribosomal DNA genes 16S/18S amplicon‐based microbiome analyses were performed on respiratory samples from 34 COVID‐19 patients admitted to the ICU. Potential pathogens were detected in seven patients (21%) by culturing, in four patients (12%) by microbiome analysis and in one patient (3%) by respiratory panel. Among 20 patients receiving antibiotics prior to ICU admission, fungi (3 Candida albicans, 1 C. tropicalis, 1 C. dubliniensis) were cultured in 5 (15%) endotracheal aspirates. Among 14 patients who were antibiotic‐naive at ICU admission, two patients (6%) had bacterial respiratory pathogens (Staphylococcus aureus, Streptococcus pseudopneumoniae) cultured in their endotracheal aspirates. Microbiome analysis recognized four potential respiratory pathogens (3 Haemophilus influenza, 1 Fusobacterium necrophorum) isolated in samples from four other patients (12%). QiaStat‐Dx® respiratory panel V2 detected adenovirus in one patient (3%). The prevalence of pulmonary microbial co‐infections is modest among COVID‐19 patients upon admission to ICU. Microbiome analysis complements conventional microbial diagnostics in characterization of respiratory co‐infections.
- Subjects :
- 0301 basic medicine
Microbiology (medical)
Male
medicine.medical_specialty
medicine.drug_class
Critical Illness
Antibiotics
ved/biology.organism_classification_rank.species
Respiratory System
microbiome
medicine.disease_cause
SARS‐CoV‐2
Pathology and Forensic Medicine
Cohort Studies
03 medical and health sciences
0302 clinical medicine
COVID‐19
Internal medicine
Fusobacterium necrophorum
Haemophilus
medicine
co‐infections
Immunology and Allergy
Humans
Microbiome
Respiratory system
Aged
Streptococcus pseudopneumoniae
biology
business.industry
ved/biology
Coinfection
SARS-CoV-2
Microbiota
COVID-19
General Medicine
Original Articles
Middle Aged
biology.organism_classification
030104 developmental biology
medicine.anatomical_structure
Staphylococcus aureus
030220 oncology & carcinogenesis
Original Article
Female
business
microbiological characterization
Respiratory tract
Subjects
Details
- Language :
- English
- ISSN :
- 16000463 and 09034641
- Database :
- OpenAIRE
- Journal :
- Apmis
- Accession number :
- edsair.doi.dedup.....94e66c53b381ca7d759dcd20164754d0