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Table 2 Results of the microbiological investigations performed in 92 critically ill patients with severe SARS-CoV-2 pneumonia

From: Bacterial and viral co-infections in patients with severe SARS-CoV-2 pneumonia admitted to a French ICU

  Performed among 92 critically ill patients with SARS-CoV-2 pneumonia
N, (%)
Results N (%)
Culture of respiratory tract secretions sample 67 (73%) Sterile 24 (36%)
 Sputum 16    Pathogenic bacteriaa 19 (28%)
 Tracheal aspirate 39       Staphylococcus aureus 6
 Protected distal sampling 12       Haemophilus influenzae 6
      Streptococcus pneumonia 5
      Escherichia coli 2
      Klebsiella pneumoniae 2
      Enterobacter cloacae 1
      Pseudomonas aeruginosa 1
      Acinetobacter baumannii 1
Oropharyngeal flora 24 (36%)
Legionella pneumophila urinary antigen test (BinaxNOW®—Abbott) 88 (96%) Negative 88 (100%)
Positive 0
Streptococcus pneumoniae urinary antigen test (BinaxNOW®—Abbott) 88 (96%) Negative 87 (99%)
Positive 1
Blood cultures 80 (87%) Sterile 79 (99%)
   Staphylococcus aureus 1
Multiplex PCRs (Film Array Biomerieux®) 56 (61%) No pathogen detected 45 (80%)
 Panel RP2 plus on nasopharyngeal swab 26    Bacteria
 Panel Pneumonia Plus on respiratory tract secretions 30       Staphylococcus aureus 5
      Haemophilus influenzae 4
      Pseudomonas aeruginosa 2
      Moraxella catarrhalis 1
      Acinetobacter baumannii 1
      Streptococcus pneumonia 1
      Enterobacter cloacae 0
      Escherichia coli 0
      Klebsiella aerogenes 0
      Klebsiella oxytoca 0
      Klebsiella pneumoniae 0
      Proteus spp. 0
      Serratia marcescens 0
      Streptococcus agalactiae 0
      Streptococcus pyogenes 0
      Bordetella pertussis 0
      Bordetella parapertussis 0
   Atypical bacteria
      Chlamydophila pneumoniae 0
      Mycoplasma pneumoniae 0
      Legionella pneumophila 0
   Viruses
      Influenza A 0
      Influenza B 0
      Adenovirus 0
      Respiratory Syncytial virus 0
      Coronavirus HKU1, NL63, 229E, OC43 0
      MERS Coronavirus 0
      Human metapneumovirus 0
      Rhinovirus/enterovirus 0
      Parainfluenza virus 1, 2, 3 and 4 0
Influenza A and B specific PCR 13 (14%) Negative 13 (100%)
Positive 0 (0%)
  1. aIn five patients, two pathogenic bacteria were isolated in the same sample