Table 2 Microbiological examination of the feces.
From: Mapping of etiologies of computed tomography-proven acute colitis: a prospective cohort study
BioFire FilmArray GI panel | Routine PCR | Culture | |||||||
|---|---|---|---|---|---|---|---|---|---|
Detectable pathogens | Tested, n (%) | Positive, n (%) | In association, n (%) | Detectable pathogens | Tested, n (%) | Positive, n (%) | Detectable pathogens | n (%) | |
Bacteria | Campylobacter jejuni, coli, upsaliensis | 179 (100%) | 56 (31.3%) | 11 (19.6%) | Campylobacter spp. | 179 (100%) | 54 (30.2%) | Campylobacter jejuni | 45 (83.3%) |
Clostridioides difficile (toxin A/B) | 179 (100%) | 21 (11.7%) | 4 (19%) | Campylobacter coli | 8 (14.8%) | ||||
Plesiomonas shigelloides | 179 (100%) | 1 (0.6%) | 1 (100%) | Clostridioides difficile | 143 (79.9%) | 17 (9.5%) | – | – | |
Salmonella | 179 (100%) | 8 (4.5%) | 1 (12.5%) | Salmonella spp. | 179 (100%) | 9 (5%) | Salmonella enteritidis | 1 (11.1%) | |
Yersinia enterolitica | 179 (100%) | 2 (1.1%) | 2 (100%) | Salmonella group B | 3 (33.3%) | ||||
Vibrio parahaemolyticus, vulnificus, cholerae | 179 (100%) | 1 (0.6%) | 0 (0%) | Salmonella group C | 2 (22.2%) | ||||
Vibrio cholerae | 179 (100%) | 0 (0%) | 0 (0%) | Salmonella group D | 1 (11.1%) | ||||
Enteroaggregative E. coli (EAEC) | 179 (100%) | 6 (3.4%) | 2 (33.3%) | Salmonella spp. | 2 (22.2%) | ||||
Enteropathogenic E. coli (EPEC) | 179 (100%) | 13 (7.3%) | 9 (69.2%) | Yersinia spp. | 11 (6.1%) | 1 (0.6%) | Yersinia enterocolitica | 1 (100%) | |
Enterotoxigenic E. coli (ETEC) | 179 (100%) | 3 (1.7%) | 3 (100%) | Shigella spp. | 179 (100%) | 6 (3.4%) | Shigella sonei | 3 (50%) | |
Shiga-like toxin-producing E. coli (STEC/EHEC) | 179 (100%) | 5 (2.8%) | 2 (40%) | Shigella flexneri | 3 (50%) | ||||
Escherichia coli 0 :157 | 179 (100%) | 0 (0%) | 0 (0%) | EHEC | 179 (100%) | 5 (2.8%) | EHEC | 1 (20%) | |
Shigella/enteroinvasive E. coli (EIEC) | 179 (100%) | 8 (4.5%) | 3 (37.5%) | EIEC | 179 (100%) | 2 (2.2%) | – | – | |
Parasites | Cryptosporidium spp. | 179 (100%) | 0 (0%) | 0 (0%) | |||||
Cyclospora cayetanensis | 179 (100%) | 0 (0%) | 0 (0%) | ||||||
Entamoeba histolytica | 179 (100%) | 2 (1.1%) | 1 (50%) | ||||||
Giardia lamblia | 179 (100%) | 0 (0%) | 0 (0%) | ||||||
Viruses | Adenovirus F40/41 | 179 (100%) | 0 (0%) | 0 (0%) | |||||
Astrovirus | 179 (100%) | 0 (0%) | 0 (0%) | ||||||
Norovirus GI/GII | 179 (100%) | 4 (2.2%) | 4 (100%) | ||||||
Rotavirus A | 179 (100%) | 2 (1.1%) | 1 (50%) | ||||||
Sapovirus I, II, IV, V | 179 (100%) | 2 (1.1%) | 1 (50%) | ||||||
TOTAL (positive patients) | – | 179 (100%) | 108 (60.3%) | – | – | 179 (100%) | 93 (52%) | – | 73 (40.8%) |
