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Table 4 Agreement between phenotypically tested and whole genome sequence predicted antimicrobial resistance

From: Whole genome sequencing reveals high clonal diversity of Escherichia coli isolated from patients in a tertiary care hospital in Moshi, Tanzania

Antibiotic name DSTa WGSb Agreement Kappa P value
Amoxicillin-Clavulanate 15 (62.5%) 14 (58.3%) 0.875 0.74 0.0001
Ampicillin 16 (66.7%) 14 (58.3%) 0.9167 0.82 0.00
Ceftazidime 13 (54.2%) 13 (54.2%) 0.9167 0.83 0.00
Ceftriaxone 15 (62.5) 13 (54.2%) 0.9167 0.84 0.00
Chloramphenicol 2 (8.3%) 2 (8.3%) 0.8333 −0.09 0.672
Ciprofloxacin 15 (62.5%) 14 (58.3%) 0.875 0.74 0.0001
Gentamycin 7 (29.2%) 7 (29.2%) 0.9167 0.79 0.00
Trimethoprim Sulpha 17 (70.8%) 4 (16.7%) 0.4583 0.15 0.0799
  1. a phenotype-based resistance
  2. b whole genome sequence-based resistance