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Table 3 Comparison between experimentally measured and computationally predicted antibiotics susceptibility profiles

From: MICRA: an automatic pipeline for fast characterization of microbial genomes from high-throughput sequencing data

Antibiotic

Class

Exp.

MICRA

Kuznetsov et al.

ResFinder

Ampicillin

Beta-lactam, penicillins

R

R*

ND

R**

Amoxicillin

Beta-lactam, penicillins

R

R*

ND

R**

Piperacillin

Beta-lactam, penicillins

R

R*

S

R**

Cefuroxim

Beta-lactam, cephalosporins

R

R*

ND

R**

Cefoxitin

Beta-lactam, cephalosporins

R

R

R

R**

Cefotaxim

Beta-lactam, cephalosporins

R

R*

ND

R**

Ceftazidim

Beta-lactam, cephalosporins

R

R

R

R**

Cefpodoxime

Beta-lactam, cephalosporins

R

R

R

R**

Imipenem

Beta-lactam, carbapenems

S

S

S

R**

Meropenem

Beta-lactam, carbapenems

S

S

S

R**

Amikacin

Aminoglycoside

S

S

S

ND

Gentamicin

Aminoglycoside

S

S

S

ND

Kanamycin

Aminoglycoside

S

S

S

ND

Tobramycin

Aminoglycoside

S

S

S

ND

Streptomycin

Aminoglycoside

R

R

R

R

Ciprofloxacin

Fluoroquinolone

S

S

ND

S

Norfloxacin

Fluoroquinolone

S

R*

ND

S

Tetracyclin

Polyketide

R

R

R

R

Nitrofurantoin

Furans

S

S

S

ND

Trimethoprim/sulfamethoxazole

Aminopyrimidine

R

R

R

R

Chloramphenicol

Phenicol

S

R

ND

S

Fosfomycin

Phosphonic acids

S

S

R

S

  1. Note that ResFinder mainly makes predictions for antibiotic classes rather than individual drugs. R resistant, S sensitive, R* not sensitive considered as a particular resistance, R** prediction for beta-lactam class, not individual drugs, ND not determined. Incorrect predictions appear in bold text