TABLE 7

Details of antimicrobial discrepancies for validation set and genotype prediction tool v2.0

Type of error and antimicrobial agent(s)IsolateaInitial consensus phenotypebMIC (mg/liter) and/or phenotype on repeat testingbGenotyping details
Very major errors
    MethicillinC00001115*#R0.5 (S)No mecA or mecC detected
C00001162*R16No mecA or mecC detected
    CiprofloxacinC00013185R1.5No significant gyrA or grlA mutation
C00001162*R2No significant gyrA or grlA mutation
C00001092*R2No significant gyrA or grlA mutation
C00001115*R2No significant gyrA or grlA mutation
C00001105#R<0.125 (S)No significant gyrA or grlA mutation
C00001109#R<0.125 (S)No significant gyrA or grlA mutation
    ErythromycinC00001147#R0.75 (S)No erm or msrA gene detected
C00013384#R0.75 (S)No erm or msrA gene detected
    Erythromycin/clindamycinC00001224R/R2/NDNo erm or msrA gene detected
C00001162*R/R3/NDNo erm or msrA gene detected
    Fusidic acidC00013212RR (disc only)V90I mutation in fusA
C00013194RR (disc only)V90I mutation in fusA
C00001259RR (disc only)Wild-type fusA, no fusB or far detected
C00001276RR (disc only)T656S substitution in fusA
    TrimethoprimC00001092*#RS (disc only)Wild-type dfrB, no dfrA or dfrG detected
C00001235#RS (disc only)Wild-type dfrB, no dfrA or dfrG detected
    GentamicinC00001115*R24No aacA-aphD, aadD or aadE, or aphA3 detected
C00013331R3No aacA-aphD, aadD or aadE, or aphA3 detected
Major errors
    MethicillinC00001222#S16 (R)mecA gene detected, 100% relative coverage
C00001080*S0.3mecA gene detected, 100% relative coverage
    CiprofloxacinC00001080*#S2 (R)S80F mutation in grlA, S84l mutation in gyrA
    ErythromycinC00001249S0.25ermA gene detected, 100% relative coverage
C00001189S0.25ermC gene detected, 100% relative coverage
C00001080*S0.5ermC gene detected, 100% relative coverage
    TetracyclineC00012796S0.19tetK gene detected, 100% relative coverage
C00001247S0.75tetM gene detected, 95% relative coverage
    TrimethoprimC00001240SS (disc only)H31N mutation in dfrB, usually confers resistance
C00001123#SR (disc only)dfrG gene detected, 100% relative coverage
  • a Isolates with discrepancies for two or more antimicrobial agents are indicated by an asterisk after the isolate name. Isolates for which the phenotype matched the genotype on repeat testing are indicated by a hash symbol (#) after the isolate name.

  • b R, resistant; S, sensitive. Erythromycin and clindamycin were tested; the first phenotype or MIC is for erythromycin, and the second is for clindaymycin. ND, not done.