Table 2.
Summarized molecular characterization, antimicrobial resistance and toxin profile of the Staphylococcus aureus isolates investigated.
| Isolates | Origin 1 | CC 2 | ST 3 | spa | Antimicrobial Resistance Profile | Biocide and Metal Resistance Genes | Capsule Serotype 7 | cap gene (cap 8) | cap gene (cap 5) | Hemolysins | Leukocidin (luk) Components | Biofilm-Associated Genes | Adhesion Factors | Superantigens | ||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Phenotype 4 | MIC 5 of Streptomycin | Genes Detected | ||||||||||||||
| 1FR * | M 1 | ST97 | t1236 | PEN | 32 6 | blaZ, str | not tested | NEG 8 | POS 8 | hla, hlb, hld | NEG | icaC, icaD | clfA, fib, fnbA, fnbB, sasG | |||
| 6RR * | M 2 | CC152 | ST152 | t458 | ERY, CLI | 32 | erm(C), str | CP5 | NEG | POS | hla, hlb, hld | lukS-PV/lukF-PV | icaA, icaD | clfA, clfB, cna, fnbA, fnbB | ||
| 11RR * | M 3 | ST97 | t1236 | PEN | ‹4 | blaZ, str | smr | nt | NEG | POS | hla, hlb, hld | NEG | icaC, icaD | clfA, fib, fnbA, fnbB, sasG | ||
| 24RR * | M 5 | CC3666 | ST5477 | t1236 | PEN, TET | 32 | blaZ, tet(K), tet(L), str | nt | POS | NEG | hla, hld | lukD | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | tsst-1, sei, sem, sen, seo, seu | |
| 26FR | M 6 | t1236 | PEN | 32 | blaZ, str | not tested | not tested | not tested | not tested | not tested | not tested | not tested | ||||
| 26FL | M 6 | CC97 | t1236 | PEN | 16 | blaZ, str | nt | NEG | POS | hla, hlb, hld | lukD, lukE | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | |||
| 26RL2 | M 6 | nt7 | PEN | 32 | blaZ, str | nt | not tested | not tested | not tested | not tested | not tested | not tested | ||||
| 27FL | M 6 | t1236 | PEN | 32 | blaZ, str | nt | not tested | not tested | not tested | not tested | not tested | not tested | sec | |||
| 27RLw | M 6 | CC97 | t1236 | PEN | ‹4 | blaZ, str | nt | NEG | POS | hla, hlb, hld | lukD, lukE | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | |||
| 27RR | M 6 | t1398 | TET | 4 | tet(K), str | nt | not tested | not tested | not tested | not tested | not tested | not tested | ||||
| 36RR | M 9 | CC97 | t1236 | PEN | 32 | blaZ, str | nt | NEG | POS | hla, hlb, hld | lukD, lukE | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | |||
| 37RR | M 9 | t9432 | PEN, TET | ‹4 | blaZ, tet(K), str | nt | not tested | not tested | not tested | not tested | not tested | not tested | ||||
| 39FR | M 10 | CC97 | t2112 | PEN | 8 | blaZ, str | nt | NEG | POS | hla, hlb, hld | lukD, lukE | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | |||
| 40FL | M 10 | CC97 | t1236 | PEN, TET | 32 | blaZ, tet(K), str | nt | NEG | POS | hla, hlb, hld | lukD, lukE | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | |||
| 43RL | M 11 | CC97 | t18835 | PEN, TET | 32 | blaZ, tet(K), str | nt | NEG | POS | hla, hlb, hld | lukD, lukE | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | |||
| 44RR | M 11 | CC3591 | t458 | ‹4 | str | smr | CP8 | POS | NEG | hla, hlb, hld | lukM/lukF-PV (P83) | icaA, icaC, icaD | clfA, clfB, fib, cna, fnbA | |||
| 63FL | K | CC152 | ST152 | t355 | ERY, CLI | 32 | erm(C), str | not tested | NEG | POS | hla, hlb, hld | lukS-PV/lukF-PV | icaA, icaD | clfA, clfB, cna, fnbA, fnbB | ||
| 71FL | M 14 | CC3591 | ST5475 | t355 | TET | 32 | tet(K), str | nt | POS | NEG | hla, hlb, hld | NEG | icaA, icaC, icaD | clfA, clfB, fib, cna, fnbA | sem, seo | |
| 74FL | M 14 | t1236 | PEN, TET | 32 | blaZ, tet(K), str | nt | not tested | not tested | not tested | not tested | not tested | not tested | ||||
| 75FR | M 15 | CC97 | t10103 | PEN, TET | 32 | blaZ, tet(K), str | nt | NEG | POS | hla, hlb, hld | lukD, lukE | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | |||
| 75FL | M 15 | t1236 | PEN, TET | 32 | blaZ, tet(K), str | nt | not tested | not tested | not tested | not tested | not tested | not tested | ||||
| 76RR | M 16 | CC3591 | ST5476 | t458 | ‹4 | str | CP8 | POS | NEG | hla, hlb, hld | lukM/lukF-PV (P83) | icaA, icaC, icaD | clfA, clfB, fib, cna, fnbA | |||
| 77RR | M 17 | CC3591 | t458 | 16 | str | CP8 | POS | NEG | hla, hlb, hld | lukM/lukF-PV (P83) | icaA, icaC, icaD | clfA, clfB, fib, cna, fnbA | ||||
| 78FL | M 17 | CC97 | t1236 | PEN, TET | 32 | blaZ, tet(K), str | nt | NEG | POS | hla, hlb, hld | lukD, lukE | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | |||
| 80RL | M 18 | t380 | PEN, TET | 32 | blaZ, tet(K), str | nt | not tested | not tested | not tested | not tested | not tested | not tested | sec | |||
| 82FL | M 18 | t380 | PEN, TET | ‹4 | blaZ, tet(K), str | not tested | not tested | not tested | not tested | not tested | not tested | not tested | ||||
| 83RL | M 18 | CC97 | t380 | PEN | 32 | blaZ, str | nt | NEG | POS | hla, hlb, hld | lukD, lukE | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | |||
| 84RL | M 18 | t380 | PEN, TET | 32 | blaZ, tet(K), str | nt | not tested | not tested | not tested | not tested | not tested | not tested | ||||
| 85RR | M 19 | CC97 | t1236 | PEN, TET | 32 | blaZ, tet(K), str | nt | NEG | POS | hla, hlb, hld | lukD, lukE | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | |||
| 85RL | M 19 | t10103 | PEN, TET | 32 | blaZ, tet(K), str | qacAB | nt | not tested | not tested | not tested | not tested | not tested | not tested | |||
| 86FL | M 19 | t1236 | PEN, TET | 32 | blaZ, tet(K), str | nt | not tested | not tested | not tested | not tested | not tested | not tested | ||||
| 87FR | M 19 | t10103 | PEN, TET | 32 | blaZ, tet(K), str | nt | not tested | not tested | not tested | not tested | not tested | not tested | ||||
| 87RL | M 19 | t1236 | PEN, TET | 32 | blaZ, tet(K), str | nt | not tested | not tested | not tested | not tested | not tested | not tested | ||||
| 90FR | M 20 | t9432 | PEN, TET | 32 | blaZ, tet(K), str | nt | not tested | not tested | not tested | not tested | not tested | not tested | ||||
| 90FL | M 20 | t9432 | PEN, TET | 32 | blaZ, tet(K), str | not tested | not tested | not tested | not tested | not tested | not tested | not tested | ||||
| 91FL | M 20 | CC97 | t9432 | PEN | 32 | blaZ, str | nt | NEG | POS | hla, hlb, hld | lukD, lukE | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | |||
| 100RR | M 22 | CC97 | t1236 | PEN, TET | ‹4 | blaZ, tet(K), str | qacAB | nt | NEG | POS | hla, hlb, hld | lukD, lukE | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | ||
| 100RL | M 22 | CC97 | t1236 | PEN, TET | ‹4 | blaZ, tet(K), str | nt | NEG | POS | hla, hlb, hld | lukD, lukE | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | |||
| 101RR | M 22 | CC97 | t10103 | PEN | 32 | blaZ, str | nt | NEG | POS | hla, hlb, hld | lukD, lukE | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | |||
| 101RL | M 22 | t10103 | PEN | 32 | blaZ, str | nt | not tested | not tested | not tested | not tested | not tested | not tested | ||||
| 103FR | M 22 | CC3666 | t18853 | PEN, TET | 32 | blaZ, tet(K), str | smr | nt | POS | NEG | hla, hlb, hld | lukD | icaA, icaC, icaD | clfA, clfB, fib, fnbA, fnbB, sasG | tsst-1, sei, sem, sen, seo, seu | |
| 104FR | M 23 | t1236 | PEN, TET | 32 | blaZ, tet(K), str | smr | nt | not tested | not tested | not tested | not tested | not tested | not tested | |||
| 106FL2 | M 24 | t18835 | PEN, TET | 32 | blaZ, tet(K), str | qacAB | nt | not tested | not tested | not tested | not tested | not tested | not tested | |||
1 Origin: M = Musanze Farm, K = Kigali Farm. 2 clonal complex. 3 sequence type. 4 Phenotype: PEN = penicillin; CIP = ciprofloxacin; CHL = chloramphenicol; CLI = clindamycin; ERY = erythromycin; SXT = trimethoprim-sulfamethoxazole; TET = tetracycline; FOX = cefoxitin, TEC = teicoplanin. 5 mg/L. 6 32 or higher (mg/L); 7 Capsule serotype: nt = non-typable; CP5 = Serotype 5; CP8 = Serotype 8. 8 NEG = negative, POS = positive. * analysed by whole-genome sequencing.