Supplemental Table 2. Interpretation of UPGMA dendrogram generated from the genetic distance matrix (Nei, 1972) and the genetic interpretation of the MLEE patterns of S. aureus .
| Taxon a | Cluster b | Strain d | Isolate e | Bacterial populations f | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| or NC c | n | % | n | % | A (n and %) | B (n and %) | C (n and %) | D (n and %) | E (n and %) | ||||||
| I | ∑ | 98 | 17.72 | 126 | 20.66 | 44 | 33.33 | 70 | 25.74 | - | - | 7 | 29.17 | 5 | 3.31 |
| Cluster 1 | 52 | 9.40 | 72 | 11.80 | 32 | 24.24 | 29 | 10.66 | - | - | 7 | 29.17 | 4 | 2.65 | |
| Cluster 2 | 10 | 1.81 | 15 | 2.46 | 2 | 1.52 | 13 | 4.78 | - | - | - | - | - | - | |
| Cluster 3 | 2 | 0.36 | 2 | 0.33 | 2 | 1.52 | - | - | - | - | - | - | - | - | |
| Cluster 4 | 3 | 0.54 | 3 | 0.49 | 3 | 2.27 | - | - | - | - | - | - | - | - | |
| Cluster 5 | 4 | 0.72 | 4 | 0.66 | - | - | 4 | 1.47 | - | - | - | - | - | - | |
| Cluster 6 | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| Cluster 7 | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| Cluster 8 | 3 | 0.54 | 5 | 0.82 | - | - | 5 | 1.84 | - | - | - | - | - | - | |
| Cluster 9 | 3 | 0.54 | 3 | 0.49 | - | - | 3 | 1.10 | - | - | - | - | - | - | |
| Cluster 10 | 7 | 1.27 | 7 | 1.15 | - | - | 7 | 2.57 | - | - | - | - | - | - | |
| Cluster 11 | 5 | 0.90 | 5 | 0.82 | 2 | 1.52 | 3 | 1.10 | - | - | - | - | - | - | |
| NC | 5 | 0.90 | 6 | 0.98 | 3 | 2.27 | 2 | 0.74 | - | - | - | - | 1 | 0.66 | |
| II | ∑ | 13 | 2.35 | 17 | 2.79 | - | - | 17 | 6.25 | - | - | - | - | - | - |
| Cluster 12 | 4 | 0.72 | 4 | 0.66 | - | - | 4 | 1.47 | - | - | - | - | - | - | |
| Cluster 13 | 5 | 0.90 | 9 | 1.48 | - | - | 9 | 3.31 | - | - | - | - | - | - | |
| NC | 4 | 0.72 | 4 | 0.66 | - | - | 4 | 1.47 | - | - | - | - | - | - | |
| III | ∑ | 10 | 1.81 | 11 | 1.80 | 11 | 8.33 | - | - | - | - | - | - | - | - |
| Cluster 14 | 4 | 0.72 | 4 | 0.66 | 4 | 3.03 | - | - | - | - | - | - | - | - | |
| Cluster 15 | 3 | 0.54 | 4 | 0.66 | 4 | 3.03 | - | - | - | - | - | - | - | - | |
| Cluster 16 | 2 | 0.36 | 2 | 0.33 | 2 | 1.52 | - | - | - | - | - | - | - | - | |
| NC | 1 | 0.18 | 1 | 0.16 | 1 | 0.76 | - | - | - | - | - | - | - | - | |
| IV | ∑ | 55 | 9.95 | 62 | 10.16 | 3 | 2.27 | 34 | 12.50 | - | - | - | - | 25 | 16.56 |
| Cluster 17 | 11 | 1.99 | 13 | 2.13 | - | - | 3 | 1.10 | - | - | - | - | 10 | 6.62 | |
| Cluster 18 | 30 | 5.42 | 33 | 5.41 | - | - | 2- | 7.35 | - | - | - | - | 13 | 8.61 | |
| Cluster 19 | 3 | 0.54 | 5 | 0.82 | - | - | 5 | 1.84 | - | - | - | - | - | - | |
| Cluster 20 | 2 | 0.36 | 2 | 0.33 | - | - | 1 | 0.37 | - | - | - | - | 1 | 0.66 | |
| Cluster 21 | 3 | 0.54 | 3 | 0.49 | - | - | 3 | 1.10 | - | - | - | - | - | - | |
| Cluster 22 | 3 | 0.54 | 3 | 0.49 | 3 | 2.27 | - | - | - | - | - | - | - | - | |
| NC | 3 | 0.54 | 3 | 0.49 | - | - | 2 | 0.74 | - | - | - | - | 1 | 0.66 | |
| V | ∑ | 16 | 2.89 | 17 | 2.79 | 1 | 0.76 | 15 | 5.51 | - | - | - | - | 1 | 0.66 |
| Cluster 23 | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| Cluster 24 | 5 | 0.90 | 6 | 0.98 | - | - | 6 | 2.21 | - | - | - | - | - | - | |
| Cluster 25 | 6 | 1.08 | 6 | 0.98 | - | - | 6 | 2.21 | - | - | - | - | - | - | |
| NC | 3 | 0.54 | 3 | 0.49 | 1 | 0.76 | 1 | 0.37 | - | - | - | - | 1 | 0.66 | |
| VI | ∑ | 14 | 2.53 | 14 | 2.30 | - | - | 7 | 2.57 | - | - | - | - | 7 | 4.64 |
| Cluster 26 | 7 | 1.27 | 7 | 1.15 | - | - | - | - | - | - | - | - | 7 | 4.64 | |
| Cluster 27 | 6 | 1.08 | 6 | 0.98 | - | - | 6 | 2.21 | - | - | - | - | - | - | |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| VII | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| VIII | ∑ | 2 | 0.36 | 2 | 0.33 | - | - | 1 | 0.37 | - | - | - | - | 1 | 0.66 |
| Cluster 28 | 2 | 0.36 | 2 | 0.33 | - | - | 1 | 0.37 | - | - | - | - | 1 | 0.66 | |
| IX | ∑ | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - |
| NC | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| X | ∑ | 25 | 4.52 | 25 | 4.10 | 18 | 13.64 | 5 | 1.84 | - | - | 2 | 8.33 | - | - |
| Cluster 29 | 5 | 0.90 | 5 | 0.82 | 3 | 2.27 | 1 | 0.37 | - | - | 1 | 4.17 | - | - | |
| Cluster 30 | 3 | 0.54 | 3 | 0.49 | - | - | 2 | 0.74 | - | - | 1 | 4.17 | - | - | |
| Cluster 31 | 8 | 1.45 | 8 | 1.31 | 8 | 6.06 | - | - | - | - | - | - | - | - | |
| Cluster 32 | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| Cluster 33 | 2 | 0.36 | 2 | 0.33 | 2 | 1.52 | - | - | - | - | - | - | - | - | |
| Cluster 34 | 2 | 0.36 | 2 | 0.33 | 2 | 1.52 | - | - | - | - | - | - | - | - | |
| NC | 3 | 0.54 | 3 | 0.49 | 3 | 2.27 | - | - | - | - | - | - | - | - | |
| XI | ∑ | 2 | 0.36 | 2 | 0.33 | 1 | 0.76 | 1 | 0.37 | - | - | - | - | - | - |
| NC | 2 | 0.36 | 2 | 0.33 | 1 | 0.76 | 1 | 0.37 | - | - | - | - | - | - | |
| XII | ∑ | 5 | 0.90 | 6 | 0.98 | - | - | - | - | - | - | - | - | 6 | 3.97 |
| Cluster 35 | 1 | 0.18 | 2 | 0.33 | - | - | - | - | - | - | - | - | 2 | 1.32 | |
| Cluster 36 | 2 | 0.36 | 2 | 0.33 | - | - | - | - | - | - | - | - | 2 | 1.32 | |
| NC | 2 | 0.36 | 2 | 0.33 | - | - | - | - | - | - | - | - | 2 | 1.32 | |
| XIII | ∑ | 12 | 2.17 | 12 | 1.97 | 10 | 7.58 | 1 | 0.37 | - | - | - | - | 1 | 0.66 |
| Cluster 37 | 2 | 0.36 | 2 | 0.33 | 2 | 1.52 | - | - | - | - | - | - | - | - | |
| Cluster 38 | 4 | 0.72 | 4 | 0.66 | 4 | 3.03 | - | - | - | - | - | - | - | - | |
| NC | 6 | 1.08 | 6 | 0.98 | 4 | 3.03 | 1 | 0.37 | - | - | - | - | 1 | 0.66 | |
| XIV | ∑ | 1 | 0.18 | 1 | 0.16 | 1 | 0.76 | - | - | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | 1 | 0.76 | - | - | - | - | - | - | - | - | |
| XV | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | - | - | 1 | 3.23 | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | 1 | 3.23 | - | - | - | - | |
| XVI | ∑ | 5 | 0.90 | 7 | 1.15 | - | - | - | - | 7 | 22.58 | - | - | - | - |
| Cluster 39 | 5 | 0.90 | 7 | 1.15 | - | - | - | - | 7 | 22.58 | - | - | - | - | |
| XVII | ∑ | 7 | 1.27 | 7 | 1.15 | - | - | - | - | 7 | 22.58 | - | - | - | - |
| Cluster 40 | 4 | 0.72 | 4 | 0.66 | - | - | - | - | 4 | 12.90 | - | - | - | - | |
| NC | 3 | 0.54 | 3 | 0.49 | - | - | - | - | 3 | 9.68 | - | - | - | - | |
| XVIII | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| XIX | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 | |
| XX | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| XXI | ∑ | 26 | 4.70 | 26 | 4.26 | 26 | 19.70 | - | - | - | - | - | - | - | - |
| Cluster 41 | 9 | 1.63 | 9 | 1.48 | 9 | 6.82 | - | - | - | - | - | - | - | - | |
| Cluster 42 | 10 | 1.81 | 10 | 1.64 | 10 | 7.58 | - | - | - | - | - | - | - | - | |
| Cluster 43 | 2 | 0.36 | 2 | 0.33 | 2 | 1.52 | - | - | - | - | - | - | - | - | |
| NC | 5 | 0.90 | 5 | 0.82 | 5 | 3.79 | - | - | - | - | - | - | - | - | |
| XXII | ∑ | 21 | 3.80 | 21 | 3.44 | 1 | 0.76 | 6 | 2.21 | 1 | 3.23 | 10 | 41.67 | 2 | 1.32 |
| Cluster 44 | 2 | 0.36 | 2 | 0.33 | - | - | - | - | - | - | 1 | 4.17 | 1 | 0.66 | |
| Cluster 45 | 6 | 1.08 | 6 | 0.98 | - | - | 3 | 1.10 | - | - | 1 | 4.17 | 1 | 0.66 | |
| Cluster 46 | 5 | 0.90 | 5 | 0.82 | - | - | 3 | 1.10 | - | - | 2 | 8.33 | - | - | |
| Cluster 47 | 5 | 0.90 | 5 | 0.82 | - | - | - | - | - | - | 5 | 20.83 | - | - | |
| NC | 3 | 0.54 | 3 | 0.49 | 1 | 0.76 | - | - | 1 | 3.23 | 1 | 4.17 | - | - | |
| XXIII | ∑ | 9 | 1.63 | 10 | 1.64 | - | - | 7 | 2.57 | - | - | 3 | 12.50 | - | - |
| Cluster 48 | 7 | 1.27 | 8 | 1.31 | - | - | 7 | 2.57 | - | - | 1 | 4.17 | - | - | |
| NC | 2 | 0.36 | 2 | 0.33 | - | - | - | - | - | - | 2 | 8.33 | - | - | |
| XXIV | ∑ | 13 | 2.35 | 15 | 2.46 | - | - | 15 | 5.51 | - | - | - | - | - | - |
| Cluster 49 | 8 | 1.45 | 10 | 1.64 | - | - | 10 | 3.68 | - | - | - | - | - | - | |
| Cluster 50 | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| NC | 3 | 0.54 | 3 | 0.49 | - | - | 3 | 1.10 | - | - | - | - | - | - | |
| XXV | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| XXVI | ∑ | 5 | 0.90 | 5 | 0.82 | - | - | - | - | - | - | - | - | 5 | 3.31 |
| Cluster 51 | 3 | 0.54 | 3 | 0.49 | - | - | - | - | - | - | - | - | 3 | 1.99 | |
| NC | 2 | 0.36 | 2 | 0.33 | - | - | - | - | - | - | - | - | 2 | 1.32 | |
| XXVII | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| XXVIII | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| XXIX | ∑ | 3 | 0.54 | 3 | 0.49 | - | - | 3 | 1.10 | - | - | - | - | - | - |
| NC | 3 | 0.54 | 3 | 0.49 | - | - | 3 | 1.10 | - | - | - | - | - | - | |
| XXX | ∑ | 2 | 0.36 | 2 | 0.33 | - | - | 1 | 0.37 | - | - | - | - | 1 | 0.66 |
| NC | 2 | 0.36 | 2 | 0.33 | - | - | 1 | 0.37 | - | - | - | - | 1 | 0.66 | |
| XXXI | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| XXXII | ∑ | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - |
| NC | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| XXXIII | ∑ | 2 | 0.36 | 2 | 0.33 | - | - | - | - | 1 | 3.23 | - | - | 1 | 0.66 |
| NC | 2 | 0.36 | 2 | 0.33 | - | - | - | - | 1 | 3.23 | - | - | 1 | 0.66 | |
| XXXIV | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 | |
| XXXV | ∑ | 6 | 1.08 | 6 | 0.98 | - | - | - | - | - | - | - | - | 6 | 3.97 |
| Cluster 52 | 2 | 0.36 | 2 | 0.33 | - | - | - | - | - | - | - | - | 2 | 1.32 | |
| Cluster 53 | 3 | 0.54 | 3 | 0.49 | - | - | - | - | - | - | - | - | 3 | 1.99 | |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 | |
| XXXVI | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 | |
| XXXVII | ∑ | 9 | 1.63 | 10 | 1.64 | - | - | - | - | - | - | - | - | 10 | 6.62 |
| Cluster 54 | 6 | 1.08 | 7 | 1.15 | - | - | - | - | - | - | - | - | 7 | 4.64 | |
| NC | 3 | 0.54 | 3 | 0.49 | - | - | - | - | - | - | - | - | 3 | 1.99 | |
| XXXVIII | ∑ | 8 | 1.45 | 8 | 1.31 | - | - | - | - | - | - | - | - | 8 | 5.30 |
| Cluster 55 | 2 | 0.36 | 2 | 0.33 | - | - | - | - | - | - | - | - | 2 | 1.32 | |
| Cluster 56 | 6 | 1.08 | 6 | 0.98 | - | - | - | - | - | - | - | - | 6 | 3.97 | |
| XXXIX | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 | |
| XL | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 | |
| XLI | ∑ | 5 | 0.90 | 5 | 0.82 | - | - | 5 | 1.84 | - | - | - | - | - | - |
| Cluster 57 | 4 | 0.72 | 4 | 0.66 | - | - | 4 | 1.47 | - | - | - | - | - | - | |
| Isolate | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| XLII | ∑ | 7 | 1.27 | 7 | 1.15 | - | - | 7 | 2.57 | - | - | - | - | - | - |
| Cluster 58 | 6 | 1.08 | 6 | 0.98 | - | - | 6 | 2.21 | - | - | - | - | - | - | |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| XLIII | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| XLIV | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| XLV | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| XLVI | ∑ | 3 | 0.54 | 3 | 0.49 | - | - | - | - | - | - | - | - | 3 | 1.99 |
| NC | 3 | 0.54 | 3 | 0.49 | - | - | - | - | - | - | - | - | 3 | 1.99 | |
| XLVII | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 | |
| XLVIII | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 | |
| XLIX | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 | |
| L | ∑ | 30 | 5.42 | 30 | 4.92 | - | - | 16 | 5.88 | - | - | - | - | 14 | 9.27 |
| Cluster 59 | 7 | 1.27 | 7 | 1.15 | - | - | - | - | - | - | - | - | 7 | 4.64 | |
| Cluster 60 | 8 | 1.45 | 8 | 1.31 | - | - | 4 | 1.47 | - | - | - | - | 4 | 2.65 | |
| Cluster 61 | 7 | 1.27 | 7 | 1.15 | - | - | 7 | 2.57 | - | - | - | - | - | - | |
| Cluster 62 | 3 | 0.54 | 3 | 0.49 | - | - | 2 | 0.74 | - | - | - | - | 1 | 0.66 | |
| Cluster 63 | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| NC | 3 | 0.54 | 3 | 0.49 | - | - | 1 | 0.37 | - | - | - | - | 2 | 1.32 | |
| LI | ∑ | 2 | 0.36 | 2 | 0.33 | - | - | - | - | - | - | - | - | 2 | 1.32 |
| Cluster 64 | 2 | 0.36 | 2 | 0.33 | - | - | - | - | - | - | - | - | 2 | 1.32 | |
| LII | ∑ | 4 | 0.72 | 4 | 0.66 | - | - | 4 | 1.47 | - | - | - | - | - | - |
| Cluster 65 | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| NC | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| LIII | ∑ | 5 | 0.90 | 5 | 0.82 | - | - | - | - | - | - | - | - | 5 | 3.31 |
| Cluster 66 | 2 | 0.36 | 2 | 0.33 | - | - | - | - | - | - | - | - | 2 | 1.32 | |
| Cluster 67 | 2 | 0.36 | 2 | 0.33 | - | - | - | - | - | - | - | - | 2 | 1.32 | |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 | |
| LIV | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| LV | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 | |
| LVI | ∑ | 17 | 3.07 | 18 | 2.95 | - | - | 7 | 2.57 | - | - | - | - | 11 | 7.28 |
| Cluster 68 | 5 | 0.90 | 5 | 0.82 | - | - | - | - | - | - | - | - | 5 | 3.31 | |
| Cluster 69 | 5 | 0.90 | 6 | 0.98 | - | - | 1 | 0.37 | - | - | - | - | 5 | 3.31 | |
| Cluster 70 | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| Cluster 71 | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| NC | 3 | 0.54 | 3 | 0.49 | - | - | 2 | 0.74 | - | - | - | - | 1 | 0.66 | |
| LVII | ∑ | 18 | 3.25 | 19 | 3.11 | - | - | - | - | - | - | - | - | 19 | 12.58 |
| Cluster 72 | 3 | 0.54 | 3 | 0.49 | - | - | - | - | - | - | - | - | 3 | 1.99 | |
| Cluster 73 | 11 | 1.99 | 12 | 1.97 | - | - | - | - | - | - | - | - | 12 | 7.95 | |
| Cluster 74 | 2 | 0.36 | 2 | 0.33 | - | - | - | - | - | - | - | - | 2 | 1.32 | |
| NC | 2 | 0.36 | 2 | 0.33 | - | - | - | - | - | - | - | - | 2 | 1.32 | |
| LVIII | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 | |
| LIX | ∑ | 3 | 0.54 | 3 | 0.49 | - | - | 1 | 0.37 | - | - | - | - | 2 | 1.32 |
| Cluster 75 | 2 | 0.36 | 2 | 0.33 | - | - | - | - | - | - | - | - | 2 | 1.32 | |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| LX | ∑ | 3 | 0.54 | 4 | 0.66 | - | - | 4 | 1.47 | - | - | - | - | - | - |
| Cluster 76 | 3 | 0.54 | 4 | 0.66 | - | - | 4 | 1.47 | - | - | - | - | - | - | |
| LXI | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| LXII | 4 | 0.72 | 6 | 0.98 | - | - | - | - | 6 | 19.35 | - | - | - | - | |
| Cluster 77 | 1 | 0.18 | 3 | 0.49 | - | - | - | - | 3 | 9.68 | - | - | - | - | |
| Cluster 78 | 2 | 0.36 | 2 | 0.33 | - | - | - | - | 2 | 6.45 | - | - | - | - | |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | 1 | 3.23 | - | - | - | - | |
| LXIII | ∑ | 3 | 0.54 | 3 | 0.49 | - | - | 3 | 1.10 | - | - | - | - | - | - |
| NC | 3 | 0.54 | 3 | 0.49 | - | - | 3 | 1.10 | - | - | - | - | - | - | |
| LXIV | ∑ | 19 | 3.44 | 19 | 3.11 | 6 | 4.55 | 13 | 4.78 | - | - | - | - | - | - |
| Cluster 79 | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| Cluster 80 | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| Cluster 81 | 3 | 0.54 | 3 | 0.49 | - | - | 3 | 1.10 | - | - | - | - | - | - | |
| Cluster 82 | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| Cluster 83 | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| Cluster 84 | 5 | 0.90 | 5 | 0.82 | 5 | 3.79 | - | - | - | - | - | - | - | - | |
| NC | 3 | 0.54 | 3 | 0.49 | 1 | 0.76 | 2 | 0.74 | - | - | - | - | - | - | |
| LXV | ∑ | 3 | 0.54 | 3 | 0.49 | - | - | 3 | 1.10 | - | - | - | - | - | - |
| Cluster 85 | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| LXVI | ∑ | 8 | 1.45 | 8 | 1.31 | 8 | 6.06 | - | - | - | - | - | - | - | - |
| Cluster 86 | 2 | 0.36 | 2 | 0.33 | 2 | 1.52 | - | - | - | - | - | - | - | - | |
| Cluster 87 | 2 | 0.36 | 2 | 0.33 | 2 | 1.52 | - | - | - | - | - | - | - | - | |
| NC | 4 | 0.72 | 4 | 0.66 | 4 | 3.03 | - | - | - | - | - | - | - | - | |
| LXVII | ∑ | 4 | 0.72 | 4 | 0.66 | - | - | 4 | 1.47 | - | - | - | - | - | - |
| Cluster 88 | 4 | 0.72 | 4 | 0.66 | - | - | 4 | 1.47 | - | - | - | - | - | - | |
| LXVIII | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| LXIX | ∑ | 3 | 0.54 | 3 | 0.49 | - | - | 3 | 1.10 | - | - | - | - | - | - |
| Cluster 89 | 2 | 0.36 | 2 | 0.33 | - | - | 2 | 0.74 | - | - | - | - | - | - | |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| LXX | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| LXXI | ∑ | 1 | 0.18 | 1 | 0.16 | 1 | 0.76 | - | - | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | 1 | 0.76 | - | - | - | - | - | - | - | - | |
| LXXII | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | - | - | 1 | 3.23 | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | 1 | 3.23 | - | - | - | - | |
| LXXIII | ∑ | 3 | 0.54 | 3 | 0.49 | - | - | - | - | - | - | - | - | 3 | 1.99 |
| NC | 3 | 0.54 | 3 | 0.49 | - | - | - | - | - | - | - | - | 3 | 1.99 | |
| LXXIV | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| LXXV | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| LXXVI | ∑ | 1 | 0.18 | 1 | 0.16 | 1 | 0.76 | - | - | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | 1 | 0.76 | - | - | - | - | - | - | - | - | |
| LXXVII | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | 1 | 0.37 | - | - | - | - | - | - | |
| LXXVIII | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | 1 | 4.17 | - | - | |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | 1 | 4.17 | - | - | |
| LXXIX | ∑ | 2 | 0.36 | 7 | 1.15 | - | - | - | - | 7 | 22.58 | - | - | - | - |
| Cluster 90 | 1 | 0.18 | 5 | 0.82 | - | - | - | - | 5 | 16.13 | - | - | - | - | |
| Cluster 91 | 1 | 0.18 | 2 | 0.33 | - | - | - | - | 2 | 6.45 | - | - | - | - | |
| LXXX | ∑ | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 |
| NC | 1 | 0.18 | 1 | 0.16 | - | - | - | - | - | - | - | - | 1 | 0.66 | |
a Taxa are genetically related to distance (dij > 0.1175) and each taxon displays clustered isolates and/or non-clustered isolates. b Cluster comprised two or more bacterial isolates interpreted as identical or highly related isolates/strains (0.0551 > dij ≥ 0). c NC: non-clustered isolates or strains (0.0551 < dij ≤ 0.3810). d Number and percentage of strains per Cluster: strain refers to a collection of isolates of the same species that are genetically indistinguishable. e Number and percentage of isolates per Cluster: an isolate is defined as a clone collected independently of other isolates. Two independently collected isolates may be completely unrelated (different strains) or genetically indistinguishable (same strain). f Number and percentage of isolates per bacterial population (A, B, C, D and E).