Table 2.
MIRU-24 loci VNTR profiles of the 144 Mycobacterium tuberculosis case isolates
| Nr | Laboratory sample ID | Sample (n) | Cluster in analysis | M. tuberculosis global sub-lineage | MIRU-VNTR Loci 0154,0424,0577,0580,0802,0960,1644, 1955, 2059,2165,2347,2401,2461,2531, 2687,2996,3007,3171,3192,3690,4052, 4156,4348,2163b |
|---|---|---|---|---|---|
| 1 | 1G9 | 1 | Unique | EAI | 2,2,2,5,3,4,3,11,2,9,3,2,4,6,2,2,3,3,5,7,3,1,1,2 |
| 2 | 3F6 | 1 | Unique | EAI | 2,2,4,5,3,4,3,9,1,6,3,2,4,6,2,2,3,1,5,2,5,1,1,9 |
| 3 | 2G3 | 1 | XXVII | ND | 2,2,4,2,3,3,3,2,2,3,4,2,2,6,1,5,3,3,3,3,5,2,2,2 |
| 4 | 3D6 | 1 | XXVII | ND | 2,1,4,2,3,3,3,1,2,3,4,2,2,6,1,5,3,3,3,3,5,2,2,3 |
| 5 | 3A1 | 1 | Unique | ND | 2,2,4,2,1,3,3,2,2,4,4,2,2,5,1,5,3,3,3,3,6,1,2,3 |
| 6 | 3B6 | 1 | Unique | ND | 2,2,4,2,4,3,2,2,2,3,4,2,2,6,1,5,3,3,3,3,5,2,2,3 |
| 7 | 3H4 | 1 | Unique | ND | 2,2,4,2,4,3,1,2,2,3,4,2,2,5,1,5,3,3,3,7,5,2,2,4 |
| 8 | 3D3 | 1 | Unique | ND | 2,2,6,2,2,3,4,2,2,2,4,2,2,5,1,5,3,3,3,3,5,2,2,3 |
| 9 | 2G8, 3E2 | 2 | XXII | LAM | 2,4,4,2,1,3,2,3,2,2,4,1,1,6,1,4,3,3,3,2,8,2,2,4 |
| 10 | 1B2, 2B7, 2F5, 2G9 | 4 | XXIII | LAM | 2,4,4,2,1,3,2,3,2,2,4,1,1,6,1,4,3,5,3,2,8,2,2,3 |
| 11 | 1E4 | 1 | XXIII | LAM | 2,4,3,2,1,3,2,3,2,2,4,1,1,6,1,4,3,5,3,2,8,2,2,3 |
| 12 | 2H2, 2H6, 3C1, 3C6, 3F3, 3G4 | 6 | XXIII | LAM | 2,4,4,2,1,3,2,3,2,2,4,1,1,6,1,4,3,5,3,2,8,2,2,4 |
| 13 | 1I8 | 1 | XXIII | LAM | 2,4,4,2,1,3,2,3,2,2,4,1,1,6,1,4,3,5,3,2,9,2,2,4 |
| 14 | 2C1 | 1 | Unique | LAM | 2,4,4,2,1,3,2,3,2,2,4,1,1,6,1,4,3,5,3,2,8,0,2,4 |
| 15 | 3E1 | 1 | XXIV | LAM | 2,4,4,2,1,3,2,3,2,2,4,1,1,6,1,4,3,5,3,2,5,2,2,4 |
| 16 | 2E2 | 1 | XXIV | LAM | 2,4,4,2,1,3,2,3,2,2,4,1,1,6,1,4,3,5,3,2,4,2,2,4 |
| 17 | 2E5 | 1 | Unique | LAM | 2,4,4,2,1,3,1,3,2,2,4,1,1,6,1,5,3,5,3,2,5,2,2,3 |
| 18 | 3D5 | 1 | Unique | LAM | 2,4,4,2,1,3,1,3,2,2,4,1,1,6,1,4,2,5,3,2,6,2,2,4 |
| 19 | 1A9, 3G2 | 2 | XXVI | LAM | 2,4,5,2,1,3,1,3,2,2,4,1,1,4,1,3,2,5,3,2,3,2,2,2 |
| 20 | 2C9 | 1 | Unique | LAM | 2,4,4,2,1,2,1,3,2,2,4,1,1,4,1,4,2,5,3,2,7,2,2,4 |
| 21 | 3F9 | 1 | Unique | LAM | 2,4,4,2,1,3,1,3,2,2,4,1,1,6,1,4,2,6,3,2,8,2,2,2 |
| 22 | 2G6, 3F2 | 2 | XXV | LAM | 2,4,4,2,1,4,1,3,2,2,4,1,1,6,1,5,2,5,3,2,12,2,2,4 |
| 23 | 3G9 | 1 | XXV | LAM | 2,4,4,2,1,3,1,3,2,2,4,1,1,6,1,5,2,6,3,2,12,2,2,3 |
| 24 | 2B9 | 1 | Unique | LAM | 2,4,4,2,1,4,2,3,2,2,4,1,1,6,1,4,3,4,3,2,5,2,2,4 |
| 25 | 3D8 | 1 | Unique | LAM | 2,5,4,4,1,4,2,3,2,2,4,1,1,7,1,5,3,5,3,2,7,2,2,3 |
| 26 | 2E9, 2I8 | 2 | XXI | LAM | 2,5,4,2,1,3,2,3,2,2,4,1,2,7,1,6,3,3,3,2,7,2,2,2 |
| 27 | 3C7 | 1 | Unique | LAM | 2,4,4,2,1,3,2,3,2,2,5,1,2,6,1,2,3,3,3,2,7,2,2,2 |
| 28 | 3E8 | 1 | Unique | LAM | 3,3,4,2,1,3,2,3,2,2,4,1,2,6,1,2,3,3,2,2,5,2,2,4 |
| 29 | 2D1 | 1 | XX | LAM | 2,2,4,2,1,3,2,3,2,2,5,1,2,6,1,5,3,3,3,2,4,2,2,2 |
| 30 | 1A3, 2D4, 2D9, 2F2, 3D4, 3G6 | 6 | XX | LAM | 2,1,4,2,1,3,2,3,2,2,5,1,2,6,1,5,3,3,3,2,4,2,2,2 |
| 31 | 1D7, 1G3, 2H9, 3C4, 3H5 | 5 | XX | LAM | 2,1,4,2,1,3,2,3,2,2,5,1,2,6,1,4,3,3,3,2,4,2,2,2 |
| 32 | 3E9 | 1 | Unique | LAM | 2,4,4,2,1,3,2,3,1,2,5,1,2,6,1,7,3,3,3,2,4,2,2,2 |
| 33 | 3B4 | 1 | XIX | LAM | 1,3,6,2,4,4,3,3,2,2,4,1,2,6,1,5,3,3,2,2,8,2,2,2 |
| 34 | 1I5, 2E8, 2I5, 2I7, 3C8, 3D9 | 6 | XIX | LAM | 1,3,6,2,4,4,3,3,2,2,4,1,2,6,1,5,3,3,2,2,6,2,2,2 |
| 35 | 1I1 | 1 | Unique | LAM | 1,3,6,3,4,4,2,3,2,2,4,1,2,6,1,4,3,3,2,2,7,2,2,2 |
| 36 | 1E8, 1G1 | 2 | XVIII | LAM | 1,3,4,2,5,2,3,3,2,2,4,1,2,6,1,5,3,3,2,2,8,2,2,2 |
| 37 | 1A8 | 1 | XVIII | LAM | 1,3,4,2,5,2,3,3,2,2,4,1,2,6,1,5,3,3,2,2,7,2,2,3 |
| 38 | 1I7 | 1 | XVIII | LAM | 1,3,4,2,5,2,3,3,2,2,4,1,2,6,1,5,3,3,2,2,6,2,2,2 |
| 39 | 3F1 | 1 | XVII | LAM | 1,3,4,2,6,4,3,3,2,2,4,1,2,6,1,5,3,3,2,2,6,2,2,2 |
| 40 | 3D2 | 1 | XVII | LAM | 1,4,4,2,5,4,3,3,2,2,4,1,2,6,1,5,3,3,2,2,7,2,2,2 |
| 41 | 2C4 | 1 | Unique | LAM | 1,3,4,2,4,7,3,3,2,2,4,1,2,6,1,4,3,3,2,2,7,2,2,2 |
| 42 | 3A5 | 1 | Unique | LAM | 1,3,3,2,4,4,3,3,2,2,4,1,2,7,1,5,3,3,2,2,7,2,2,2 |
| 43 | 3A9, 3C9, 3G7 | 3 | XVI | LAM | 1,3,3,2,2,4,3,3,2,2,4,1,2,6,1,5,3,3,3,1,7,3,2,2 |
| 44 | 1A5 | 1 | XVI | LAM | 1,3,3,1,2,4,3,3,2,2,4,1,2,6,1,5,3,3,3,1,7,3,2,2 |
| 45 | 3H3 | 1 | XV | LAM | 2,5,4,2,6,4,3,1,1,2,4,1,2,6,1,4,3,3,2,2,6,2,2,2 |
| 46 | 2F4, 3H7 | 2 | XV | LAM | 2,4,4,2,8,4,3,1,1,2,4,1,2,6,1,4,3,3,2,2,6,2,2,2 |
| 47 | 1G2 | 1 | Unique | LAM | 2,3,4,2,3,4,3,3,2,2,4,2,2,6,1,5,4,1,3,1,7,2,2,3 |
| 48 | 2E1 | 1 | Unique | LAM | 2,3,4,2,3,4,3,2,2,2,4,2,2,6,1,3,3,1,3,1,7,2,2,4 |
| 49 | 2H8 | 1 | Unique | LAM | 2,3,4,2,4,4,3,3,2,2,4,2,2,6,1,5,3,1,3,1,5,2,2,3 |
| 50 | 3H1 | 1 | Unique | LAM | 2,2,4,2,3,3,3,3,2,2,4,2,2,6,1,6,3,1,3,1,7,2,2,2 |
| 51 | 1H3, 2B2 | 2 | XI | LAM | 2,3,4,2,3,4,3,3,2,2,4,2,2,6,1,5,3,1,3,1,11,2,2,2 |
| 52 | 3G5 | 1 | XIV | LAM | 2,3,2,2,3,4,3,3,2,2,4,2,2,6,1,5,3,1,3,1,3,2,2,4 |
| 53 | 1B3, 1E6, 2I3 | 3 | XIV | LAM | 2,3,2,2,3,4,3,3,2,2,4,1,2,6,1,5,3,1,3,1,4,2,2,3 |
| 54 | 3E3 | 1 | XIII | LAM | 2,4,2,2,3,4,2,3,2,2,3,2,2,6,1,5,3,1,3,1,9,2,2,4 |
| 55 | 1E1, 2B1, 2B4, 3B9, 3H2 | 5 | XIII | LAM | 2,4,2,2,3,4,2,3,2,2,3,2,2,6,1,5,3,1,3,1,10,2,2,4 |
| 56 | 1A1, 1B8, 2F7, 3B2 | 4 | XII | LAM | 2,3,2,2,3,4,3,3,2,2,4,2,2,6,1,5,3,1,3,1,8,2,2,2 |
| 57 | 3E5 | 1 | Unique | Beijing | 2,4,5,2,3,3,3,5,2,4,4,4,2,5,1,5,3,3,5,3,8,2,3,6 |
| 58 | 1B1 | 1 | I | Beijing | 2,4,4,2,3,3,3,5,2,4,4,4,2,5,1,7,3,3,5,3,8,2,3,6 |
| 59 | 1E9 | 1 | I | Beijing | 2,4,4,2,3,3,3,5,2,4,4,4,2,5,1,7,3,3,4,3,9,2,3,6 |
| 60 | 1F5 | 1 | Unique | Haarlem | 2,2,3,2,3,5,3,3,2,3,4,4,2,5,1,5,3,3,3,2,3,3,2,5 |
| 61 | 2B5, 2F8 | 2 | II | Haarlem | 2,2,3,2,1,2,3,3,2,3,4,4,2,5,1,4,3,3,2,2,6,3,2,2 |
| 62 | 2G7, 3B7 | 2 | IV | Haarlem | 2,2,3,2,4,5,3,3,2,3,2,3,2,3,1,5,3,3,3,3,7,3,2,3 |
| 63 | 1C3, 1C4, 1C6, 1F8, 2F9 | 5 | III | Haarlem | 2,2,3,2,3,5,3,3,1,3,2,4,2,3,1,5,3,3,2,3,7,3,2,5 |
| 64 | 3E4 | 1 | Unique | Haarlem | 2,2,3,2,3,5,3,2,1,3,2,4,2,3,1,5,3,3,3,3,5,2,2,2 |
| 65 | 3F7 | 1 | VI | Haarlem | 2,2,3,2,3,5,2,3,2,3,2,4,2,3,1,5,3,3,3,3,7,2,2,5 |
| 66 | 2I1 | 1 | VI | Haarlem | 2,2,3,2,4,5,2,3,2,3,2,4,2,3,1,5,3,3,3,3,7,2,2,5 |
| 67 | 3B5 | 1 | V | Haarlem | 2,4,3,2,4,4,3,3,1,3,4,4,2,4,1,5,3,3,3,4,3,3,2,2 |
| 68 | 2D2 | 1 | V | Haarlem | 2,4,3,2,4,4,2,3,1,3,4,4,2,4,1,5,3,3,3,3,3,3,2,2 |
| 69 | 1B6, 1C2, 2B3, 2C5, 2D6, 2F1, 2G2, 2G5, 3C3, 3E7, 3F5, 3G3 | 12 | VII | Haarlem | 2,2,3,2,4,4,3,2,2,3,4,4,2,4,1,5,3,3,3,3,3,3,2,2 |
| 70 | 1F6 | 1 | Unique | Haarlem | 2,2,3,2,3,5,3,2,2,3,4,4,2,5,1,5,4,3,3,3,5,3,2,9 |
| 71 | 2D7 | 1 | Unique | Haarlem | 2,3,2,2,3,5,3,2,2,3,4,4,2,5,1,5,4,3,3,3,6,3,2,4 |
| 72 | 3D1 | 1 | IX | X | 2,2,3,1,5,4,3,4,2,3,4,4,2,5,1,5,3,3,3,3,9,1,2,3 |
| 73 | 1F2, 2B8, 2E6 | 3 | IX | X | 2,2,3,1,5,4,3,4,2,3,4,4,2,5,1,5,3,3,3,3,9,1,2,4 |
| 74 | 3F8 | 1 | Unique | X | 2,1,4,2,3,4,2,4,2,3,4,4,2,5,1,5,3,3,2,7,9,3,2,4 |
| 75 | 1G4 | 1 | VIII | X | 2,1,4,2,3,4,3,4,2,3,4,4,2,5,1,5,3,3,3,6,9,3,2,4 |
| 76 | 1I4, 2A1, 2H5 | 3 | VIII | X | 2,1,4,2,3,4,3,4,2,3,4,4,2,5,1,5,3,3,3,6,9,3,2,3 |
| 77 | 3C5 | 1 | Unique | X | 2,1,4,2,3,4,3,4,2,3,4,4,2,5,1,5,3,3,3,7,8,3,2,3 |
| 78 | 2A4 | 1 | Unique | X | 2,1,4,2,3,4,3,4,2,3,4,4,2,5,1,5,3,3,3,6,6,3,2,4 |
| 79 | 3F4 | 1 | Unique | X | 2,2,3,2,3,9,2,6,2,3,4,4,2,5,1,6,3,2,4,4,7,3,2,2 |
| 80 | 3E6 | 1 | Unique | X | 2,2,3,2,3,4,3,4,2,3,4,4,2,5,1,4,3,3,3,3,8,3,2,5 |
| 81 | 3G1 | 1 | Unique | ND | 2,10,2,2,2,3,2,4,2,3,4,2,2,5,1,6,3,3,5,3,7,4,3,2 |
| 82 | 2H1, 3G8 | 2 | X | ND | 2,3,3,1,3,4,3,1,2,3,4,2,2,5,1,5,3,3,3,4,9,2,2,4 |
The table indicates the laboratory sample code, the cluster they are contained for the phylogenetic analysis and the classification from the global M. tuberculosis lineages. ND refers to non-determined M. tuberculosis sub-lineages