TABLE 2.
Distribution of major clades and subclades of M. tuberculosis found in Saudi Arabia
| Clade | Subclade | SITa | No. (%)
|
|||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Total for this study | Damman (n = 419) | Medina (n = 117) | Riyadh (n = 428) | Taif (n = 443) | Jizan (n = 25) | Tabuk (n = 60) | Al-Baha (n = 13) | |||
| Beijing | 1 | 67 (4.4) | 29 (6.9) | 5 (4.3) | 19 (4.4) | 14 (3.2) | 0 | 0 | 0 | |
| EAI | Clone 2b | 2671 | 0 | 0 | 2 | 0 | 11 | 0 | 11 | |
| EAI8-MDG | 109 | 1 | 0 | 9 | 8 | 0 | 10 | 0 | ||
| EAI3-IND | 11 + VPc | 10 | 1 | 3 | 4 | 0 | 0 | 0 | ||
| EAI2-MAN | 19 + VP | 34 | 1 | 4 | 2 | 0 | 0 | 0 | ||
| EAI1-SOM | 48 + VP | 4 | 6 | 6 | 3 | 0 | 0 | 0 | ||
| EAI | VP | 42 | 15 | 14 | 10 | 0 | 3 | 1 | ||
| Total EAI | 203 (13.5) | 91 (21.7) | 23 (19.7) | 38 (8.9) | 27 (6.1) | 11 (44.0) | 13 (21.7) | 12 (92.3) | ||
| CAS | CAS1-KILI | 21 | 0 | 1 | 6 | 5 | 0 | 0 | 0 | |
| Ancestor CAS1-KILI | 22 | 8 | 2 | 12 | 5 | 2 | 2 | 0 | ||
| CAS-1DELHI | 26 | 26 | 2 | 29 | 13 | 0 | 0 | 0 | ||
| Variant CAS-1DELHI | 25 + VP | 33 | 14 | 65 | 29 | 0 | 8 | 0 | ||
| CAS | VP | 8 | 7 | 46 | 14 | 2 | 0 | 0 | ||
| Total CAS | 339 (22.5) | 75 (17.9) | 26 (22.2) | 158 (36.9) | 66 (14.9) | 4 (16.0) | 10 (16.7) | 0 | ||
| T | T | VP | 47 | 15 | 80 | 102 | 9 | 14 | 1 | |
| T3-ETH | 149 | 4 | 0 | 7 | 15 | 0 | 0 | 0 | ||
| Total T | 294 (19.5) | 51 (12.2) | 15 (12.8) | 87 (20.3) | 117 (26.4) | 9 (36.0) | 14 (23.3) | 1 (7.7) | ||
| LAM | VP | 109 (7.2) | 31 (7.4) | 11 (9.4) | 13 (3.0) | 54 (12.2) | 0 | 0 | 0 | |
| Haarlem | VP | 113 (7.5) | 28 (6.7) | 9 (7.7) | 21 (4.9) | 50 (11.3) | 0 | 5 (8.3) | 0 | |
| X | VP | 14 (0.9) | 0 | 0 | 5 (1.17) | 9 (2.0) | 0 | 0 | 0 | |
| Manu | VP | 41 (2.7) | 5 (1.2) | 5 (4.3) | 4 (0.9) | 24 (5.4) | 0 | 3 (5.0) | 0 | |
| Bovis | VP | 13 (0.9) | 2 (0.5) | 0 | 11 (2.6) | 0 | 0 | 0 | 0 | |
| Clone 1d | 1887 | 16 (1.1) | 1 (0.24) | 0 | 11 (2.6) | 4 (0.9) | 0 | 0 | 0 | |
| UNKe | 284 (18.9) | 106 (25.3) | 23 (19.7) | 61 (14.2) | 78 (17.6) | 1 (4.0) | 15 (25.0) | 0 | ||
A shared type number is given when the clade is represented in this study by a unique prototype as defined in SpolDB4.
SIT 2671 (octal code 467777377413771) had a signature close to the EAI8-MDG subclade (an additional spacer missing at position 6).
VP, various patterns of SIT represented this clade and/or subclade (a single major SIT is given when applicable; details are not provided for other minor SITs). See SpolDB4 and the text for additional information.
SIT 1887 (octal profile 703777707770371) defines a clonal complex based on its distinct signature (see the text for further details).
UNK, unknown patterns that did not define any particular clade based on available information.