TABLE 2.
Summary of results obtained regarding PGG analysis, spoligotyping-defined shared types, nitrate reductase activity, and the polymorphism of the promoter of narGHJI among some well-characterized clades of M. tuberculosisa
| Clade (no. of strains) | Shared types (no. of strains) | Origin (no. of strains) | PGGb | Nitrate reductase (no. of strains tested) | LC66-LC67 resultc (no. of bands by PCR-RFLP) |
|---|---|---|---|---|---|
| EAId (4) | Orphan (2), 139 (1), 958 (1) | GUF (3), SWE (1) | 1 | − (3) | 2 |
| EAI1 (4) | 48 (4) | GUF (2), MOZ (2) | 1 | + (2) | 2 |
| EAI3 (4) | 11 (4) | GLP (1), GUF (3) | 1 | + (4) | 2 |
| EAI12/Manila (2) | 19 (2) | GLP (1), SUR (1) | 1 | − (2) | 2 |
| W-Beijing (14) | 1 (13), 250 (1) | FXX (3), HTI (1), LBY (3), GUF (6), GLP (1) | 1 | + (11) | 1 |
| CAS1 (8) | 22 (1), 26 (5), 247 (1), 1882 (1) | GLP (1), MUS (2), SAU (5) | 1 | + (1) | 1 |
| Haarlem1 (1) | 45 (1) | GLP (1) | 2 | + (1) | 1 |
| Haarlem2 (1) | 2 (1) | HTI (1) | 2 | NDe | 1 |
| LAM2 (1) | 17 (1) | GLP (1) | 2 | + (1) | 1 |
| LAM6 (1) | 64 (1) | GUF (1) | 2 | + (1) | 1 |
| CAM (1) | 61 (1) | GLP (1) | 2 | + (1) | 1 |
| X3 (2) | 91 (1), 92 (1) | HTI (1), GUF (1) | 2 | + (1) | 1 |
| S/Haarlem1 (1) | 1772 (1) | FXX (1) | 2 or 3 | ND | 1 |
| T1 (1) | 53 (1) | GLP (1) | 2 or 3 | + (1) | 1 |
| Unknown (1) | Orphan (1) | HTI (1) | 2 or 3 | ND | 1 |
| Unknown (1) | 5 (1) | GLP (1) | 2 or 3 | + | 1 |
a
Clades and origin of the isolates according to their inclusion in the latest version of the international spoligotyping database SpolDB4.
b
Principal genetic group, based on katG463-gyrA95 polymorphism analysis.
c
Determined by the number of bands obtained upon PCR-RFLP using LC66 and LC67 primers followed by Sau3AI digestion.
d
Underlined clades are considered to be “ancestral” M. tuberculosis.
e
ND, not done.