Table 1 Proportions of Mtb lineages/sublineages by the SNP barcode and clades by in-silico spoligotyping in Da Nang samples (N = 181).
(Sub)Lineage/spoligotype | The spoligo international type (SIT) numbers | Freq. (n) | Proportion per lineage (%) | Overall proportion (%) |
|---|---|---|---|---|
Lineage 1 (n = 87) | 48.1 | |||
L1.1.1 | 9 | 10.3 | 5.0 | |
EAI5 | 234, 236, 792 | 6 | 6.9 | 3.3 |
EAI5-like | NA | 3 | 3.4 | 1.7 |
L1.1.1.1 | 78 | 89.7 | 43.1 | |
EAI4_VNM | 139, 456, 564, 514, 622, 1731, 2722, Orphan | 49 | 56.3 | 27.1 |
EAI4_VNM-like | 3196, NA | 8 | 9.2 | 4.4 |
ZERO | 405, 802 | 9 | 10.3 | 5.0 |
EAI5 | 236, 458, 618 | 8 | 9.2 | 4.4 |
EAI5-like | NA | 3 | 3.4 | 1.7 |
Unknown | NA | 1 | 1.1 | 0.6 |
Lineage 2 (n = 64) | 35.3 | |||
L2.1 (proto Beijing) | 623, NA | 3 | 4.7 | 1.7 |
L2.2.2 (ancient Beijing) | 1, 269 | 2 | 3.1 | 1.1 |
L2.2.1 (ancient Beijing) | 1, 190 | 14 | 21.9 | 7.7 |
L2.2.1 (modern Beijing) | 1, 190 | 38 | 59.4 | 21.0 |
L2.2.1.1 (modern Beijing) | 1 | 7 | 10.9 | 3.9 |
Lineage 4 (n = 30) | 16.6 | |||
L4.1 (Unknown, X1) | 336, NA | 8 | 26.7 | 4.4 |
L4.1.1 (X1) | 119 | 2 | 6.7 | 1.1 |
L4.1.2 (T) | 73 | 1 | 3.3 | 0.6 |
L4.1.2.1 (H2, T2) | 2, 888, 52 | 3 | 10.1 | 1.7 |
L4.2.2. (T1) | 51 | 4 | 13.3 | 2.2 |
L4.3.1 (LAM9) | 42 | 1 | 3.3 | 0.6 |
L4.3.3 (LAM9) | 388 | 1 | 3.3 | 0.6 |
L4.4.1.2 (Unknown) | NA | 3 | 10.0 | 1.7 |
L4.4.2 (T2, Unknown) | 52, NA | 2 | 6.7 | 1.1 |
L4.5 (H3) | 50 | 1 | 3.3 | 0.6 |
L4.8 (T1, Unknown) | 53, NA | 4 | 13.3 | 2.2 |
