Table 1.
Details on strains used in this study.
| Genetic group and strain Field strains |
No. of strains sequenced |
International spoligotype ID |
MLVA profiles ID |
B | Wb | D | C | P | O |
|---|---|---|---|---|---|---|---|---|---|
| SB0120 | 28 | SB0120 | 23 | 22 | 1 | 1 | |||
| SB0822 | 1 | 1 | |||||||
| SB0828 | 2 | 2 | |||||||
| SB0948 | 1 | 1 | |||||||
| SB0121 (Eu2 clonal complex) | 17 | SB0121 | 11 | 10 | 1 | ||||
| SB0119 | 1 | 1 | |||||||
| SB0295 | 1 | 1 | |||||||
| SB0837 | 1 | 1 | |||||||
| SB0839 | 2 | 2 | |||||||
| SB0999 | 1 | 1 | |||||||
| F4 | 11 | SB0818 | 1 | 1 | |||||
| SB0821 | 2 | 2 | |||||||
| SB0823 | 1 | 1 | |||||||
| SB0825 | 1 | 1 | |||||||
| SB0826 | 1 | 1 | |||||||
| SB0827 | 1 | 1 | |||||||
| SB0840 | 1 | 1 | |||||||
| SB0843 | 1 | 1 | |||||||
| SB0928 | 1 | 1 | |||||||
| SB0946 | 1 | 1 | |||||||
| F9 | 6 | SB0819 | 4 | 4 | |||||
| SB0830 | 1 | 1 | |||||||
| SB0853 | 1 | 1 | |||||||
| SB0134 | 11 | SB0134 | 7 | 6 | 1 | ||||
| SB0089 | 2 | 2 | |||||||
| SB0128 | 1 | 1 | |||||||
| SB0824 | 1 | 1 | |||||||
| Eu1 clonal complex | 6 | SB0140 | 4 | 4 | |||||
| SB0130 | 1 | 1 | |||||||
| SB0145 | 1 | 1 | |||||||
| Others | 8 | (n = 7) see TS1 | 8 | 7 | 1 | ||||
| Sub total | 87a | 37 | 86 | 81 | 2 | 1 | 1 | 1 | 1 |
| Reference strainsb | 7 | ||||||||
| M. bovis AF2122 | 1 | SB0140 | 1 | ||||||
| M. bovis AN5 | 1 | SB0268 | 1 | ||||||
| BCG Pasteur | 1 | SB0120 | 1 | ||||||
| BCG Tokyo | 1 | SB0120 | 1 | ||||||
| M. africanum MAL010084 | 1 | SIT181 | 1 | ||||||
| M. canettii CIPT 140010059 | 1 | SIT592 | 1 | ||||||
| M. tuberculosis H37Rv | 1 | SIT451 | 1 | ||||||
| Total | 94 |
aSequenced in this study, bpreviously sequenced. B, bovine; Wb, wild boar; D, deer; C, caprine; P, pig; O, ovine; SIT, shared international type.