Table 1. Strains of the reference collection.
| Sample Name | Species | Lineage/Genotype | Phylogenetic Group |
|---|---|---|---|
| 1449/02 | M. africanum | West African 1a | Clade 2 |
| 1473/02 | M. africanum | West African 1a | Clade 2 |
| 5434/02 | M. africanum | West African 1a | Clade 2 |
| 10473/01 | M. africanum | West African 1b | Clade 2 |
| 10494/01 | M. africanum | West African 1b | Clade 2 |
| 1443/02 | M. africanum | West African 1b | Clade 2 |
| 10514/01 | M. africanum | West African 2 | Clade 2 |
| 10517/01 | M. africanum | West African 2 | Clade 2 |
| 5468/02 | M. africanum | West African 2 | Clade 2 |
| 9550/00 | M. africanum | West African 2 ATCC 25420 | Clade 2 |
| 4258/00 | M. bovis | Bovis | Clade 2 |
| 751/01 | M. bovis | Bovis | Clade 2 |
| 7540/01 | M. bovis | Bovis | Clade 2 |
| 9564/00 | M. bovis | Bovis ATCC 19210 | Clade 2 |
| 3040/99 | M. canettii | Canettii | Clade 2 |
| 3041/99 | M. canettii | Canettii | Clade 2 |
| 3151/08 | M. canetti | Canettii | Clade 2 |
| 1694/00 | M. caprae | Caprae | Clade 2 |
| 8986/99 | M. caprae | Caprae | Clade 2 |
| 9577/99 | M. caprae | Caprae | Clade 2 |
| 416/01 | M. microti | Llama | Clade 2 |
| 8753/00 | M. microti | Llama | Clade 2 |
| 1479/99 | M. microti | Vole | Clade 2 |
| 7011/02 | M. pinipedii | Seal | Clade 2 |
| 7739/01 | M. pinipedii | Seal | Clade 2 |
| 12594/02 | M. tuberculosis | Beijing | Clade 1 |
| 1500/03 | M. tuberculosis | Beijing | Clade 1 |
| 1934/03 | M. tuberculosis | Beijing | Clade 1 |
| 3256/02 | M. tuberculosis | Beijing | Clade 1 |
| 3329/02 | M. tuberculosis | Beijing | Clade 1 |
| 4445/02 | M. tuberculosis | Beijing | Clade 1 |
| 1417/02 | M. tuberculosis | Cameroon | Clade 1 |
| 5390/02 | M. tuberculosis | Cameroon | Clade 1 |
| 5400/02 | M. tuberculosis | Cameroon | Clade 1 |
| 2637/02 | M. tuberculosis | Delhi/CAS | Clade 1 |
| 7936/01 | M. tuberculosis | Delhi/CAS | Clade 1 |
| 9915/01 | M. tuberculosis | Delhi/CAS | Clade 1 |
| 1797/03 | M. tuberculosis | EAI | Clade 2 |
| 4850/03 | M. tuberculosis | EAI | Clade 2 |
| 947/01 | M. tuberculosis | EAI | Clade 2 |
| 10469/01 | M. tuberculosis | Ghana | Clade 1 |
| 10493/01 | M. tuberculosis | Ghana | Clade 1 |
| 2570/02 | M. tuberculosis | Ghana | Clade 1 |
| 9679/00 | M. tuberculosis | H37Rv ATCC 27294 | Clade 1 |
| 2336/02 | M. tuberculosis | Haarlem | Clade 1 |
| 4130/02 | M. tuberculosis | Haarlem | Clade 1 |
| 9532/03 | M. tuberculosis | Haarlem | Clade 1 |
| 7968/03 | M. tuberculosis | LAM | Clade 1 |
| 8885/03 | M. tuberculosis | LAM | Clade 1 |
| 946/03 | M. tuberculosis | LAM | Clade 1 |
| 10459/03 | M. tuberculosis | New-1 | Clade 1 |
| 12591/02 | M. tuberculosis | New-1 | Clade 1 |
| 8870/03 | M. tuberculosis | New-1 | Clade 1 |
| 2151/03 | M. tuberculosis | S-type | Clade 1 |
| 2318/06 | M. tuberculosis | S-type | Clade 1 |
| 6411/05 | M. tuberculosis | S-type | Clade 1 |
| 11313/03 | M. tuberculosis | Tur | Clade 1 |
| 10264/03 | M. tuberculosis | Tur | Clade 1 |
| 10529/03 | M. tuberculosis | Tur | Clade 1 |
| 2169/99 | M. tuberculosis | Uganda I | Clade 1 |
| 2201/99 | M. tuberculosis | Uganda I | Clade 1 |
| 2333/99 | M. tuberculosis | Uganda I | Clade 1 |
| 2176/99 | M. tuberculosis | Uganda II | Clade 1 |
| 2191/99 | M. tuberculosis | Uganda II | Clade 1 |
| 2253/99 | M. tuberculosis | Uganda II | Clade 1 |
| 1657/03 | M. tuberculosis | Ural | Clade 1 |
| 2679/03 | M. tuberculosis | Ural | Clade 1 |
| 8431/03 | M. tuberculosis | Ural | Clade 1 |
| 4412/04 | M. tuberculosis | X-type | Clade 1 |
| 8431/05 | M. tuberculosis | X-type | Clade 1 |
| 9953/04 | M. tuberculosis | X-type | Clade 1 |
ATCC: American Type Culture Collection; CAS: Central Asien; EAI: East African Indian; LAM: Latin American Mediterranean; Tur: Turkish