Table 1. Spoligotyping results for comparative population structure of Mycobacterium tuberculosis sensu stricto (including EA), the EA clade separately, and M. africanum, The Gambia, 2002–2009.
| Parameters |
M. tuberculosis sensu stricto |
M. africanum
|
Total | ||||
|---|---|---|---|---|---|---|---|
| All lineages | EA clade | Afri_1 |
Afri_2 | ||||
| With SIT 181 | Without SIT 181 | ||||||
| Population parameters | |||||||
| No. isolates (n) | 548 | 467 | 334 | 136 | 2 | 884 | |
| No. genotypes | 108 | 79 | 63 | 62 | 2 | 173 | |
| No. singletons (s) | 60 | 43 | 41 | 41 | 2 | 103 | |
| No. clusters (c) | 48 | 36 | 22 | 21 | NA | 70 | |
| Clustering rate, (n − s)/n | 0.89 | 0.91 | 0.88 | 0.70 | NA | 0.88 | |
| Average cluster size, (n − s)/c | 10.2 | 11.8 | 13.3 | 4.3 | NA | 11.2 | |
| Genetic diversity |
40.0 |
27.0 |
|
22.7 |
43.4 |
NA |
64.0 |
| Recent transmission index | 0.80 | 0.83 | 0.81 | 0.54 | NA | 0.80 | |
*EA, Euro-American; SIT, shared international type; NA, not applicable.