Volume 16, Number 2—February 2010
Research
Associations between Mycobacterium tuberculosis Strains and Phenotypes
Table 2
Associations between Mycobacterium tuberculosis MIRU15 profiles and spoligotyping families and subfamilies, UK*
| Spoligotype families | MIRU15 allelic variants |
Se, % | Sp, % | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 2 | 4 | 10 | 16 | 20 | 23 | 24 | 26 | 27 | 31 | 39 | 40 | A | B | C | |||
| Beijing | 2 | 2 | 2; 3 | 2–4 | 2 | 5; 6 | 1 | 5–8 | 1–3 | 5 | 2–4 | 1–4 | 3; 4 | 2 | 4 | 80.0 | 99.9 |
| CAS | 2 | 2 | Any | 3-5 | 2 | 5 | 1 | Any | 3 | 4; 5 | 2; 3 | 1–4 | 3; 4 | 2 | 2 | 72.6 | 98.3 |
| EAI1 | 2 | Any | 2-6 | 1–4 | 2 | 5 | 1 | 4–6 | 3 | 3; 5 | 2; 3 | <5 | 2–4 | 2 | 2–4 | 77.0 | 85.4 |
| EAI2 | 2 | >3 | 4; 5 | 2; 3 | 2 | 6 | 2 | 2–4 | 3; 4 | 3–5 | 3; 4 | 2; 3 | 4; 6 | >2 | 4 | 73.3 | 99.9 |
| EAI3 | 2 | >2 | 3; 4 | 1–5 | 2 | 6–8 | 2 | 2 | 3 | 4–6 | 2; 3 | Any | >4 | 1 | 3; 4 | 77.8 | 99.9 |
| EAI4 | 2 | 2–6 | 4 | 2; 3 | 2 | 5; 6 | 2 | 2 | 1; 3 | Any | 1; 3 | 2; 3 | >6 | 2–4 | 4 | 58.8 | 98.8 |
| EAI5 | 2 | 1–9 | 3–6 | 2–4 | 2 | >3 | 1–3 | 2 | 1–3 | 2–7 | 1–3 | 1–4 | >4 | 2–7 | 2–4 | 75.0 | 98.3 |
| MAF | 2 | 2; 3 | 4–7 | Any | 2 | 4 | 1; 2 | 3–5 | 2–4 | Any | 2 | 1; 2 | >3 | 2–4 | 4; 5 | 63.4 | 99.9 |
| MBOV | 2 | 1–3 | 2 | 3 | 2 | 4 | 2 | 5 | 2; 3 | 3 | 2 | 2 | 5 | 5–7 | 5 | 72.1 | 99.9 |
| Haarlem1 | 2 | 2 | 2–6 | 2–4 | 1; 2 | 3; 5 | 1 | 4–7 | 3 | 3 | 2 | 2–5 | 2; 3 | 1; 2 | 3–5 | 66.7 | 89.2 |
| Haarlem2 | 2 | 2 | 4; 5 | 1–3 | 1; 2 | 3–6 | 1 | 4; 5 | 1–3 | 3 | 2 | 1–4 | 2; 3 | 1; 2 | 3; 4 | 71.0 | 91.5 |
| Haarlem3 | 2 | 2 | 2–6 | 1–4 | 1; 2 | 3; 5 | 1 | 4–6 | 3 | 2; 3 | 2 | 1–4 | 2–4 | 1; 2 | 2; 3 | 52.9 | 94.6 |
| LAM1 | 2 | 2 | 3; 4 | 2 | 2 | 6 | 1 | 5; 6 | 2; 3 | 3 | 2 | 1 | 2 | 2 | 4 | 80.6 | 99.9 |
| LAM10 | 2 | 2 | 2–4 | 2–4 | 1; 2 | 5 | 1 | 3–5 | 3 | 3 | 2 | 1–4 | 2–4 | 2 | 4 | 87.4 | 92.4 |
| LAM3 | 2 | 2 | 4 | 2; 3 | 2 | 5; 6 | 1 | 4; 5 | 3 | 3 | 2 | 3 | 1; 2 | 2 | 2; 4 | 78.4 | 99.9 |
| LAM5† | 2 | 2 | 4 | 3 | 2 | 5 | 1 | 9 | 2 | 4 | 2 | 4 | 2 | 2 | 4 | 100.0 | 100.0 |
| LAM7† | 2 | 2 | 4 | 3 | 2 | 6 | 1 | 3 | 3 | 3 | 2 | 3 | 2 | 2 | 4 | 50.0 | 100.0 |
| LAM8 | 2 | 2 | 2–5 | 1; 3 | 2 | 5 6 | 1 | 4; 5 | 1–3 | 3 | 2 | 1 | 2 | 1 | 4 | 66.2 | 99.4 |
| LAM9 | 1; 2 | 2 | 2–4 | 1–3 | 1; 2 | 5–8 | 1 | 4–6 | 2; 3 | 2–4 | 2 | Any | 1–4 | 1; 2 | 2–6 | 72.7 | 77.1 |
| S | 2; 3 | 2; 3 | 3 | 2; 3 | 1–3 | 5; 6 | 1 | 4–6 | 3 | 2; 3 | 2 | 2; 4 | 4 | 2 | 4 | 44.4 | 99.8 |
| T1 | 2 | 2; 3 | Any | Any | 2 | 5; 6 | 1 | <7 | 2; 3 | 2–4 | 2 | Any | 2–4 | 2 | 2–5 | 54.5 | 85.8 |
| T2† | 2 | 2 | 3; 5 | 3 | 2 | 5; 6 | 1 | 5 | 3 | 2; 3 | 2 | 1; 3 | 2; 3 | 2 | 3–5 | 100.0 | 98.3 |
| T3 | 2 | 2 | 3–5 | 1–3 | 1; 2 | 5; 6 | 1 | 1; 5 | 3 | 3 | 2 | 2–5 | 3 | 2 | 4 | 60.5 | 95.7 |
| T4 | 1; 2 | 2–4 | 2–4 | 3 | 1; 2 | 5; 6 | 0–2 | 4–5 | 2; 3 | 2–4 | 2 | 2–4 | 2; 4 | 1; 2 | 2–5 | 46.2 | 88.3 |
| X1 | 2 | 2 | 3–6 | 3 | 1; 2 | 5; 6 | 1 | 1–7 | 3 | 2–4 | 2 | 2–7 | 3; 4 | 1; 2 | 2–5 | 61.4 | 92.3 |
| X2 | 1; 2 | 1; 2 | 4 | 3 | 2 | 5 | 1 | 4–8 | 3; 4 | 2; 3 | 2 | 1–4 | 2; 3 | 2 | 2; 4 | 79.5 | 99.3 |
| X3 | 2 | 2 | 3; 4 | 2; 3 | 2 | 5 | 1 | 4; 5 | 3 | 2; 3 | 2 | 2–5 | 3 | 2 | 3 | 66.7 | 99.0 |
*MIRU, mycobacterial interspersed repetitive unit; Se, sensitivity; Sp, specificity; CAS, Central Asian; EAI, East African–Indian; MAF, M. africanum; MBOV, M. bovis; LAM, Latin American. The X, T, LAM, S, and Haarlem families are European American types. Any means any family or subfamily. Only strains with no secondary assignations to spoligotype groups were used for calculating associations.
†Due to a small number of isolates in these families, Se and Sp values are calculated for illustrative purposes only.
Page created: December 13, 2010
Page updated: December 13, 2010
Page reviewed: December 13, 2010
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