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Volume 16, Number 2—February 2010

Research

Associations between Mycobacterium tuberculosis Strains and Phenotypes

Timothy Brown1, Vladyslav Nikolayevskyy1, Preya Velji, and Francis DrobniewskiComments to Author 
Author affiliations: United Kingdom Health Protection Agency, London UK (T. Brown, F. Drobniewski); Queen Mary College, University of London, London (V. Nikolayevskyy, P. Velji, F. Drobniewski); 1These authors contributed equally to this article.

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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.

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