Article Figures & Data
Figures
- FIG. 1.
IS6110 DNA fingerprint patterns, spoligotype patterns, and MIRU-VNTR copy numbers of the 39 strains grouped in 13 IS6110 clusters. In addition, the genotypes of the three strains additionally clustered by identical MIRU patterns but differentiated by spoligotyping (cluster 9b) are shown. Isolates of IS6110 clusters 1 and 12 without epidemiological link (see the text) are clearly distinguished by differences in their MIRU-VNTR profiles (boxed).
- FIG. 2.
MIRU-VNTR SLVs. Isolates differing by a single MIRU-VNTR locus (boxed) out of the 24 loci are shown, along with the corresponding IS6110 RFLP and spoligotyping profiles. Isolate 10041/03 displayed SLVs (shown by a single box or two separate connected boxes) with three different isolates. Similarly, the isolates in MIRU-VNTR cluster 9+9b (see the text) displayed SLVs (shown by a single box or two separate connected boxes) with two different isolates.
Tables
- TABLE 1.
Composition of the locus sets
Set and multiplex Locusa Aliasb 15 Locus (discriminatory) Mix 1 580 MIRU 4, ETR D 2996 MIRU 26 802 MIRU 40 Mix 2 960 MIRU 10 1644 MIRU 16 3192 MIRU 31, ETR E Mix 3 424 Mtub04 577 ETR C 2165 ETR A Mix 4 2401 Mtub30 3690 Mtub39 4156 QUB-4156 Mix 5 2163b QUB-11b 1955 Mtub21 4052 QUB-26 24 Locus (full set) Mix 6 154 MIRU 2 2531 MIRU 23 4348 MIRU 39 Mix 7 2059 MIRU 20 2687 MIRU 24 3007 MIRU 27, QUB-5 Mix 8 2347 Mtub29 2461 ETR B 3171 Mtub34 - TABLE 2.
Clustering results by genotyping methods
Methoda No. of unique isolates No. of clustered isolates No. of clusters No. of distinct types Clustering rate (%)b Spoligotyping 56 98 16 72 53.2 MIRU-VNTR 12 old 84 70 20 104 32.5 MIRU-VNTR 12 old + 3 ETR 103 51 13 116 24.7 MIRU-VNTR 12 old + spoligotyping 106 48 14 120 22.1 IS6110-RFLP 115 39 13 128 16.9 Low-copy-no. isolates 8 6 2 10 NR High-copy-no. isolates 107 33 11 118 NR MIRU-VNTR 15 115 39 12 127 17.5 MIRU-VNTR 24 117 37 11 128 16.9 MIRU-VNTR 15 + spoligotyping 120 34 11 131 14.9 MIRU-VNTR 24 + spoligotyping 120 34 11 131 14.9 ↵ a MIRU-VNTR 12 old, original set of 12 MIRU-VNTR loci as described previously (26, 27), MIRU-VNTR 12 old + 3 ETR, original set of 12 MIRU-VNTR loci plus three nonredundant exact-tandem-repeat loci (8), MIRU-VNTR 15 and 24, discriminatory subset of 15 loci and full set of 24 loci (Table 1) (24).
↵ b NR, not relevant.
Supplemental material
Files in this Data Supplement:
- Supplemental file 1 -
Fig. S1a (IS6110 DNA fingerprint, spoligotype, and MIRU-VNTR patterns of the 154 M. tuberculosis strains analyzed in this study; the strains
are ordered based on the similarity of there is6110 DNA fingerprints)
PDF document, 3.3 MB. - Supplemental file 2 -
(IS6110 DNA fingerprint, spoligotype, and MIRU-VNTR patterns of the 154 M. tuberculosis strains analyzed in this study; the strains
are ordered based on the similarity of their 24-locus MIRU-VNTR patterns)
PDF document, 3.3 MB. - Supplemental file 3
-
Legends to figures
MS Word document, 50KB.
- Supplemental file 1 -
Fig. S1a (IS6110 DNA fingerprint, spoligotype, and MIRU-VNTR patterns of the 154 M. tuberculosis strains analyzed in this study; the strains
are ordered based on the similarity of there is6110 DNA fingerprints)
