Table 1.
Characteristics of the four most prevalent species of Nocardia isolated from clinical samples in Spain between 2006 and 2010
| Nocardia species (no. of strains) | Genes (bp)a | No. of haplotypes (HGDI, S2, SD)b | No. of SNPs (divergence rate)c | SNPs per strain (avg, mode) |
|---|---|---|---|---|
| N. abscessus (29) | 16S rRNA (409) | 1 | 0 | 0 |
| gyrB (653) | 14 (0.889, 0.002, 0.046) | 24 (0.0–1.7) | 0–9 (3, 2) | |
| rpoB (354) | 18 (0.948, 0.00058, 0.024) | 65 (0.0–16) | 6–49 (42, 44) | |
| N. cyriacigeorgica (30) | 16S rRNA (514) | 1 | 0 | 0 |
| gyrB (727) | 17 (0.94, 0.00055, 0.023) | 77 (0.0–5.6) | 0–38 (28, 36/38) | |
| rpoB (354) | 12 (0.88, 0.00135, 0.037) | 24 (0.0–4.4) | 4–15 (9, 13) | |
| N. farcinica (31) | 16S rRNA (507) | 1 | 0 | 0 |
| gyrB (739) | 11 (0.854, 0.0014, 0.038) | 11 (0.0–0.8) | 0–6 (3, 2/4) | |
| rpoB (351) | 5 (0.716, 0.001, 0.036) | 9 (0.0–1.4) | 4–6 (4, 4) | |
| N. nova (29) | 16S rRNA (529) | 8 (0.672, 0.00739, 0.086) | 8 (0.0–1.1) | 0–4 (1, 2) |
| gyrB (698) | 26 (0.985, 0.0003, 0.017) | 51 (0.0–5.2) | 0–36 (22, 34) | |
| rpoB (285) | 29 (1.0, 0.00008, 0.009) | 49 (0.7–12.6) | 16–44 (32, 31) |
a
Analyzed size in number of base pairs.
b
HGDI, Hunter-Gaston discriminatory index; S2, variance.
c
SNP, single nucleotide polymorphism; the divergence rate is expressed as a percentage among strains of each group.