Table 2. DNA polymorphisms in different groups and populations analysed based on the ISHAM-MLST concatenated sequences of 102 Cryptococcus neoformans isolates studied.
| (number of isolates) | Length | S | SVS | PIS | π | k | h | Hd | D | FD | FF | FS | Theta-w | Rm |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Vtnr | ||||||||||||||
| Vnfr | ||||||||||||||
| Total (102) | 4044 | 405 | 7 | 398 | 0.00633 | 24.817 | 17 | 0.653 | -2.319 | 2.37* | 0.360 | 19.48 | 77.925 | 7 |
| 360.732 | ||||||||||||||
| 14.994 | ||||||||||||||
| Clinical (63) | 4040 | 388 | 9 | 379 | 0.00748 | 29.323 | 10 | 0.369 | -2.297* | 2.033* | 0.357 | 27.755* | 82.336 | 2 |
| 479.57 | ||||||||||||||
| 17.472 | ||||||||||||||
| Environmental (39) | 4001 | 50 | 1 | 49 | 0.00384 | 15.347 | 11 | 0.750 | 1.064 | 1.746* | 1.792* | 7.699* | 11.826 | 3 |
| 14.180 | ||||||||||||||
| 2.797 | ||||||||||||||
| VNI+VNII+ | 4010 | 84 | 2 | 82 | 0.00296 | 11.822 | 15 | 0.639 | -0.8871 | 2.075* | 0.998 | 7.784* | 16.224 | 6 |
| VNB (100) | 18.086 | |||||||||||||
| 3.134 | ||||||||||||||
| Pop1 (6) | 4004 | 3 | 2 | 1 | 0.00032 | 1.27 | 4 | 0.867 | -0.1854 | -0.3748 | -0.35156 | -1.350 | 1.3138 | 0 |
| 0.828 | ||||||||||||||
| 0.575 | ||||||||||||||
| Pop2 (57) | 4003 | 0 | 0 | 0 | 0.000 | 0.000 | 1 | 0.000 | - | - | - | - | 0.000 | 0 |
| 0.000 | ||||||||||||||
| 0.000 | ||||||||||||||
| Pop3 (19) | 4005 | 0 | 0 | 0 | 0.000 | 0.000 | 1 | 0.000 | - | - | - | - | 0.000 | 0 |
| 0.000 | ||||||||||||||
| 0.000 | ||||||||||||||
| Pop4 (7) | 4005 | 16 | 4 | 12 | 0.00185 | 7.429 | 6 | 0.952 | 0.7630 | 0.76214 | 0.83911 | -0.377 | 6.5306 | 1 |
| 10.623 | ||||||||||||||
| 2.666 |
Legend: S–number of polymorphic sites; π –nucleotide diversity, Pi; k–average number of nucleotide differences; h–number of haplotypes; Hd–haplotype diversity; D–Tajima’s D; FD–Fu and Li’s D; FF–Fu and Li’s F; Fs–Fu’s Fs
*–p<0,05
Rm–Minimum number of recombination events; Theta w–Theta (per sequence) from S; Vtnr–Variance of theta (no recombination); Vnfr–Variance of theta (free recombination); SVS–Singleton variable sites; PIS–Parsimony informative sites.