Table 1.
Summary statistics of PSTOL1 nucleotide variation by rice group
| Oryza group | Clade | No. accessions | No. Segregating Sites | π | θW | Tajima’s D | Fu & Li’s FS |
|---|---|---|---|---|---|---|---|
| O. sativa | |||||||
| - indica | A & B | 12 | 38 | 0.0115 | 0.0226 | −2.2578** | 3.0801** |
| - aus | A & B | 12 | 34 | 0.0196 | 0.0276 | −1.3584 | −2.1365* |
| - tropical japonica | A & B | 26 | 34 | 0.0394 | 0.0235 | 2.4304** | 2.2530** |
| - aromatic | A & B | 10 | 34 | 0.0291 | 0.0315 | −0.2841 | 0.7705 |
| All cultivated | A & B | 60 | 47 | 0.0451 | 0.0267 | 2.3701 | 1.0783 |
| - US weedy | A | 20 | 0 | 0 | 0 | — | — |
| - Malaysian weedy | A | 19 | 0 | 0 | 0 | — | — |
| - Korean weedy | A | 4 | 0 | 0 | 0 | — | — |
| All weedy | A | 43 | 2 | 0 | 0 | — | — |
| O. rufipogon | A & B | 28 | 56 | 0.0397 | 0.0150 | −0.2705 | −0.1811 |
| O. barthii | B | 9 | 3 | 0.0011 | 0.0018 | 0.0253 | 0.2023 |
| O. glaberrima | B | 9 | 3 | 0 | 0 | −1.5130* | −1.9338* |
| O. meridionalis | C | 6 | 22 | 0.0202 | - | 0.9752 | 1.0558 |
| O. glumaepatula | A | 5 | 25 | 0.0328 | 0.0369 | −0.9924 | −1.0669 |
Pi and Theta are per base pair at silent sites
10,000 coalescent simulations for significance values
*p-value < 0.05
**p-value < 0.001