Table 2.
Nucleotide diversity at OsAMT1;1 and at seven loci around it in O. sativa and O. rufipogon
| Genes predicted | Position a | Length b | O. sativa (n = 94)c | O. rufipogon (n = 19) | |||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Pi×103 | Hd | D1 | D2 | Pi×103 | Hd | D1 | D2 | The ratio of Pi d | |||
| Glutaredoxin subgroup I | -101.9 | 853 | 1.21 | 0.516 | 1.38 | -0.57 | 2.15 | 0.830 | -2.02* | -3.11** | 0.563 |
| C3HC4 type zinc finger family | -74.1 | 757 | 0.06 | 0.042 | -1.39 | -2.80* | 1.87 | 0.766 | -1.31 | -1.44 | 0.032 |
| Lipase class 3 family | -38.5 | 756 | 0.06 | 0.042 | -1.39 | -2.80* | 1.81 | 0.754 | -1.63 | -2.17 | 0.033 |
| Cupin superfamily | -7.3 | 863 | 0.05 | 0.021 | -1.39 | -2.80* | 1.72 | 0.865 | -1.20 | -1.44 | 0.029 |
| OsAMT1;1 | 0 | 2688 | 0.08 | 0.123 | -2.00* | -3.13* | 1.72 | 0.982 | -1.59 | -0.57 | 0.047 |
| Hypothetical protein | 12.4 | 877 | 0.02 | 0.021 | -1.03 | -2.02 | 1.65 | 0.807 | -1.25 | -0.88 | 0.012 |
| Transcriptional corepressor LEUNIG |
27.5 | 638 | 0.13 | 0.042 | -1.79* | -3.84** | 1.69 | 0.678 | -1.21 | -1.51 | 0.077 |
| Expressed protein | 49.5 | 832 | 2.01 | 0.576 | 0.52 | -1.40 | 3.99 | 0.906 | -0.50 | -0.41 | 0.504 |
a Position of sampled loci as far to the first nucleotide of OsAMT1;1 that was considered as 0 kb; b Length (bp) of sampled alignment regions is relative to Nipponbare genomic sequence; c Pi (π), nucleotide diversity per site; Hd, haplotype diversity; D1, Tajama's D; D2, Fu and Li's D*; *, ** significant at 0.05 and 0.02 level, respectively; d The relative ratio of Pi for O. sativa to O. rufipogon.