Table 4.
Tests for positive selection among codons of WRKY genes using site models
| Model | lnL | Estimates of parameter 1 | 2ΔlnL | Positive selection sites 2 | |
|---|---|---|---|---|---|
| Frequency | dN/dS | ||||
| M0(one-ratio) | −5119.032 | p = 1.000 | ω = 0.03756 | 508.984 (M3 vs. M0)** | Not allowed |
| M3(discrete) | −4864.540 | p0 = 0.30493 | ω0 = 0.00052 | None | |
| p1 = 0.32215 | ω1 = 0.02439 | ||||
| p2 = 0.37292 | ω2 = 0.08755 | ||||
| M1a(nearly neutral) | −5119.251 | p0 = 0.93054 | ω0 = 0.04576 | 0 (M2a vs. M1a) | Not allowed |
| p1 = 0.06946 | ω1 = 1.00000 | ||||
| M2a(positive selection) | −5119.251 | p0 = 0.93052 | ω0 = 0.04576 | None | |
| p1 = 0.03470 | ω1 = 1.00000 | ||||
| p2 = 0.03478 | ω2 = 1.00000 | ||||
| M7(beta) | −4857.207 | p = 0.39586 | 0.002 (M8 vs. M7) | Not allowed | |
| q = 9.86708 | |||||
| M8(beta & ω) | −4857.206 | p0 = 0.99999 | ω = 1.35981 | None | |
| p = 0.39661 | |||||
| p1 = 0.00001 | |||||
| q = 9.86579 | |||||
Note: *p < 0.05 and **p < 0.01 (x 2 test).
1ω was estimated under model M0,M3,M7, and M8; p and q are the parameters of the beta distribution.
2The number of amino acid sites estimated to have undergone positive selection.