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Table 4 Tests for positive selection among codons of WRKY genes using site models

From: Molecular cloning and expression analysis of WRKY transcription factor genes in Salvia miltiorrhiza

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
  1. Note: *p < 0.05 and **p < 0.01 (x 2 test).
  2. 1ω was estimated under model M0,M3,M7, and M8; p and q are the parameters of the beta distribution.
  3. 2The number of amino acid sites estimated to have undergone positive selection.