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Table 2 Parameter estimates and LRT of M3 vs. MD and M1a vs. MC in DEF-like genes from Orchidaceae-specific clades 1 and 21.

From: Positive selection and ancient duplications in the evolution of class B floral homeotic genes of orchids and grasses

Model

Estimate of parameters

L

M3 discrete

k = 2

ω0 = 0.04544, f0 = 0.63768

ω1 = 0.42599, f1 = 0.36232

-3516.356560

M3 discrete

k = 3

ω0 = 0.04544, f0 = 0.63768

ω1 = 0.42599, f1 = 0.36232

ω2 = 38.73814, f2 = 0.00000

-3516.356560

Model D

k = 2

ω0 = 0.04102, f0 = 0.60628

ω1C1 = 0.26333, ω1C2 = 0.59513, f1= 0.39372

-3508.313165

Model D

k = 3

ω 0 = 1.28841, f 0 = 0.02038

ω 1 = 0.03309, f 1 = 0.55669

ω 2C1 = 0.21766, ω 2C2 = 0.50952, f 2 = 0.42294

-3506.393271

Model 1a

ω0= 0.09066, f0 = 0.75319

ω1 = 1.00000, f1 = 0.24681

-3540.435701

Model C

ω 0 = 0.03251, f 0 = 0.55437

ω 1 = 1.00000, f 1 = 0.02680

ω 2C1 = 0.21104, ω 2C2 = 0.50104, f 2 = 0.41883

-3506.594944

  1. LRTs of variable ω's among sites
  2. M3(k = 2) vs M3 (k = 3) 2δ = 3.617532 df = 2 P = 0.1639
  3. LRTs of variable ω's among sites and branches
  4. M3 (k = 2) vs MD (k = 2) 2δ = 16.08679 df = 2 P = 0.0003
  5. M3 (k = 3) vs MD (k = 3) 2δ = 16.309046 df = 2 P = 0.0003
  6. M3 (k = 2) vs MD (k = 3) 2δ = 19.926578 df = 4 P = 0.0005
  7. M1a vs MC 2δ = 67.681514 df = 2 P < 0.0001
  8. 1. Bonferroni correction for the 5 tests applied to each pair of clades: 0.008333
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BMC Ecology and Evolution

ISSN: 2730-7182

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