Skip to main content
. 2012 Dec 12;12(3):651–663. doi: 10.1074/mcp.M112.023135

Table I. Selection analyses of snake venom metalloproteinase (SVMP) propeptides. ω: mean dN/dS.

SLACa FELb RELc Integrative analyses MEMEd PAMLg
SLAC + FEL + REL + MEME M8 M2a
Psammophis
    ω > 1e 0 1 0 2 2 1
Monodomain
    ω < 1f 1 2 4 4 1 (0 + 2) (0 + 1)
SVMP
    ω = 0.95 - 2.51 - 1.23 1.24
Echis
    ω > 1e 0 0 2 2 0 0
Monodomain
    ω < 1f 0 4 1 5 0
SVMP
    ω = 0.32 - 0.43 - 0.52 0.52
Echis
    ω > 1e 0 1 2 3 0 0
Multidomain
    ω < 1f 5 12 0 12 1
SVMP
    ω = 0.47 - 0.82 - 0.46 0.46

a Single Likelihood Ancestor Counting.

b Fixed-effects likelihood.

c Random-effects likelihood.

d Sites detected as experiencing episodic diversifying selection (0.05 significance) by the Mixed Effects Model Evolution (MEME).

e Number of positively selected sites at 0.05 significance (for SLAC, FEL) or 50 Bayes factor (for REL).

f Number of negatively selected sites at 0.05 significance (for SLAC, FEL) or 50 Bayes factor (for REL).

g Positively selected sites detected using the Bayes Empirical Bayes approach implemented in the site models (M8 and M2a). Sites detected at 0.99 and 0.95 significance are indicated in the parenthesis.