Type A - Springer Static Content Server€¦ · Web view · 2014-03-18Table S2. Results of...
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Table S2. Results of positive selection using site-specific models Gene family Lineage under M0 1 M2a vs. M1 2 M8 vs. M7 2 M8 vs. M8a 2 M2a estimates PSS under M2a 3 M8 estimates PSS under M8 3 serine peptidas e Bd 0.4585 185.34 ** 193.05 ** 148.36 ** 30, 19 * , 14 ** 37, 21 * , 14 ** bacteri a 0.0118 0 0 2.39 - - - - DXX-DAB Bd 0.6953 28.92 ** 28.86 ** 28.85 ** 43, 8 * 59, 13 * , 6 ** oomycet es 0.3929 0 0 0 - - - - DFB Bd 0.6429 132.04 ** 131.28 ** 127.86 ** 90, 21 * , 11 ** 139, 59 * , 24 ** 1
Transcript of Type A - Springer Static Content Server€¦ · Web view · 2014-03-18Table S2. Results of...
Table S2. Results of positive selection using site-specific models
Gene family Lineage under
M01
M2a vs.
M12
M8 vs.
M72
M8 vs.
M8a2M2a estimates
PSS under
M2a3M8 estimates
PSS under
M83
serine
peptidase
Bd 0.4585 185.34** 193.05** 148.36**30, 19*,
14**
37, 21*,
14**
bacteria 0.0118 0 0 2.39 - - - -
DXX-DABBd 0.6953 28.92** 28.86** 28.85** 43, 8* 59, 13*, 6**
oomycetes 0.3929 0 0 0 - - - -
DFB Bd 0.6429 132.04** 131.28** 127.86** 90, 21*,
11**
139, 59*,
24**
1
oomycetes 0.2704 0 39.96** 38.90** - - 23, 2*, 1**
DX8
Bd 0.8835 100.35** 100.02** 100.02**101, 18*,
8**
146, 40*,
16**
oomycetes 0.5229 86.52** 99.79** 82.72** 41, 12*, 5** 59, 13*,6**
DXX-DXV
Bd 0.6522 23.36** 24.00** 23.10** 114, 2*164, 22*,
3**
oomycetes 0.5923 169.59** 207.20** 159.34** 27, 16*,
12**
31, 17*,
14**
2
DXX-DHA
Bd 0.7843 99.09** 98.83** 98.65** 61, 18*, 8*91, 29*,
13**
oomycetes 0.6320 69.96** 71.46** 69.43** 28, 11*, 4** 28, 11*, 4**
DFA-DDCBd 0.6880 58.05** 58.48** 58.03** 36, 17*, 8**
42, 18*,
10**
oomycetes 0.2560 0 0.16 0 - - - -
DN17 Bd 0.4980 28.56** 28.82** 28.51** 25, 8*, 3** 28, 9*, 5**
3
oomycetes 0.4726 82.51** 93.84** 87.67** 29, 13*, 9**40, 18*,
11**
1. The ratio average across all sites and lineages under PAML model M0.
2. Double asterisks represent for chi-square ( ) test, while single asterisk represents .
3. Positively selected sites, the number of amino acid residues with the posterior probability (PP) of positive selection greater than 0.05. Double asterisks represent the number of sites with PP
>0.99, while single asterisk represents PP >0.95.
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Table S3. Results of positive selection using branch-site modelsGene family Model Parameter estimates PSS
serine peptidase
Anull -24280.5596Background:
Foreground:
A -24278.1363* Background:
Foreground:
13
DXX-DAB
Anull -6101.3305Background:
Foreground:
A -6101.3305
Background:
-
5
Foreground:
DFB
Anull -15292.8392Background:
Foreground:
A -15292.8394Background:
Foreground:
-
DX8
Anull -11680.5755Background:
Foreground:
A -11675.7478**
Background:
104
6
Foreground:
DXX-DXV
Anull -11622.7872Background:
Foreground:
A -11620.6559* Background:
Foreground:
31
DXX-DHA
Anull -8100.5876Background:
Foreground:
A -8100.5876
Background:
-
7
Foreground:
DFA-DDC
Anull -4466.5119Background:
Foreground:
A -4464.0021* Background:
Foreground:
11
DN17
Anull -4466.5119Background:
Foreground:
A -4464.0021*
Background:
35
8
Foreground:
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Fig. S2. Amino acid residues that are critical to functional divergence between serine peptidase clades A and B. Gaps of the alignment have been deleted using PAL2NAL. The critical amino acid residues for functional divergence with posterior probability higher than 0.95 are illustrated by the arrows.
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