The glycoprotein TRP36 of Ehrlichia sp. UFMG-EV and related cattle pathogen Ehrlichia sp. UFMT-BV evolved from a highly variable clade of E. canis under adaptive diversifying selection

Cabezas-Cruz, Alejandro; Valdés, James J; de la Fuente, José

doi:10.1186/s13071-014-0584-5

Table 2 Codons under positive and negative selection

From: The glycoprotein TRP36 of Ehrlichia sp. UFMG-EV and related cattle pathogen Ehrlichia sp. UFMT-BV evolved from a highly variable clade of E. canis under adaptive diversifying selection

Codons	Branches^a	SLAC ω^b	SLAC p-value	FEL ω^b	FEL p-value	REL ω^b	Bayes factor	MEME ω^b	MEME p-value	Selection type^c
6	B5	−4.047	0.333	−3.159	0.081	−1.126	229.790	-	-	Negative
8	7	−4.604	0.293	−4.597	0.071	−1.096	92.479	-	-	Negative
10	7	−0.686	0.787	−2.465	0.583	−0.149	0.595	>100	0.030	Positive
21	7	4.991	0.423	3.013	0.222	0.810	3.221	>100	0.019	Positive
28	7	8.543	0.184	5.818	0.082	1.678	28.536	>100	0.010	Positive
28	1	8.543	0.184	5.818	0.082	1.678	28.536	>100	0.010	Positive
39	7	6.912	0.371	3.907	0.444	1.265	8.352	>100	0.013	Positive
39	1	6.912	0.371	3.907	0.444	1.265	8.352	>100	0.013	Positive
40	7	4.047	0.444	2.432	0.350	0.476	1.985	>100	0.011	Positive
49	1	−16.858	0.031	−10.024	0.007	−1.120	178.481	-	-	Negative
49	6	−16.858	0.031	−10.024	0.007	−1.120	178.481	-	-	Negative
51	6	3.473	0.603	1.923	0.586	0.096	1.136	>100	0.028	Positive
52	1	−8.094	0.111	−3.234	0.062	−1.087	77.050	-	-	Negative
52	6	−8.094	0.111	−3.234	0.062	−1.087	77.050	-	-	Negative
71	1	−18.415	0.026	−14.187	0.004	−1.121	187.132	-	-	Negative
71	2	−18.415	0.026	−14.187	0.004	−1.121	187.132	-	-	Negative
77	B1	4.047	0.444	2.150	0.377	0.340	1.681	>100	0.025	Positive
77	15	4.047	0.444	2.150	0.377	0.340	1.681	>100	0.025	Positive
83	5	−4.047	0.333	−3.402	0.073	−1.127	243.194	-	-	Negative
89	2	−9.551	0.153	−7.402	0.042	−1.101	99.411	-	-	Negative
94	2	−6.708	0.201	−4.324	0.059	−1.124	189.451	-	-	Negative
96	2	−4.047	0.333	−4.119	0.063	−1.127	242.661	-	-	Negative
105	2	3.569	0.689	2.357	0.608	0.330	1.536	>100	0.030	Positive
116	2	−7.488	0.180	−3.380	0.074	−1.126	199.960	-	-	Negative
124	5	3.663	0.543	2.278	0.488	0.329	1.569	>100	0.004	Positive
139	10	−17.080	0.037	−7.190	0.074	−1.007	23.196	-	-	Negative
142	1	6.862	0.316	6.098	0.511	1.459	31.512	>100	0.009	Positive
142	10	6.862	0.316	6.098	0.511	1.459	31.512	>100	0.009	Positive
145	1	4.902	0.413	4.701	0.571	1.230	7.496	>100	0.017	Positive
145	A1	4.902	0.413	4.701	0.571	1.230	7.496	>100	0.017	Positive
152	10	20.127	0.244	41.463	0.238	1.510	66.006	>100	0.224	Positive
	B4
	A5
158	1	2.355	0.585	−1.195	0.886	1.162	161.941	1.219	0.612	Positive
	4
	A4
	A5
	10
162	1	16.368	0.227	8.312	0.354	1.574	87.208	>100	0.343	Positive
	5
	10
	B2
166	1	25.338	0.042	5.483	0.239	1.510	20.855	>100	0.198	Positive
	10
	A8
167	10	28.242	0.032	8.115	0.083	1.677	53.176	>100	0.084	Positive
167	B1	28.242	0.032	8.115	0.083	1.677	53.176	>100	0.084	Positive
170	10	−8.379	0.406	−74.785	0.031	0.536	0.396	-	-	Negative
170	9	−8.379	0.406	−74.785	0.031	0.536	0.396	-	-	Negative

^aInternal and external branches are identified by numbers and letters and numbers as in Figure 2.
^bThe ratio between non-synonymous (dN) and synonymous (dS) nucleotide substitution per site (ω) analyzed by Datamonkey via SLAC, FEL, REL and MEME.
^cSites were considered under positive selection (ω > 1) or negative selection (ω < 1) when at least one of the methods shows significant difference (p-value < 0.05 (SLAC, FEL and MEME) or Bayes Factor > 50 (REL)).

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