Table 1

Branch models: estimated parameters and log-likelihood ratio tests
Paralog pair Model logL np Branchs ω LRT p-value
M0 −2847.12 58 OG 0.05
Lax 0.08
OG 0.05
MP −2846.50 59 Lax2 0.07 vs. M0 1.24 0.26
Lax4 0.10
OG 0.05
Lax2/Lax4 MA −2840.62 59 Laxearly 0.14 vs. M0 13.0** 0.00031
Laxlate 0.05
OG 0.05
Lax2early 0.19 vs. MP 13.8** 0.001
MPA −2839.60 61 Lax4early 0.11
Lax2late 0.04 vs. MA 2.04 0.36
Lax4late 0.06
M0 −4127.20 62 OG 0.06
Pg 0.33
OG 0.06
MP −4125.06 63 Pg3 0.25 vs. M0 4.28* 0.04
Pg11 0.41
OG 0.06
Pg3/Pg11 MA −4124.78 63 Pgearly 0.22 vs. M0 4.84* 0.03
Pglate 0.38
OG 0.06
Pg3early 0.24 vs. MP 3.68 0.16
MPA −4123.22 65 Pg11early 0.21
Pg3late 0.29 vs. MA 3.12 0.21
Pg11late 0.44
M0 −3604.36 40 OG 0.27
Pg11 0.44
OG 0.27
MP −3603.75 41 Pg11a 0.38 vs. M0 1.22 0.27
Pg11c 0.50
OG 0.27
Pg11a/Pg11c MA −3604.19 41 Pg11early 0.50 vs. M0 0.34 0.57
Pg11late 0.42
OG 0.27
Pg11aearly 0.50 vs. MP 0.72 0.70
MPA −3603.39 43 Pg11cearly 0.54
Pg11alate 0.35 vs. MA 1.60 0.45
Pg11clate 0.49

*Note. Models: for M0, ω is allowed to take a different value only in the branch of the outgroup (OG); for MP, MA and MPA ω is allowed to take a different values according to the tested effect, i.e. “paralogs”, “age” or combined as explained in Figure 1. np: number of free parameters; logL: log-likelihood; LRT: likelihood ratio test statistic between indicated models; one (respectively two) asterisk indicates that the probability of observing such an LRT or higher under the compared model is <0.05 (respectively <0.01), assuming that the LRT follows a χ2 distribution with the difference of free parameters between the compared models as the number of degrees of freedom.

Ho-Huu et al.

Ho-Huu et al. BMC Evolutionary Biology 2012 12:195   doi:10.1186/1471-2148-12-195

Open Data