Skip to main content

Advertisement

Table 2 Statistical supports for alternative tree topologies for relationships among Bmp2/4/16 genes

From: The origin of bmp16, a novel Bmp2/4relative, retained in teleost fish genomes

Ranka Tree topology Supported scenario ΔlogL± SE ΔlogL/SE RELL BP BPP P-value
        AU SH
1 (((((PmB, PmC), (PmA, bmp16)), Bmp2), Bmp4), Out) Fig. 5A ML 0.00 0.45 0.65 0.91 1.00
2 ((((((PmB, PmC), bmp16), PmA), Bmp2), Bmp4), Out) Fig. 5A 1.49 ± 3.77 0.40 0.18 0.15 0.76 0.96
3 ((((((PmB, PmC), bmp16), PmA), Bmp4), Bmp2), Out) Fig. 5A 3.72 ± 4.68 0.80 0.04 0.02 0.43 0.86
4 (((((PmB, PmC), bmp16), PmA),(Bmp4, Bmp2)), Out) Fig. 5A 3.77 ± 4.59 0.82 0.02 0.02 0.27 0.86
5 (((((PmB, PmC), (PmA, bmp16)), Bmp4), Bmp2), Out) Fig. 5A 2.22 ± 2.55 0.87 0.08 0.07 0.43 0.92
6 ((((((bmp16, PmC), PmB), PmA), Bmp2), Bmp4), Out) Fig. 5A 5.33 ± 5.81 0.92 0.03 0.00 0.27 0.79
7 ((((((bmp16, PmB), PmC), PmA), Bmp2), Bmp4), Out) Fig. 5A 5.33 ± 5.81 0.92 0.03 0.00 0.27 0.79
8 ((((PmB, PmC), (PmA, bmp16)),(Bmp2, Bmp4)), Out) Fig. 5A 2.27 ± 2.42 0.94 0.03 0.07 0.24 0.92
158 (((Bmp4, (Bmp2, bmp16)), (PmA, (PmB, PmC))), Out) Fig. 5B 13.81 ± 5.99 2.31 0.00 0.00 0.04 0.36
373 ((((Bmp2, PmC), (bmp16, PmA)), (Bmp4, PmB)), Out) Fig. 5C 30.84 ± 10.87 2.84 0.00 0.00 0.02 0.02
  1. aAll 945 tree topologies were sorted by ΔlogL/SE. Abbreviations: Bmp2, gnathostome Bmp2; Bmp4, gnathostome Bmp4; bmp16, teleost bmp16; PmA, P. marinus PmBmp2/4-A; PmB, P. marinus PmBmp2/4-B; PmC, P. marinus PmBmp2/4-C; Out, outgroup; SE, standard error of ΔlogL; RELL BP, Probability based on resampling of estimated log-likelihoods (RELL); BPP, Bayesian posterior probability; AU, approximate unbiased test; SH, Shimodaira-Hasegawa test. For tree topologies supporting scenarios hypothesized in Figure 5B and 5C, only those with the largest likelihood are shown, respectively.