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

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

Rank^a	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

^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.

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