Nuclear and chloroplast DNA phylogeography suggests an Early Miocene southward expansion of Lithocarpus (Fagaceae) on the Asian continent and islands

Yang, Chih-Kai; Chiang, Yu-Chung; Huang, Bing-Hong; Ju, Li-Ping; Liao, Pei-Chun

doi:10.1186/s40529-018-0244-8

Botanical Studies

Table 1 Tail probabilities of asymmetric values for the among-lineage diversification rate variation in the phylogenetic topologies inferred from the species tree (BEAST)

From: Nuclear and chloroplast DNA phylogeography suggests an Early Miocene southward expansion of Lithocarpus (Fagaceae) on the Asian continent and islands

	I_C	M_Π*	M_Π	M_Σ*	M_Σ
Both cpDNA and nrITS (Fig. 2a)
Observed	251	− 0.5855	1.50E−10	0.6747	50.2261
Min ERM	507	− 0.9566	1.93E−17	0.5302	44.0535
Max ERM	64	− 0.0856	0.0472	0.9256	61.3567
0.025 frequentile RR	368	− 0.8315	1.08E−13	0.5918	47.8035
0.975 frequentile RR	233	− 0.5207	4.01E−08	0.7284	54.2252
TailPr	0.0006	0.0003	3.00E−05	0.0001	6.00E−05
cpDNA (Fig. 3)
Observed	324	− 0.5129	4.33E−10	0.7196	66.2184
Min ERM	651	− 0.9533	5.95E−19	0.5418	55.7200
Max ERM	104	− 0.1478	0.0010	0.8833	73.5864
0.025 frequentile RR	440	− 0.7518	1.98E−15	0.6262	60.3685
0.975 frequentile RR	227	− 0.3930	2.91E−08	0.7900	68.394
TailPr	0.0051	0.0005	8.00E−05	0.0002	0.0002
nrITS (Fig. 4)
Observed	294	− 0.5483	1.43E−10	0.7035	58.2993
Min ERM	589	− 1.0168	2.51E−19	0.5244	50.1407
Max ERM	79	− 0.1281	0.0020	0.8990	67.3080
0.025 frequentile RR	386	− 0.7540	3.50E−14	0.6198	55.2110
0.975 frequentile RR	215	− 0.4135	9.37E−08	0.7744	62.4962
TailPr	0.0044	0.0023	0.0037	0.0059	0.0048
cpDNA (Additional file 1: Figure S1A)
Observed	599	− 0.5573	3.72E−19	0.6878	103.0830
Min ERM	1112	− 0.8805	1.77E−28	0.5576	94.1847
Max ERM	220	− 0.2034	2.54E−07	0.8536	117.8260
0.025 frequentile RR	854	− 0.7510	2.40E−23	0.6348	100.578
0.975 frequentile RR	463	− 0.4276	8.03E−14	0.7606	110.5650
TailPr	0.0007	3.00.E− 05	0.0001	0.0007	0.0022
nrITS (Additional file 1: Figure S1B)
Observed	724	− 1.0221	2.02E−21	0.5400	60.0154
Min ERM	754	− 1.0083	5.14E−20	0.5637	60.8534
Max ERM	120	− 0.1426	0.0004	0.8893	80.0882
0.025 frequentile RR	652	− 0.9238	9.54E−20	0.5688	62.8712
0.975 frequentile RR	351	− 0.5370	1.53E−12	0.6977	70.1858
TailPr	0.0021	0.0005	0.0019	0.0017	0.0144

I_C is the Colless’s tree imbalance index; M_Π and M_Σ are the nodal probability product and nodal probability sum of the tree, respectively; M_Π* and M_Σ* are modified versions of M_Π and M_Σ obtained through differential weighting of the individual equal-rate Markov nodal probabilities according to their species diversity. These indices display the diversification rate variation of the whole tree

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