. 2009 May 25;1:99–113. doi: 10.1093/gbe/evp011

Table 5.

Phylogenetic Position of the Diplomonads: Analysis of the Trifurcation G. lamblia (GLAM)–Plants (PLAN)–Opisthokonta (Animals–Fungi, AF)

RGC	Hypothesis			Branch Length				Relative Probabilities of Hypotheses
	GLAM + PLAN	GLAM + AF	PLAN + AF	GLAM	PLAN	AF	Stem	P₁₂	P₁₃	P₂₃
	H₁	H₂	H₃
Animals and fungi, A. thaliana and O. sativa
CAM	3	3	8	208	12	4	74	0.267	<0.001 (H₃)	<0.001 (H₃)
CA	14	21	47	600	64	15	249	<0.001 (H₂)	<0.001 (H₃)	<0.001 (H₃)
Animals, A. thaliana and O. sativa
CAM	9	3	18	256	19	14	91	0.239	<0.001 (H₃)	<0.001 (H₃)
CA	29	26	95	731	93	66	300	0.277	<0.001 (H₃)	<0.001 (H₃)
Fungi, A. thaliana and O. sativa
CAM	9	10	17	265	44	16	92	0.036 (H₂)	<0.001 (H₃)	<0.001 (H₃)
CA	36	46	89	764	149	78	311	<0.001 (H₂)	<0.001 (H₃)	<0.001 (H₃)
Animals and fungi, A. thaliana and P. patens
CAM	2	8	5	175	8	5	52	0.057 (H₂)	<0.001 (H₃)	<0.001 (H₃)
CA	8	27	36	489	37	12	180	<0.001 (H₂)	<0.001 (H₃)	<0.001 (H₃)
Animals, A. thaliana and P. patens
CAM	9	9	7	212	10	13	63	0.459	<0.001 (H₃)	<0.001 (H₃)
CA	24	34	54	595	54	50	219	0.130	<0.001 (H₃)	<0.001 (H₃)
Fungi, A. thaliana and P. patens
CAM	5	14	8	213	15	13	70	0.059	<0.001 (H₃)	<0.001 (H₃)
CA	23	49	65	610	64	65	230	0.011 (H₂)	<0.001 (H₃)	<0.001 (H₃)
Animals and fungi, unicellular plants
CAM	1	2	6	180	6	2	59	0.278	<0.001 (H₃)	<0.001 (H₃)
CA	5	12	27	464	23	9	176	0.005 (H₂)	<0.001 (H₃)	<0.001 (H₃)
Animals, unicellular plants
CAM	7	4	7	216	7	11	69	0.181	<0.001 (H₃)	<0.001 (H₃)
CA	23	20	42	555	33	42	213	0.211	<0.001 (H₃)	<0.001 (H₃)
Fungi, unicellular plants
CAM	6	7	8	214	10	7	69	0.374	<0.001 (H₃)	<0.001 (H₃)
CA	17	25	46	571	39	54	224	0.659	<0.001 (H₃)	<0.001 (H₃)
Animals and fungi, all plants
CAM	1	2	4	164	3	1	50	0.371	<0.001 (H₃)	<0.001 (H₃)
CA	4	12	20	430	13	4	161	0.004 (H₂)	<0.001 (H₃)	<0.001 (H₃)
Animals, all plants
CAM	7	2	5	191	3	7	58	0.051	<0.001 (H₃)	<0.001 (H₃)
CA	18	14	30	508	19	28	190	0.124	<0.001 (H₃)	<0.001 (H₃)
Fungi, all plants
CAM	4	7	6	190	4	6	60	0.880	<0.001 (H₃)	<0.001 (H₃)
CA	11	24	34	509	21	43	197	0.704	<0.001 (H₃)	<0.001 (H₃)

NOTE.—The results are given for different combinations of plant and animal–fungal species. H₁, H₂, and H₃ denote the three possible phylogenetic hypotheses regarding the resolution of the given trifurcation. P₁₂, P₂₃, and P₁₃ denote the P values associated with the comparison of the respective hypotheses (see Materials and Methods for details). (H₁) and (H₂) denote the polarity of the comparison; for instance, (H₁) after a P₁₂ value indicates that, in the given comparison, H₁ is significantly more likely than H₂, conversely, (H₂) indicates that H₂ is significantly more likely than H₁.