Table 3.

Dissimilarity of supertrees constructed from the same rooting of bacterial protein trees

	SPR-Aquificae	SPR-Aquificae-Rooting	SPR–MRP	SPR–MRP-Rooting
SPR-Aquificae	0	10	34	33
SPR-Aquificae-Rooting	10	0	27	25
SPR–MRP	34	27	0	2
SPR–MRP-Rooting	33	25	2	0

Notes: We compared the minimal SPR distance between any rooting of the SPR supertree constructed from the 40 largest trees with a monophyletic Aquificae group (40-Aquificae), the SPR supertrees constructed using the MRP supertree (SPR–MRP) or SPR-Aquificae supertree (SPR-Aquificae), and the SPR supertrees constructed by only rooting the gene trees using the MRP supertree (SPR–MRP-Rooting) or SPR-Aquificae tree (SPR-Aquificae-Rooting) and building a greedy addition supertree.