plosone-phylo
pone.0079122.g003
Evolutionary cladogram for mammals and marsupials.Analysis based on the most conserved 1,005 positions of 3,155 in the total ITS2 alignment (helices I and II plus conserved bases of branches: positions 810-940, 1121-1209, 2411-2469 plus conserved helix III positions 1641-1929), using the MacVector software; the tree represents the result of 1000 replications of the neighbor joining distance program using the model of Tamura-Nei; numerical values are bootstrap values. E, X, A and L indicate the four superorders of Mammalia. Maroon X = absence of helix #3 in ITS1. Blue X and XX respectively, = short or very short helix #4 on ITS1. Blue O without or with numeral 1 or 2 = presence of 5' arm on helix #4 of ITS1, showing no conserved affinity, affinity 1 or affinity 2. Brown 1 or 2 = number of subhelices in helix #6 of ITS1, where 3 are present in the remaining Mammalia. Gold X or O = absence, or great reduction, of "Insert" helix in ITS2. Green X = absence of first 5' branch helix on Helix III in ITS2. Black X = absence of second 5' branch helix on helix III of ITS2.
pone.0079122.g003
Evolutionary cladogram for mammals and marsupials.Analysis based on the most conserved 1,005 positions of 3,155 in the total ITS2 alignment (helices I and II plus conserved bases of branches: positions 810-940, 1121-1209, 2411-2469 plus conserved helix III positions 1641-1929), using the MacVector software; the tree represents the result of 1000 replications of the neighbor joining distance program using the model of Tamura-Nei; numerical values are bootstrap values. E, X, A and L indicate the four superorders of Mammalia. Maroon X = absence of helix #3 in ITS1. Blue X and XX respectively, = short or very short helix #4 on ITS1. Blue O without or with numeral 1 or 2 = presence of 5' arm on helix #4 of ITS1, showing no conserved affinity, affinity 1 or affinity 2. Brown 1 or 2 = number of subhelices in helix #6 of ITS1, where 3 are present in the remaining Mammalia. Gold X or O = absence, or great reduction, of "Insert" helix in ITS2. Green X = absence of first 5' branch helix on Helix III in ITS2. Black X = absence of second 5' branch helix on helix III of ITS2.