method: a new method for reconstructing phylogenetic trees.
In a phylogenetic analysis with the Neighbor-Joining
method, horse PPAR[delta] is clustered in the same clade with dog and chicken while having a large genetic distance from mouse and rat (Figure 1B).
To visualize more easily the diversity of the galectin proteins, a neighbor-joining
tree was built.
, maximum-likelihood, and maximum-parsimony methods again were used to assess phylogenetic relationships.
A preliminary neighbor-joining
tree (not shown) constructed using only the east Texas sequences and those of Schussler et al.
Trees were constructed from these distances with the NEIGHBOR and FITCH programs to create neighbor-joining
(Saitou and Nei 1987), and UPGMA (Sokal and Michener 1958) trees.
minimum evolution, maximum likelihood, neighbor joining); a representative neighbor-joining
tree generated and analyzed with 1,000 replicates for bootstrap testing is shown in the Figure.
html) with the neighbor-joining
(NJ) method (Saitou & Nei 1987) based on genetic distances computed with Kimura's two-parameter model (Kimura 1980).
The phylogenetic trees of hemagglutinin (HA) and neuraminidase (NA) genes were constructed by using the neighbor-joining
The relationships among the VP1 sequences of the 3 isolates were summarized in a tree constructed by using the neighbor-joining
method (14) and rooted to the Sabin 3 sequence (Figure).
tsutsugamushi was inferred by using the neighbor-joining
method (15), and is shown in Figure 3.
Distances (distance options according to the Kimura 2-parameter model) and clustering with the neighbor-joining
method were determined by using bootstrap values for 1,000 replications.