Volkov et al. [ 26] compared the ETS region of rDNA for 30 species of Solanum section Petota and found high bootstrap values for the branch uniting all the South American species in three different types of dendrogram (Maximum parsimony, Bayesian statistics and Neigbour Joining).
Maximum parsimony method has been used to generate the dendrogram.
Unweighted maximum parsimony analysis yielded five equally parsimonious trees.
Three different procedures to generate those dendrograms were used, namely Neighbor joining (NJ), Maximum parsimony (MP) and Maximum likelihood (ML).
Alignments and dendrograms were generated with the software using the Maximum Parsimony algorithm.
Dendrograms were constructed using the neighbor-joining (NJ) and maximum parsimony (MP) methods using PAUP*4.0 beta 10 software [52].
Distance matrices were determined by using p-distance analysis and were used to infer dendrograms by the unweighted pair group method with arithmetic mean (UPGMA), maximum parsimony, and neighbor-joining, available in the MEGA 2.1 software package (14 ).
For phylogenetic analyses, dendrograms were obtained using three different methods of tree reconstruction (neighbor-joining [NJ], maximum parsimony [MP] and maximum likelihood [ML]).
Once aligned, maximum parsimony analysis can be performed.
Fig. 5 Maximum parsimony tree of arsB Permease sequences.
