When a maximum likelihood tree or Bayesian tree topology did not support the monophyly of some morphological species, we conducted a statistical test of monophyly of the species as described below. First, we estimated the maximum likelihood tree under monophyletic constraints of the species by RAxML. Second,
we conducted the approximate unbiased (AU) tests (Shimodaira, 2002) in CONSEL (Shimodaira and Hasegawa, 2001) for the two trees that were constructed under constraints or no constraints (i.e., maximum likelihood tree) and confirmed whether the monophyly of the species was statistically rejected or not.
When a maximum likelihood tree or Bayesian tree topology did not support the monophyly of some morphological species, we conducted a statistical test of monophyly of the species as described below. First, we estimated the maximum likelihood tree under monophyletic constraints of the species by RAxML. Second,we conducted the approximate unbiased (AU) tests (Shimodaira, 2002) in CONSEL (Shimodaira and Hasegawa, 2001) for the two trees that were constructed under constraints or no constraints (i.e., maximum likelihood tree) and confirmed whether the monophyly of the species was statistically rejected or not.
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