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Besides PhyloBayes, two alternative molecular dating programs were used to replicate the analyses under distinct implementations of the Bayesian exploration of clock-relaxed models.
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The divergence times of the Chinese Glyptosternoids were determined using the protein-coding genes with the Bayesian molecular dating program Beast [ 57], according to the manual for the program.
Molecular dating was performed using the program MCMCTree v4.8 [ 52].
Molecular dating by MULTIDISTRIBUTE was achieved through three programs, PAML [52], ESTBRANCHES [53], and MULTIDIVTIME [51], [53].
Molecular dating was conducted by a Bayesian MCMC approach in the program BEAST (version 1.5.1) [ 58] and MultiDivTime [ 59].
The bioinformatics program used here, TreeTime, is publicly available, and we recommend its use for molecular dating of taxa faced with similar challenges.
The rhombus and star signs denote calibration points for molecular dating.
This makes very difficult to date the formation and the diversification of the CD complex by molecular dating methods.
ESWW carried out molecular dating.
Molecular dating was done in two ways.
Detailed results from the molecular dating analyses performed under auto-correlated models of molecular clock relaxation are presented in Table 3. Divergence date estimates varied depending on the methods and datasets used, but were nevertheless consistent between the two programs we used (MCMCTree and PhyloBayes).
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