Computational protocol: A biomechanical approach to understand the ecomorphological relationship between primate mandibles and diet

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Protocol publication

[…] Phylogenetic signal can be defined as the tendency for related species to resemble each other, more than they resemble species drawn at random from a phylogenetic tree. A recursive analysis using 1000 phylogenies obtained from 10ktrees ( was performed (Fig. ). These phylogenies were sampled from a Bayesian phylogenetic analysis of molecular data for eleven mitochondrial and six autosomal genes available in GenBank. In this study, phylogenetic signal was calculated using Pagel’s λ in the R package ‘geiger’; for λ = 1 the tree is unchanged and the model is equivalent to Brownian motion, while for λ = 0 the tree becomes a star phylogeny and the model is equivalent to completely independent random walks, while values between 0 < λ < 1 provide an intermediate range where the correlations are weaker than expected.Figure 2 In addition, the stress values of the models for the four biting cases were used to estimate the ancestral states for internal nodes using maximum likelihood and then by interpolating the states along the branches of the tree in the R package ‘phytools’. This approach was applied to get insight about the possible evolution of mandibular stiffness in the order Primates. […]

Pipeline specifications

Software tools GEIGER, Phytools
Application Phylogenetics
Organisms Canis lupus familiaris
Diseases Anodontia, Hantavirus Pulmonary Syndrome