SUPPLEMENTARY MATERIAL
Supplementary material, including data files and/or online-only appendices, can be found in
the Dryad data repository DOI: http://dx.doi.org/10.5061/dryad.v2t5n
DNA sequences: European Nucleotide Archive accessions: HG962377-HG962422.
Additional supporting information may be found in the online version of this article:
Figure S1 Phylogenetic supertrees constructed from Sciurini gene trees by veto method (A)
and SuperTriplets (B) and species trees based on the coalescent with quartet decomposition
(C) and a Bayesian analysis (D). Branch labels indicate (B) proportion of sampled trees with
this branching pattern, (C) bootstrap support, (D) and Bayesian posterior probability.
Figure S2 Plots of the relative warps (RW2, RW3 and RW4) for dorsal and ventral sides of
Sciurini skulls.
Figure S3 Trees yielded by cluster analyses (UPGMA) of Mahalanobis distances between
predicted DFA averages for species for dorsal (A) and ventral (B) sides of the skulls of the
Sciurini tree squirrels.
Figure S4 The consensus tree from all topologies sharing a terrace from Phyloterraces.
Figure S5 Chronogram of Sciurini diversification based on Bayesian coalescent analysis.
Four internal nodes were constrained (Table S4). Node bars represent 95% highest posterior
density intervals in million years.
Table S1 Samples of soft tissues from collections of the Natural History Museum in London
(NMHUK) and the Smithsonian National Museum of Natural History in Washington, D.C.
(USNM) used in the molecular analyses. Y = yes and N = no.
Accession numbers of sequences used in this study. European Nucleotide Archive accession
numbers HG962377-HG962422 were sequenced in this study.
Table S2 Characteristics of primers used for amplification and sequencing.
Table S3 Accession numbers of sequences used in this study. European Nucleotide Archive
accession numbers HG962377-HG962422 were sequenced in this study.
Table S4 Samples of squirrel skulls photographed in the Natural History Museum in London
(NMHUK) and the Smithsonian National Museum of Natural History in Washington, D.C.
(USNM) used in the morphometric analyses. Samples with incomplete skulls were removed.
Specimen highlighted in bold were included in the molecular analyses. F = female and M =
male.
Table S5 Localities of samples' origin and numbers of analysed skulls included in the
morphometric analyses.
Table S6 Composition of species in molecular and morphological analyses. Nineteen species
were examined in both approaches.
Table S7 Dietary preferences of Sciurini species coded as a matrix of categorical variables
with the following values: 0 – not mentioned in literature, 1 – represented in diet, 2 –
highlighted as preferred diet. Dietary preferences were estimated according to Thorington Jr.
et al. (2012). The table was binarized for the regression model.
Table S8 Rates of successful discrimination of Sciurini tree squirrels into groups based on
skull morphology estimated by discriminant function analysis.
Table S9 Misclassification rates of dietary preference estimated by the probit regression
model.