Data from: Biogeographic analysis reveals ancient continental vicariance and recent oceanic dispersal in amphibians ...

• Main Author: Pyron, R. Alexander
• Format: Dataset
• Language: English
• Published: Dryad 2014
• Subjects: Carboniferous to present; Antarc*; Antarctica
• Online Access: https://dx.doi.org/10.5061/dryad.jm453; https://datadryad.org/stash/dataset/doi:10.5061/dryad.jm453

Amphibians comprise over 7000 extant species distributed in almost every ecosystem on every continent except Antarctica. Most species also show high specificity for particular habitats, biomes, or climatic niches, seemingly rendering long-distance dispersal unlikely. Indeed, many lineages still seem to show the signature of their Pangaean origin, ~300Ma later. To date, no study has attempted a large-scale historical-biogeographic analysis of the group to understand the distribution of extant lineages. Here, I use an updated chronogram containing 3309 species (~45% of extant diversity) to reconstruct their movement between 12 global ecoregions. I find that a Pangaean origin and subsequent Laurasian and Gondwanan fragmentation explains a large proportion of patterns in the distribution of extant species. However, dispersal during the Cenozoic, likely across land bridges or short distances across oceans, has also exerted a strong influence. Finally, there are at least three strongly supported instances of ... : Amphibia_2_9Matrix of 3309 amphibian species sampled for up to 12 genes (12809bp total) and one outgroup.Amphibia_ModelsModel file for the Amphibia_2_9 matrix, describing the 12 genes and their partitions.amph_shlNNI-optimized ML tree resulting from Amphibia_2_9 matrix, with SHL support values.amph_shl_datesDated version of the NNI-optimized ML tree with SHL support values, used for biogeographic reconstructions.amph_clade_areasData illustrated in Figure 1: clade names, clade ages, number of areas occupied, and number of species in clade.amph_ecoregionsTaxonomic database listing 6576 species, their family, and regions of occurrence.amph_shl_dates_trim.treMESQUITE-format NEXUS file containing the tree pruned to the 3126 species inhabiting one ecoregion, with Mk1 estimates of ancestral states (Appendix S5).caecilian_ecoregionsEcoregion data for BioGeoBEARS analysis of caecilian subtree.caecilian_ecoregionsR Code for BioGeoBEARS run on caecilian subtree (Figure 1).amph_shl_dates_caeciliansCaecilian subtree for ...