DOI: 10.5061/dryad.cc3n6j5
title: Data from: The interplay of past diversification and evolutionary isolation with present imperilment across the amphibian tree of life

description: Human activities continue to erode the tree of life, requiring us to
 prioritize research and conservation. Amphibians represent key victims and
 bellwethers of global change, and the need for action to conserve them is
 drastically outpacing knowledge. We provide a phylogeny incorporating
 nearly all extant amphibians (7,238 species). Current amphibian diversity
 is composed of both older, depauperate lineages and extensive, more recent
 tropical radiations found in select clades. Frog and salamander
 diversification increased strongly after the Cretaceous–Palaeogene
 boundary, preceded by a potential mass-extinction event in salamanders.
 Diversification rates of subterranean caecilians varied little over time.
 Biogeographically, the Afro- and Neotropics harbour a particularly high
 proportion of Gondwanan relicts, comprising species with high evolutionary
 distinctiveness (ED). These high-ED species represent a large portion of
 the branches in the present tree: around 28% of all phylogenetic diversity
 comes from species in the top 10% of ED. The association between ED and
 imperilment is weak, but many species with high ED are now imperilled or
 lack formal threat status, suggesting opportunities for integrating
 evolutionary position and phylogenetic heritage in addressing the current
 extinction crisis. By providing a phylogenetic estimate for extant
 amphibians and identifying their threats and ED, we offer a preliminary
 basis for a quantitatively informed global approach to conserving the
 amphibian tree of life.
description: amph_shl_new_BackboneSpecies chosen from the 4,061-species matrix for representation in the 175-species backbone tree.amph_shl_new_ClassificationClassification of 7,238 amphibian species, indication of data presence/absence, and dimensions of available sequence data.amph_shl_new_Consensus_7238Consensus of 10,000 fully-sampled trees from the posterior, containing both data species (4,061) and imputed taxa (3,177).amph_shl_new_GenBankGenBank accession numbers for the 4,061 species in the 15-gene matrix.amph_shl_new.ED.1000ED values for 7,238 species calculated from 1,000 randomly sampled trees from the posterior.amph_shl_newBest-fit evolutionary models for the 15-gene, 4,061-species alignment.amph_shl_new.phyThe 15-gene, 4,061-species alignment, zipped.amph_shl_newThe NNI-optimized ML phylogeny containing 4,061 species, from 15-gene alignment, with SHL support values.Supplemental_Figures_S1-12Supplementary Figures S1-12Global_Ecoregion_AssignmentsAssignment of 7238 amphibian species to 12 global ecoregions. Some species are listed two or three times, as they occur in multiple ecoregions, for a total of 7474 entries.Amphibian_ED_Threat_EDGE_IsaacPrimary results from the phylogenetic analyses, including the ED score of all 7,238 species, the upper and lower 2.5% range of ED scores per species, the threat status of each species, its EDGE score, and the ED and EDGE scores reported for 4,307 species by Isaac et al.amph_shl_new_Posterior_7238.1000.treesFirst 1000 taxonomically complete, dated trees, containing 7,238 amphibian species.amph_shl_new_Posterior_7238.2000.treesSecond 1000 taxonomically complete, dated trees, containing 7,238 amphibian species.amph_shl_new_Posterior_7238.3000.treesThird 1000 taxonomically complete, dated trees, containing 7,238 amphibian species.amph_shl_new_Posterior_7238.4000.treesFourth 1000 taxonomically complete, dated trees, containing 7,238 amphibian species.amph_shl_new_Posterior_7238.5000.treesFifth 1000 taxonomically complete, dated trees, containing 7,238 amphibian species.amph_shl_new_Posterior_7238.6000.treesSixth 1000 taxonomically complete, dated trees, containing 7,238 amphibian species.amph_shl_new_Posterior_7238.7000.treesSeventh 1000 taxonomically complete, dated trees, containing 7,238 amphibian species.amph_shl_new_Posterior_7238.8000.treesEighth 1000 taxonomically complete, dated trees, containing 7,238 amphibian species.amph_shl_new_Posterior_7238.9000.treesNinth 1000 taxonomically complete, dated trees, containing 7,238 amphibian species.amph_shl_new_Posterior_7238.10000.treesTenth 1000 taxonomically complete, dated trees, containing 7,238 amphibian species.