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Explosive Cenozoic origin and diversity-dependent diversification dynamics shaped the evolution of Australian skipper butterflies

Cite this dataset

Toussaint, Emmanuel et al. (2023). Explosive Cenozoic origin and diversity-dependent diversification dynamics shaped the evolution of Australian skipper butterflies [Dataset]. Dryad. https://doi.org/10.5061/dryad.5tb2rbp75

Abstract

Australia was predominantly tropical for most of the early Cenozoic, then transitioned to a cooler and drier climate in the Oligocene. In response to this increasing aridity, some lineages adapted to more xeric ecosystems, contracted, or became restricted to increasingly fragmented mesic refugia, or went extinct. Yet, the lack of macroevolutionary studies at a continental scale precludes a better understanding of Australian biodiversity patterns and processes during the Cenozoic. Here, we infer a robust dated phylogenomic tree for a radiation of Australian endemic butterflies, the Trapezitinae skippers, to test the impact of biotic and abiotic drivers on Cenozoic diversification dynamics in Australia. These butterflies originated during the Eocene (ca. 42 Ma) in the mesic biome of Australia. Trapezitinae exploded in diversity during a cool, dry period in the late Oligocene and early Miocene, then experienced a sharp deceleration in speciation. Xeric ecosystems appear to have been colonized more recently, supporting the hypothesis of arid and semi-arid biomes as evolutionary sinks. Temperature-dependent and phytophagy-dependent diversification models received little support. Instead, we find evidence for diversity-dependent processes with a declining diversification in Trapezitinae likely linked to limited ecological opportunities following a rapid initial burst of diversification.

Usage notes

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README File for Dryad repository on "Explosive Cenozoic origin and diversity-dependent diversification dynamics shaped the evolution of Australian skipper butterflies"

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Number of files: 10
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Description:

Paper appendices / supplementary information

File S1 - IQ-TREE Best Scoring ML tree.tre
File S2 - wASTRAL MSC tree.tre
File S3 - BEAST MCC 14ULRC BDeath.tre

Table S1 - Taxon Sampling.xlsx
Table S2 - Genomic Matrix Composition.xlsx
Table S3 - Biogeography Data.xlsx
Table S4 - BEAST Results.xlsx
Table S5 - TreePar Results.xlsx
Table S6 - RPANDA Results.xlsx
Table S7 - HiSSE Results.xlsx

See the paper for more descriptions of these files

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ADDITIONAL DATA FILES

Trapezitinae Final Concatenated Matrix for IQ-TREE

This is the final concatenated matrix used for the IQ-TREE analyses including all AHE loci.
You can split it into loci using the partitions indicated in Table S2
You can also reproduce the analyses using the partitioning file from ModelFinder (see below)

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Trapezitinae Final Partitioning Scheme for IQ-TREE.nex

This is the partitioning file from ModelFinder used to conduct the IQ-TREE analyses

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Trapezitinae Final Sortadate Dataset for BEAST

This is the final concatenated matrix used for the BEAST analyses including loci selected using SortaDate.
The file includes models and partitions at the bottom when opened in a text editor

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IMPORTANT

If you need access to raw data or other data format please send a request to emmanuel.toussaint@ville-ge.ch OR kawahara@flmnh.ufl.edu

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Funding

National Science Foundation, Award: DEB-1541500

National Science Foundation, Award: DEB-1541557