Data from: New fossil koala (Marsupialia: Phascolarctidae) from the Pleistocene of Western Australia
Data files
Apr 27, 2026 version files 26.04 MB
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MrBayes_Phylogenetics_files.zip
26.03 MB
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README.md
2.42 KB
Abstract
Fossils of koalas have been known from Western Australia since 1910, but are today regionally extinct. Jaws and bones were previously reported from several cave deposits in the south-west of WA, Koala Cave in Yanchep, and from Madura Cave on the Roe Plain. Due to the similarity of the dentition with the east coast koalas (Phascolarctos cinereus), they were traditionally assumed to be the same species. Two complete additional adult skulls were collected in the past 25 years. These skulls are interpreted to belong to a male and female koala, are similar in body size to koalas from Victoria, but the shape of the skulls differ significantly, in being relatively much shorter in length, and having obvious deep concavities on the maxilla, below the zygomatic arch. Differences from the eastern species are also apparent in the postcranial skeleton. Analysis of measurements on the skulls and teeth show that the Western Australian koala is morphologically distinct from its east coast relative and warrants consideration as its own species. It likely went extinct in WA as a result of climate change during the late Pleistocene, which reduced eucalyptus forests to around 5% of their current cover, reducing resources for food and shelter.
Dataset DOI: 10.5061/dryad.9zw3r22vg
Description of the data and file structure
Data has been collected and collated for the description of the anatomy of the new fossil taxon Phascolarctos sulcomaxilliaris, alongside efforts to date the age of the fossils, and place the new taxon into a phylogeny.
Files and variables
File: MrBayes_Phylogenetics_files.zip
Description: The MrBayes Phylogenetics .zip file contains:
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The annotated executable run file (.nex), partitions (.part), and resulting log (.log).
The .nex file contains the morphological character matrix used in the analyses, as well as the chosen models and variables detailed in the methods. The .log file lists all steps in the analysis process and where the results have been output to (as per files also listed below).
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The chain results per every 1000 generations for each of the 1-4 runs (.p), and checkpoints (.ckp and .ckp~) used to examine and save analysis progress.
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Convergence diagnostics generated during the simultaneous runs are output into the .mcmc file.
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The resulting nexus-formatted trees and branch lengths from each of 1-4 runs (.t)
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Resulting consensus tree (.con.tre) and statistics files (.lstat, .pstat, .tstat, .vstat, .trprobs) used to assemble and analyze the koala phylogeny in the primary publication.
The .pstat and .vstat contain summaries of partition and branch length statistics. The .trprobs file contains trees found during the MCMC run, sorted by posterior probability, so that different sets of trees can be analyzed separately (i.e., the top 5%).
Code/software
MrBayes may be freely downloaded as a pre-compiled executable or in source form from here https://nbisweden.github.io/MrBayes/download.html
All four runs resulting from the MrBayes analyses can be examined in Tracer v1.7.2 (Rambaut et al. 2018). You can download Tracer v1.7.2 from here: https://github.com/beast-dev/tracer/releases/latest
The resulting majority rules consensus tree was viewed in FigTree (v1.4.3; Rambaut 2009). You can download FigTree from here: http://tree.bio.ed.ac.uk/software/figtree/
