Traversing the Great Lakes: Post-glacial colonization by a widespread terrestrial salamander

Aims: Glacial retreat at the end of the Pleistocene epoch opened vast expanses of emergent habitat in the northern hemisphere that were colonized by opportunistic taxa. However, species that undergo post-glacial expansion may have originated from one or several glacial refugia. We inferred the post-glacial expansion history of the Eastern Red-backed Salamander (Plethodon cinereus), a fully terrestrial species with a vast distribution despite severe dispersal limitations. Previous studies indicated populations south of the glacial boundary at the eastern and western limits of the distribution were closely related, suggesting either multiple refugia or an extraordinary post-glacial expansion event.
Location: Eastern North America.
Taxon: Plethodon cinereus (Green, 1818), Caudata: Plethodontidae.
Methods: We collected ddRAD-seq data from 106 individuals throughout the distribution of P. cinereus. We estimated phylogeographic structure, including finer-scale structure among the post-glacial..., Phylogeographic data represent ddRAD-seq for 106 samples of Plethodon cinereus.
See Materials and Methods of Waldron et al. (2024) for details., , # Traversing the Great Lakes: Post-glacial colonization by a widespread terrestrial salamander

## Supplementary materials for Waldron et al. (2024) - Journal of Biogeography

##### Supplementary Figures

\"Figure S1.png\" - sNMF and tess3 evaluation of K values
\"Figure S2.png\" - sNMF and tess3 results across K=1-10 for N=106
\"Figure S3.png\" - PCA axis 1+3
\"Figure S4.png\" - sNMF and tess3 results across K=1-10 for N=80
\"Figure S5.pdf\" - TreeMix evaluation of m values
\"Figure S6.pdf\" - TreeMix results across m=1-5
\"Supplementary Figure Legends.docx\" - full legends

##### Supplementary Tables

\"Table.S1.xlsx\" - Sample information
\"Table.S2.xlsx\" - PCR conditions for ddRAD

## SNP data

\"./SNP-data/all_OG_108_90_mac3.stru\" - SNP data N=106+outgroup
\"./SNP-data/all_noOG_106_90_mac3.stru\" - SNP data N=106
\"./SNP-data/UN_80_90_mac3.stru\" - SNP data N=80
\"./SNP-data/SNP-data-info.txt\" - additional information about SNP files

##### 'rangeExpansion' simulation of get.all.psi() function

\"./range...