Supplemental data for: Pleistocene climatic oscillations impact the diversification of deer mice (Peromyscus maniculatus) and the independent evolution of ecotypes

This archive contains supplemental data described in the publication "Pleistocene climatic oscillations impact the diversification of deer mice (Peromyscus maniculatus) and the independent evolution of ecotypes". 

Specifically:

1) Extended Data Table 1.csv - List of individual samples used in this study. Species = Purported species as original identified by collector or institution. Institution/Source = Origin of specimen. SampleID = Sample name, as referenced in text and on NCBI SRA where applicable. popID = Population shorthand name (see Extended Data Table 2). accessionID = Museum accession number, if applicable. Sequenced = Indicates whether the individual was sequenced (Y) or not (N). 

2) Extended Data Table 2.csv - All population names, shorthand names, and coordinates used in this study, either for phenotyping and/or genotyping. Population = Population name. popID = Shorthand name used throughout the manuscript and analyses. Lat = latitude. Lon = longitude.

3) Extended Data Table 3.csv - Geographic coordinates used in ENMs for Peromyscus maniculatus throughout its known range in North America. Lat = latitude. Lon = longitude.

4) Extended Data Table 4.csv - Spatially thinned geographic coordinates used in ENMs for Peromyscus maniculatus throughout its known range in North America. Lat = latitude. Lon = longitude.

5) Extended Data Video 1.mp4 - Ecological niche models of P. maniculatus throughout its range in North America over the last 21 thousand years, at 500 year intervals.

6) Extended Data Files - Phylogenetic reconstructions at the individual level:

    6a) sample_ALL.tree (all samples)
    6b) sample_NOADMIX.tree (removed admixed individuals >.70 admixture scores)  

    6c) pop_ALL.tree (all samples)
    6d) pop_NOADMIX.tree (removed admixed individuals >.70 admixture scores)

6) Supplementary Data - Quantitative and qualitative ecotype classifications of each population. pop_ecotypes.txt