Data for: Genotyping-by-sequencing and ecological niche modeling illuminate phylogeography, admixture, and Pleistocene range dynamics in quaking aspen (Populus tremuloides)

In support of the manuscript by Bagley et al. (2020; see below) on quaking aspen phylogeography and ecological niche modeling (ENM), this accession provides 1) the in-house laboratory protocol used to extract DNA from aspen leaf tissues (modified from Strauss Lab); 2) the Supporting Information files for the corresponding manuscript (Bagley et al. 2020); 3) code used to conduct independent runs of the TASSEL-GBSv2 SNP discovery pipeline (Glaubitz et al. 2014) on our final (combined) genotyping-by-sequencing (GBS) dataset; 4) resulting SNP variant files from TASSEL-GBSv2 and final filtered variant call format (VCF) and genotype data files used during our genomic analyses; 5) R script and metadata used during basic population genomics analyses of the final filtered SNP data (final VCF file); and 6) unfiltered vs filtered species occurrence data files and computer code (R scripts) used during our ENM analyses of our focal taxon, Populus tremuloides.

REFERENCES
Bagley, J. C., Heming, N. M., Gutiérrez, E. E., Devisetty, U. K., Mock, K. E., Eckert, A. J., & Strauss, S. H. (2020). Genotyping-by-sequencing and ecological niche modeling illuminate phylogeography, admixture, and Pleistocene range dynamics in quaking aspen (Populus tremuloides). Ecology and Evolution.

Glaubitz, J. C., Casstevens, T. M., Lu, F., Harriman, J., Elshire, R. J., Sun, Q., & Buckler, E. S. (2014). TASSEL-GBS: a high capacity genotyping by sequencing analysis pipeline. PLoS One, 9(2): e90346