Past population control biases interpretations of contemporary genetic data: implications for future invasive Sitka black-tailed deer management in Haida Gwaii

Invasive species management practices often include genetic analyses to better inform decision-making and resource allocation. Yet, past management actions may artificially bias recovered patterns of genetic variation; for example, a population bottleneck caused by contemporary culling may mirror some patterns associated with historical isolation. Here, we aimed to disentangle the impacts of past management activities from natural processes for Sitka black-tailed deer (Odocoileus hemionus sitkensis), an invasive species that has been repeatedly culled on two islands, SGang Gwaay and Reef, within the Haida Gwaii archipelago (Canada). We applied a recently developed Genotyping-in-Thousands by sequencing panel to contemporary (e.g., blood, serum, tissue, muscle, feces) and archived deer samples, the latter collected prior to management activity within the system (c. 1997–1998), which allowed us to contextualize conflicting patterns of isolation and connectivity previously observed on SGang..., Samples were genotyped using a Genotyping-in-Thousands by sequencing (GTseq; Campbell et al. 2015) panel developed in Burgess et al. (2022; https://doi.org/10.1002/ece3.8993) following the modified protocol therein. Raw data were processed using the GTseq workflow (https://github.com/GTseq)., 236loci_292deer.ped: ped file of genotypic data at 236 SNPs collected via GTseq for 292 deer samples.
metadata.csv: text file containing individual metadata for all samples used including sample identifiers, location, year, sex and sample type.