Determining the molecular signatures of adaptive differentiation is a fundamental component of evolutionary biology. A key challenge is to identify such signatures in wild organisms, particularly between populations of highly mobile species that undergo substantial gene flow. The Canada lynx (Lynx canadensis) is one species where mainland populations appear largely undifferentiated at traditional genetic markers, despite inhabiting diverse environments and displaying phenotypic variation. Here, we used high‐throughput sequencing to investigate both neutral genetic structure and epigenetic differentiation across the distributional range of Canada lynx. Newfoundland lynx were identified as the most differentiated population at neutral genetic markers, with demographic modelling suggesting that divergence from the mainland occurred at the end of the last glaciation (20–33 KYA). In contrast, epigenetic structure revealed hidden levels of differentiation across the range coincident with environmental determinants including winter conditions, particularly in the peripheral Newfoundland and Alaskan populations. Several biological pathways related to morphology were differentially methylated between populations, suggesting that epigenetic modifications might explain morphological differences seen between geographically peripheral populations. Our results indicate that epigenetic modifications, specifically DNA methylation, are powerful markers to investigate population differentiation in wild and non‐model systems.

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As natural habitat is progressively transformed, effective wildlife conservation relies on understanding the phenotypic traits that allow select species to persist outside of protected areas. Through behavioural flexibility such species may trade off abundant resources with risks, both real and perceived. As highly adaptable mesocarnivores, caracals (Caracal caracal) provide an opportunity to examine development of successful foraging strategies in high‐risk developed areas. Here we investigated caracal resource selection of both anthropogenic and environmental factors relative to availability at varying levels of urbanization in and around the city of Cape Town, South Africa, using GPS cluster‐located feeding events (n = 326 prey remains, n = 384 scat). We also examined spatial and temporal risk mitigation strategies by assessing behaviours at feeding clusters. We find that, within home ranges, caracals living in the urban‐dominated region (n = 14; 548 feeding events) select for the urban edge, while caracals in the wildland‐dominated region (n = 3; 162 feeding events) avoid it. Adults selected more strongly for foraging at the urban edge than juveniles and may competitively exclude them from resources. By including back‐traced scat feeding event locations, we were able to improve model resolution. We argue that caracals foraging on the edge of a large metropole mitigate risk of detection by remaining cryptic, prolonging handling time, and maintaining high feeding site fidelity where cover was available. Along with the strong functional response to the urban edge, this strategy suggests that carnivores are being drawn into, and stay longer in, areas with potentially increased prey availability despite higher risk. While behavioural plasticity clearly enables carnivore coexistence with humans in urban ecosystems, it can also be maladaptive if it reduces fitness and leads the population into an ecological trap. We provide mitigative recommendations to promote the conservation of this predator in a spatially isolated and rapidly urbanizing landscape.

Acquisition of field data and analytical methods needed for conservation and management of wildlife populations represent significant challenges, particularly for species that inhabit landscapes that are difficult to access or species that persist in small, isolated populations. In such instances, integrating diverse and complementary data streams, such as genetic and non‐genetic data, can advance our understanding of population dynamics and associated management implications. We examined how genetic and morphologic data can be used to articulate population structure of a low‐density, peninsular population of mountain goats (Oreamnos americanus) on the Cleveland Peninsula, Alaska, USA, and surrounding areas, 2005–2018. We then use a population demographic modeling approach to examine how the use of population structure information influences sustainable harvest quotas, as compared to a panmictic, null model. Specifically, we conducted extensive field sampling of genetic (n = 446) and morphologic (i.e., horn length, n = 371) data to characterize population structure. We conducted demographic analyses and examined harvest modeling scenarios using a sex‐ and age‐specific matrix population modeling approach. Genetic and morphologic data analyses suggested peninsular subpopulations were demographically isolated, relative to surrounding mainland populations. Specifically, genetic structuring was evident and followed an isolation‐by‐distance, stepping‐stone pattern indicating limited interchange, low effective population sizes, and reduced genetic diversity along a peninsular extremity to mainland gradient. Harvest modeling indicated that overharvest would likely occur if the panmictic, null model was used to guide harvest because the smallest genetically defined population at the peninsular extremity was too small to permit any level of sustainable harvest. Our analyses illustrate the importance of using genetic and morphologic data, in combination with demographic modeling, to quantitatively delineate population boundaries and dynamics for ensuring viability of small, isolated populations. © 2020 The Wildlife Society.

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