Wildlife management strategies are often designed around a population's demographic goals, but such strategies also can inadvertently impact genetic variation. For species like bison Bison bison, where management includes the regular removal of individuals to maintain restricted population sizes on constrained landscapes, management actions can be tailored to address genetic diversity retention in addition to simply maintaining a target population size. In this study, we provide an assessment of alternative culling strategies for maintenance of genetic variation in managed wildlife populations. Our primary goal was to compare the long-term retention of genetic variation and accumulation of inbreeding among three types of culling strategies, including one that considered genetic variation directly by measuring variation at a suite of variable loci [mean allele frequency (MAF) strategy], one that used genome-wide measures of variation [mean kinship (MK) strategy] and one that relied solely on demographic information (sex and age; RANDOM). To achieve this goal, we built an individual-based model, parameterized in accordance with bison biology, to project levels of genetic variation and inbreeding over time under each of the three management strategies. Our results suggest wildlife management strategies that incorporate goals for retaining genetic variation (MAF and MK strategies) are better suited to preserving the evolutionary potential of wildlife populations than those that focus solely on a target size and demographic stability (RANDOM). In particular, the MK culling strategy performed the best at maximizing the retention of genome-wide variation. These results extend previous work demonstrating the utility of pedigree-based mate selection strategies in captive population management, and show that such strategies maximize the retention of genome-wide variation under culling practices as well. These models will aid in the long-term management of bison, and can be adapted to other managed wildlife species.

Overhunting and widespread land use change nearly caused the extinction of North American bison (Bison bison) by the late 1800s. Recovery efforts focused on preserving the remaining individuals and establishing federally managed conservation herds to build more sustainable populations. Today, bison in conservation herds are maintained in small, isolated herds that are managed through an annual or biannual cull of individuals to maintain target population sizes. We assessed alternative culling strategies for maintaining genetic variation over the long term in managed wild bison herds. Our objective was to compare a strategy modeled after a United States Fish and Wildlife Service strategy (all-allele conservation culling strategy [AAC]) to a pedigree-based mean kinship strategy (MK) and to a Random strategy that does not incorporate genetic data and is used to manage some conservation herds. We built an individual-based model, parameterized in accordance with bison biology, to compare these culling strategies in 2 federally managed conservation herds at the Fort Niobrara National Wildlife Refuge (FTN herd) and the National Bison Range (NBR herd). Our MK strategy retained more genetic variation and slowed the accumulation of inbreeding relative to the AAC or Random strategies, and these findings were consistent across wild bison herds with different founding sizes and current genetic diversity. These findings extend previous work demonstrating the utility of pedigree-based management strategies in captive and wild population management, and show that such strategies maximize the retention of genome-wide variation in contemporary bison herds. The modeling approach used in this study was useful for assessing outcomes prior to implementation, and the specific models developed for this study can be easily adapted to other managed wildlife species. Ó 2018 The Wildlife Society.

Background Standing genetic variation is important especially in immune response-related genes because of threats to wild populations like the emergence of novel pathogens. Genetic variation at the major histocompatibility complex (MHC), which is crucial in activating the adaptive immune response, is influenced by both natural selection and historical population demography, and their relative roles can be difficult to disentangle. To provide insight into the influences of natural selection and demography on MHC evolution in large populations, we analyzed geographic patterns of variation at the MHC class II DRB exon 2 locus in mule deer (Odocoileus hemionus) using sequence data collected across their entire broad range. Results We identified 31 new MHC-DRB alleles which were phylogenetically similar to other cervid MHC alleles, and one allele that was shared with white-tailed deer (Odocoileus virginianus). We found evidence for selection on the MHC including high dN/dS ratios, positive neutrality tests, deviations from Hardy–Weinberg Equilibrium (HWE) and a stronger pattern of isolation-by-distance (IBD) than expected under neutrality. Historical demography also shaped variation at the MHC, as indicated by similar spatial patterns of variation between MHC and microsatellite loci and a lack of association between genetic variation at either locus type and environmental variables. Conclusions Our results show that both natural selection and historical demography are important drivers in the evolution of the MHC in mule deer and work together to shape functional variation and the evolution of the adaptive immune response in large, well-connected populations.