Landscape Gradient Research Articles

Inventory of butterfly fauna (Lepidoptera: Rhopalocera) of Tripura, India, in the Indo-Myanmar biogeographical zone, with records of threatened taxa

The Tripura province of northeast India, situated in the western fringe of the Indo-Myanmar biodiversity hotspot was extensively explored for butterfly fauna. We surveyed 28 wild and managed locations in the hot and humid environment of Tripura province (2009–2012) across different landscape gradients to observe and record butterfly diversity. We report here 212 butterfly species, 65 of which are considered threatened including 41 species protected by Indian Wildlife Protection Act 1972. Thirty-eight species are categorized as threatened by IUCN including one species also by CITES. We recorded the abundance of each butterfly species to highlight the population status of individual butterfly species in order to reveal the status of their conservation in Tripura, in India, and also at global scale. Geographic distribution of 142 species is extended to Tripura. Results of this study form a baseline data on the diversity and conservation of butterflies in this biodiversity hotspot.

Fire modulates climate change response of simulated aspen distribution across topoclimatic gradients in a semi-arid montane landscape

Changing aspen distribution in response to climate change and fire is a major focus of biodiversity conservation, yet little is known about the potential response of aspen to these two driving forces along topoclimatic gradients. This study is set to evaluate how aspen distribution might shift in response to different climate-fire scenarios in a semi-arid montane landscape, and quantify the influence of fire regime along topoclimatic gradients. We used a novel integration of a forest landscape succession and disturbance model (LANDIS-II) with a fine-scale climatic water deficit approach to simulate dynamics of aspen and associated conifer and shrub species over the next 150 years under various climate-fire scenarios. Simulations suggest that many aspen stands could persist without fire for centuries under current climate conditions. However, a simulated 2–5 °C increase in temperature caused a substantial reduction of aspen coverage at lower elevations and a modest increase at upper elevations, leading to an overall reduction of aspen range at the landscape level. Increasing fire activity may favor aspen increase at its upper elevation limits adjacent to coniferous forest, but may also favor reduction of aspen at lower elevation limits adjacent to xeric shrubland. Our study highlights the importance of incorporating fine-scale terrain effects on climatic water deficit and ecohydrology when modeling species distribution response to climate change. This modeling study suggests that climate mitigation and adaptation strategies that use fire would benefit from consideration of spatial context at landscape scales.

Bird metacommunity processes remain constant after 25 years of landscape changes

Metacommunity theory provides a framework to understand how ecological communities vary in space and time. However, few studies have investigated metacommunity processes in a context of long term changes. Environmental changes can impact species distribution and therefore the structure of metacommunities. Using two complementary methods, this study evaluated the temporal variability of bird metacommunity processes in an agricultural landscape after 25 years of changes in land-cover. Bird and landscape data were recorded in the same locations using a series of 256 point counts in 1982 and 2007. First, variance partitioning was applied to quantify the roles of environmental filtering (i.e. landscape composition variables) and spatial variables to organize bird metacommunities each year. Second, changes in the structure of the bird metacommunity were examined by quantifying three of its components: coherence, species turnover and species range boundary clumping. Our results demonstrate that landscape variables explained slightly more bird metacommunity patterns than spatial variation of unknown origin each year. The bird metacommunity had a Clementsian structure (i.e. grouped distribution of species along environmental gradients) which was correlated with a landscape gradient ranging from open farmland to wooded sites. This structure was similar each year. To conclude, the study shows that environmental filtering with specializations to different habitats is a major process in determining bird metacommunities in landscapes. Moreover, our results suggest that metacommunity structure can remain constant over time despite demographic and environmental changes.

Landscape and flux theory of non-equilibrium dynamical systems with application to biology

We present a review of the recently developed landscape and flux theory for non-equilibrium dynamical systems. We point out that the global natures of the associated dynamics for non-equilibrium system are determined by two key factors: the underlying landscape and, importantly, a curl probability flux. The landscape (U) reflects the probability of states (P) (U = -ln P) and provides a global characterization and a stability measure of the system. The curl flux term measures how much detailed balance is broken and is one of the two main driving forces for the non-equilibrium dynamics in addition to the landscape gradient. Equilibrium dynamics resembles electron motion in an electric field, while non-equilibrium dynamics resembles electron motion in both electric and magnetic fields. The landscape and flux theory has many interesting consequences including (1) the fact that irreversible kinetic paths do not necessarily pass through the landscape saddles; (2) non-equilibrium transition state theory at the new saddle on the optimal paths for small but finite fluctuations; (3) a generalized fluctuation-dissipation relationship for non-equilibrium dynamical systems where the response function is not just equal to the fluctuations at the steady state alone as in the equilibrium case but there is an additional contribution from the curl flux in maintaining the steady state; (4) non-equilibrium thermodynamics where the free energy change is not just equal to the entropy production alone, as in the equilibrium case, but also there is an additional housekeeping contribution from the non-zero curl flux in maintaining the steady state; (5) gauge theory and a geometrical connection where the flux is found to be the origin of the gauge field curvature and the topological phase in analogy to the Berry phase in quantum mechanics; (6) coupled landscapes where non-adiabaticity of multiple landscapes in non-equilibrium dynamics can be analyzed using the landscape and flux theory and an eddy current emerges from the non-zero curl flux; (7) stochastic spatial dynamics where landscape and flux theory can be generalized for non-equilibrium field theory. We provide concrete examples of biological systems to demonstrate the new insights from the landscape and flux theory.

Multiscale comparison of remote-sensing data for linear woody vegetation mapping

Wooded hedgerows do not cover large areas but perform many functions that are beneficial to water quality and biodiversity. A broad range of remotely sensed data is available to map these small linear elements in rural landscapes, but only a few of them have been evaluated for this purpose. In this study, we evaluate and compare various optical remote-sensing data including high and very high spatial resolution, active and passive, and airborne and satellite data to produce quantitative information on the hedgerow network structure and to analyse qualitative information from the maps produced in order to estimate the true value of these maps. We used an object-based image analysis that proved to be efficient for detecting and mapping thin elements in complex landscapes. The analysis was performed at two scales, the hedgerow network scale and the tree canopy scale, on a study site that shows a strong landscape gradient of wooded hedgerow density. The results (1) highlight the key role of spectral resolution on the detection and mapping of wooded elements with remotely sensed data; (2) underline the fact that every satellite image provides relevant information on wooded network structures, even in closed landscape units, whatever the spatial resolution; and (3) indicate that light detection and ranging data offer important insights into future strategies for monitoring hedgerows.

Partial coupling and differential regulation of biologically and photochemically labile dissolved organic carbon across boreal aquatic networks

Abstract. Despite the rapidly increasing volume of research on the biological and photochemical degradation of DOC (dissolved organic carbon) in aquatic environments, little is known of the large-scale patterns in biologically and photochemically degradable DOC (BDOC and PDOC, respectively) in continental watersheds, and on the links that exist between these two key properties that greatly influence the flow of carbon from continents to oceans. Here we explored the patterns in the concentrations and proportions of BDOC and PDOC across hundreds of boreal lakes, rivers and wetlands spanning a large range of system trophic status and terrestrial influence, and compared the drivers of these two reactive pools of DOC at the landscape level. Using standardized incubations of natural waters, we found that the concentrations of BDOC and PDOC covaried across all systems studied but were nevertheless related to different pools of dissolved organic matter (DOM; identified by fluorescence analyses) in ambient waters. Concentrations of nutrients and protein-like fluorescent DOM (FDOM) explained nearly half of the variation in BDOC, whereas PDOC was exclusively predicted by DOM optical properties, consistent with the photochemical degradability of specific FDOM pools that we experimentally determined. The concentrations of colored DOM (CDOM), which we use here as a proxy of terrestrial influence, almost entirely accounted for the observed relationship between FDOM and the concentrations of both BDOC and PDOC. The concentrations of CDOM and of the putative biolabile fluorescence component shifted from complete decoupling in clear-water environments to strong coupling in darker streams and wetlands. This suggests a baseline autochthonous BDOC pool fueled by internal production that is gradually overwhelmed by land-derived BDOC as terrestrial influence increases across landscape gradients. The importance of land as a major source of both biologically and photochemically degradable DOC for continental watersheds resulted in a partial coupling of those carbon pools in natural freshwaters, despite fundamental contrasts in terms of their composition and regulation.

Methane dynamics regulated by microbial community response to permafrost thaw.

Permafrost contains about 50% of the global soil carbon. It is thought that the thawing of permafrost can lead to a loss of soil carbon in the form of methane and carbon dioxide emissions. The magnitude of the resulting positive climate feedback of such greenhouse gas emissions is still unknown and may to a large extent depend on the poorly understood role of microbial community composition in regulating the metabolic processes that drive such ecosystem-scale greenhouse gas fluxes. Here we show that changes in vegetation and increasing methane emissions with permafrost thaw are associated with a switch from hydrogenotrophic to partly acetoclastic methanogenesis, resulting in a large shift in the δ(13)C signature (10-15‰) of emitted methane. We used a natural landscape gradient of permafrost thaw in northern Sweden as a model to investigate the role of microbial communities in regulating methane cycling, and to test whether a knowledge of community dynamics could improve predictions of carbon emissions under loss of permafrost. Abundance of the methanogen Candidatus 'Methanoflorens stordalenmirensis' is a key predictor of the shifts in methane isotopes, which in turn predicts the proportions of carbon emitted as methane and as carbon dioxide, an important factor for simulating the climate feedback associated with permafrost thaw in global models. By showing that the abundance of key microbial lineages can be used to predict atmospherically relevant patterns in methane isotopes and the proportion of carbon metabolized to methane during permafrost thaw, we establish a basis for scaling changing microbial communities to ecosystem isotope dynamics. Our findings indicate that microbial ecology may be important in ecosystem-scale responses to global change.

Do farming practices affect natural enemies at the landscape scale?

Farming practices are rarely considered in the description of agricultural landscapes. However, the variety of cropping systems creates a particular kind of heterogeneity which can strongly affect the diversity of species living in agro-ecosystems, and consequently the ecosystem services they provide. In this study, we investigate the effects of landscape composition and configuration of organic and conventional farming practices on three groups of aphids’ natural enemies, compared to field habitat quality and land cover heterogeneity. A field survey was carried out in 2012 and 2013 in western France (Brittany). Ladybirds, carabid beetles and parasitoids were sampled in 40 pairs of organic and conventional winter wheat fields, distributed along a landscape gradient of organic farming areas. The relationships between farming practices and natural enemies were investigated with a PLS-path modeling approach, hardly ever used in ecology but presenting numerous advantages to analyze multivariate systems. Results showed that abundance and species richness of natural enemies were mainly affected by local farming practices, with a higher diversity in organic fields. To a lesser extent, landscapes also affected natural enemies, but only in relation to the length and configuration of hedgerows. Our results open up avenues for the design of agricultural landscapes since our results suggest that natural enemy diversity can be enhanced without a specific organization of organic fields. We discuss methodological issues regarding the description and the analysis of farming practices at the landscape scale. We argue that such investigations require high quality maps covering large spatial extents, and the use of statistical tools providing a good handling of complex relationships occurring in agro-ecosystems.

Tolerance to anthropogenic disturbance by a large carnivore: the case of Eurasian lynx in south‐eastern Norway

AbstractThe relative merits of land sparing versus land sharing are being debated within conservation biology. While the debate is multifaceted, a central issue concerns the ability of biodiversity to actually persist in ‘shared’ human‐dominated landscapes. There is a widespread perception that large predators are synonymous with wilderness and have a low tolerance for human‐modified landscapes. However, there is an increasing body of evidence that is questioning this paradigm. In order to explore the tolerance levels of Eurasian lynx to human activity, we have analysed data on 49 lynx home ranges in south‐eastern Norway occupying a gradient of landscapes from near wilderness to the urban–forest interface. Our results indicate that lynx have the ability to tolerate relatively high levels of human presence both within their home ranges and within the immediate surroundings of their home ranges. Home‐range orientations reflect preference for areas associated with low levels of human‐induced habitat modification, and avoidance of the more heavily disturbed areas. The results show that lynx have a large potential to exist in shared landscapes if their presence is tolerated by people.

Exploring the mechanisms of differentiation, dedifferentiation, reprogramming and transdifferentiation.

We explored the underlying mechanisms of differentiation, dedifferentiation, reprogramming and transdifferentiation (cell type switchings) from landscape and flux perspectives. Lineage reprogramming is a new regenerative method to convert a matured cell into another cell including direct transdifferentiation without undergoing a pluripotent cell state and indirect transdifferentiation with an initial dedifferentiation-reversion (reprogramming) to a pluripotent cell state. Each cell type is quantified by a distinct valley on the potential landscape with higher probability. We investigated three driving forces for cell fate decision making: stochastic fluctuations, gene regulation and induction, which can lead to cell type switchings. We showed that under the driving forces the direct transdifferentiation process proceeds from a differentiated cell valley to another differentiated cell valley through either a distinct stable intermediate state or a certain series of unstable indeterminate states. The dedifferentiation process proceeds through a pluripotent cell state. Barrier height and the corresponding escape time from the valley on the landscape can be used to quantify the stability and efficiency of cell type switchings. We also uncovered the mechanisms of the underlying processes by quantifying the dominant biological paths of cell type switchings on the potential landscape. The dynamics of cell type switchings are determined by both landscape gradient and flux. The flux can lead to the deviations of the dominant biological paths for cell type switchings from the naively expected landscape gradient path. As a result, the corresponding dominant paths of cell type switchings are irreversible. We also classified the mechanisms of cell fate development from our landscape theory: super-critical pitchfork bifurcation, sub-critical pitchfork bifurcation, sub-critical pitchfork with two saddle-node bifurcation, and saddle-node bifurcation. Our model showed good agreements with the experiments. It provides a general framework to explore the mechanisms of differentiation, dedifferentiation, reprogramming and transdifferentiation.

Longitudinal Changes in Water Quality to Landscape Gradients Along Sha River Basin

Both lateral and longitudinal scales are critical to understand the response of stream ecosystem to landscape changes. After acknowledged the most effective lateral scale in previous study, the aim of our study was to investigate the characteristic reaches explaining water quality most and construct dose–response curves to predict water quality changes along the longitudinal scale of Sha River Basin. Results showed that most water quality values at headwater sites were apparently better than those at middle and lower reaches (p < 0.05). Sites at middle or lower reaches are more responsible for water quality deterioration, especially those reaches where towns and cities located. Urbanization is the primary cause, in spite of that the dominant land type in Sha River Basin is agriculture. Response curves of the two major water eutrophication variables (total nitrogen and ammonium) at Sha River Basin both exhibited obvious positive relationships with increasing urbanization, and the response to urbanization gradients was more profound (parabolic curve). According to the Chinese State Standard max permissible limit for drinking and surface water, lower urban land percentage (<20%) was appropriate for keeping water quality from further degradation. All results indicate that quantifying the relationship between water quality and landscape pattern at longitudinal scale may provide a useful tool for determining thresholds where stream health declines and offer constructive suggestions for effective stream restoration.

Pathways and consequences of contaminant flux to Acadian flycatchers (Empidonax virescens) in urbanizing landscapes of Ohio, USA

A prevalent environmental contaminant, mercury (Hg) is mobile and persistent in aquatic systems, where it often occurs in its bioavailable form methylmercury. Because methylmercury can bioaccumulate in aquatic insects and then transfer to terrestrial food webs, riparian consumers reliant upon aquatic emergent insects, should be disproportionately affected. Using the aerial insectivore Acadian flycatcher (Empidonax virescens) as a focal species, we examined (1) the extent to which total Hg loads in breeding flycatchers affected body condition and reproductive output and (2) potential pathways of contaminant flux in 19 riparian forest fragments distributed across an urban-to-rural landscape gradient in Ohio, USA. From April–August 2011–2012, we collected blood samples from adult (n=76) and nestling (n=17 from 7 nests) flycatchers, monitored their annual reproductive success (i.e., total number of fledglings), and sampled water, sediment, and aquatic emergent insects at each site. Hg concentrations in adult flycatcher blood (47 to 584μg/kg, x¯=211.8, SD=95.5) were low relative to published advisory levels and not related to body condition. However, even at low concentrations, blood Hg was negatively related to reproductive success, with a 0.83 decline in the number of fledglings per μg/kg (loge) increase of blood Hg. Adult flycatchers had 11× greater concentrations of blood Hg than their offspring. Hg levels in flycatcher blood were not predicted by Hg concentrations in sediment, water, or aquatic emergent insects, with the exception of rural landscapes alone, in which flycatcher Hg was negatively related to sediment Hg. In addition to illustrating the difficulty of predicting exposure pathways that may vary among landscape contexts, our study provides evidence that even trace levels of contaminants may impair reproductive success of free-living songbirds.

Soil and geography are more important determinants of indigenous arbuscular mycorrhizal communities than management practices in Swiss agricultural soils

Arbuscular mycorrhizal fungi (AMF) are ubiquitous soil fungi, forming mutualistic symbiosis with a majority of terrestrial plant species. They are abundant in nearly all soils, less diverse than soil prokaryotes and other intensively studied soil organisms and thus are promising candidates for universal indicators of land management legacies and soil quality degradation. However, insufficient data on how the composition of indigenous AMF varies along soil and landscape gradients have hampered the definition of baselines and effect thresholds to date. Here, indigenous AMF communities in 154 agricultural soils collected across Switzerland were profiled by quantitative real-time PCR with taxon-specific markers for six widespread AMF species. To identify the key determinants of AMF community composition, the profiles were related to soil properties, land management and site geography. Our results indicate a number of well-supported dependencies between abundances of certain AMF taxa and soil properties such as pH, soil fertility and texture, and a surprising lack of effect of available soil phosphorus on the AMF community profiles. Site geography, especially the altitude and large geographical distance, strongly affected AMF communities. Unexpected was the apparent lack of a strong land management effect on the AMF communities as compared to the other predictors, which could be due to the rarity of highly intensive and unsustainable land management in Swiss agriculture. In spite of the extensive coverage of large geographical and soil gradients, we did not identify any taxon suitable as an indicator of land use among the six taxa we studied.

Raptors as surrogates of biodiversity along a landscape gradient

Summary With biodiversity facing threats, there is a need to improve reserve selection procedures. However, detailed information about different biodiversity measures (e.g. species richness) at potential sites is often lacking, and selecting areas that protect most biodiversity is difficult. To simplify matters, biodiversity surrogate species, that is, species associated with higher biodiversity than average, have been used for area selection. However, consensus about the performance of the surrogate species concept is lacking, and there are few studies investigating potential differences in the effectiveness of multiple predators as surrogates for biodiversity over large spatial scales. We evaluated two avian predators, the northern goshawk Accipiter gentilis and the Ural owl Strix uralensis, as surrogates for biodiversity in the boreal forest biome in Western Finland. We used a study design including nest sites and two reference sites for each nest, the diversity of birds and wood‐decaying fungi (polypores). We assessed simultaneously whether surrogacy persisted at the landscape level while moving from one vegetation zone to another. We generally found more birds and polypores around the nest sites for both goshawks and Ural owls than at their respective reference sites. However, the goshawk outperformed the Ural owl. Additionally, although biodiversity was found to decrease at the landscape scale as a result of a decrease in vegetation complexity with increasing longitude, the surrogacy efficiency of the raptors remained unchanged. Synthesis and applications. These findings suggest that the surrogate species concept applied to raptors may be an efficient addition to methods for identifying areas of conservation priority, even across vegetation zones. We conclude that protecting areas around raptor nests is a method to consider in order to halt forest biodiversity loss. Finally, sampling biodiversity along diversity and landscape gradients can improve the necessary assessment of surrogate species.

Urban greenspace composition and landscape context influence natural enemy community composition and function

Conservation research has historically been aimed at preserving high value natural habitats, but urbanization and its associated impacts have prompted broader mandates that include the preservation and promotion of biodiversity in cities. Current efforts within urban landscapes aim to support biodiversity and diverse ecosystem services such as storm water management, sustainable food production, and toxin remediation. Arthropod natural enemies provide biocontrol services important for the ecosystem management of urban greenspaces. Establishing habitat for these and other beneficial arthropods is a growing area of urban conservation. Habitat design, resource inputs, management, and abiotic conditions shape the value of greenspace habitats for arthropods. In general, larger patches with diverse plant communities support a greater abundance and diversity of natural enemies and biocontrol services, yet opposing patterns or no effects have also been documented. The surrounding landscape is likely a contributor to this variation in natural enemy response to patch-scale habitat design and management. Looking across rural–urban landscape gradients, natural enemy communities shift toward dominance by habitat generalists and disturbance tolerant species in urban areas compared to rural or natural communities. These changes have been linked to variation in habitat fragmentation, plant productivity and management intensity. In landscape-scale studies focusing solely within cities, variables such as impervious surface area and greenspace connectivity affect the community assembly of natural enemies within a patch. Given these findings, a greater mechanistic understanding of how both the composition and spatial context of urban greenspaces influence natural enemy biodiversity–biocontrol relationships is needed to advance conservation planning and implementation.

Farmer portfolios, strategic diversity management and climate-change adaptation – implications for policy in Vietnam and Kenya

Climate variability is contributing to water-scarcity problems in Kenya and to extreme flooding and drought in Vietnam. This paper compares diversity-based climate adaptation approaches in current land use in the Cam Xuyen district, Ha Tinh province, Central Vietnam and in the Kapingazi river watershed in Embu district, Eastern province, Kenya, in order to understand local responses to climate variability and examine the potential for policy support of diversity management by local people. Literature reviews and trend analysis of local time series of rainfall and temperature were combined with stakeholder interviews and workshops to identify technology and policy options for dealing with current and future climate variability. At all study sites, diversity in land use at farm level and along agriculture–forestry landscape gradients was a key strategy. Policy options to support such an approach could include legalization of agroforestry in Vietnam and a combination of regulations and incentive-based approaches to reconcile household decision-making with longer term and collective actions to benefit landscape diversity in Kenya. Lessons learnt in both study areas about payments for environmental services can be used in policy discussions.

Forecasting conditional climate-change using a hybrid approach

A novel approach is proposed to forecast the likelihood of climate-change across spatial landscape gradients. This hybrid approach involves reconstructing past precipitation and temperature using t...

The Potential and Flux Landscape Theory of Ecology

The species in ecosystems are mutually interacting and self sustainable stable for a certain period. Stability and dynamics are crucial for understanding the structure and the function of ecosystems. We developed a potential and flux landscape theory of ecosystems to address these issues. We show that the driving force of the ecological dynamics can be decomposed to the gradient of the potential landscape and the curl probability flux measuring the degree of the breaking down of the detailed balance (due to in or out flow of the energy to the ecosystems). We found that the underlying intrinsic potential landscape is a global Lyapunov function monotonically going down in time and the topology of the landscape provides a quantitative measure for the global stability of the ecosystems. We also quantified the intrinsic energy, the entropy, the free energy and constructed the non-equilibrium thermodynamics for the ecosystems. We studied several typical and important ecological systems: the predation, competition, mutualism and a realistic lynx-snowshoe hare model. Single attractor, multiple attractors and limit cycle attractors emerge from these studies. We studied the stability and robustness of the ecosystems against the perturbations in parameters and the environmental fluctuations. We also found that the kinetic paths between the multiple attractors do not follow the gradient paths of the underlying landscape and are irreversible because of the non-zero flux. This theory provides a novel way for exploring the global stability, function and the robustness of ecosystems.

Establishment and Short-term Productivity of Annual and Perennial Bioenergy Crops Across a Landscape Gradient

Bioenergy crops may help achieve multiple energy, economic, and environmental objectives in the US Midwest, but a portfolio of crops must first be developed and tested in comparison to the current standard, maize (Zea mays L.). The nascent, but long-term and ongoing Landscape Biomass Project in Boone County, Iowa, USA examines five cropping systems including continuous maize, a modified maize–soy [Glycine max (L.) Merr.] rotation, nurse cropped maize–switchgrass (Panicum virgatum L.), double-cropped triticale (Triticosecale × Whit.)/sorghum (Sorghum bicolor (L.) Moench), and intercropped triticale–aspen (Crandon [Populus alba × Populus grandidentata]) over an elevation gradient. Here, we report perennial establishment and crop productivity across five landscape positions during the first 4 years (2009–2012) of this experiment. Perennials (switchgrass and aspen) established successfully across the gradient with minimal effect of landscape position. Continuous maize had the highest biomass yields both within and over growing seasons, but they declined over time. In comparison, the diversified and perennial systems had lower, but stable or increasing yields over time, despite extreme weather conditions. Landscape position did not consistently influence biomass yield; its effect depended on year and cropping system. Cropping system productivity was generally consistent across the landscape within a given year with greater variability between years. Findings help explain why landscape is often disregarded in Midwestern crop management: it does not seem to substantially drive crop, and thus economic, performance in the short term. Conversely, related Landscape Biomass studies find landscape influences important ecosystem functions (e.g., soil carbon storage) and should be an integral management consideration.

A multi‐method approach for analyzing hierarchical genetic structures: a case study with cougars Puma concolor

Genetic data are increasingly used to describe the structure of wildlife populations and to infer landscape influences on functional connectivity. To accomplish this, genetic structure can be described with a multitude of methods that vary in their assumptions, advantages and limitations. While some methods discriminate distinct subpopulations separated by sharp genetic boundaries (i.e. barrier detection or clustering methods), other methods estimate gradient genetic structures using individual‐based genetic distances. We present an analytical framework based on individual ancestry values that combines these different approaches and can be used to a) test for local barriers to gene flow and b) evaluate effects of landscape gradients through individual‐based genetic distances that account for hierarchical genetic structure. We illustrate the approach with a data set of 371 cougars Puma concolor from a 217 000 km2 study area in Idaho and western Montana (USA) that were genotyped at 12 microsatellite loci. Results suggest that cougars in the region show a complex, hierarchical genetic structure that is influenced by a local barrier to gene flow (an urban population cluster connected by high traffic volumes), different landscape features (the Snake River Plain, forested habitat), and geographic distance. Our novel approach helped to elucidate the relative influence of these factors on different hierarchical levels of population structure, which was not possible when using either clustering methods or standard genetic distances. Results obtained with our analytical framework highlight the need for multi‐scale management of cougars in the region and show that landscape heterogeneity can create complex genetic structures, even in generalist species with high dispersal capabilities.