Landscape Genetics Approach Research Articles

Environment not dispersal limitation drives clonal composition of Arctic Daphnia in a recently deglaciated area

One of the most prominent manifestations of the ongoing climate warming is the retreat of glaciers and ice sheets around the world. Retreating glaciers result in the formation of new ponds and lakes, which are available for colonization. The gradual appearance of these new habitat patches allows us to determine to what extent the composition of asexual Daphnia (water flea) populations is affected by environmental drivers vs. dispersal limitation. Here, we used a landscape genetics approach to assess the processes structuring the clonal composition of species in the D.pulex species complex that have colonized periglacial habitats created by ice-sheet retreat in western Greenland. We analysed 61 populations from a young (<50years) and an old cluster (>150years) of lakes and ponds. We identified 42 asexual clones that varied widely in spatial distribution. Beta-diversity was higher among older than among younger systems. Lineage sorting by the environment explained 14% of the variation in clonal composition whereas the pure effect of geographical distance was very small and statistically insignificant (Radj2=0.010, P=0.085). Dispersal limitation did not seem important, even among young habitat patches. The observation of several tens of clones colonizing the area combined with environmentally driven clonal composition of populations illustrates that population assembly of asexual species in the Arctic is structured by environmental gradients reflecting differences in the ecology of clones.

Beekeeping practices and geographic distance, not land use, drive gene flow across tropical bees.

Across the globe, wild bees are threatened by ongoing natural habitat loss, risking the maintenance of plant biodiversity and agricultural production. Despite the ecological and economic importance of wild bees and the fact that several species are now managed for pollination services worldwide, little is known about how land use and beekeeping practices jointly influence gene flow. Using stingless bees as a model system, containing wild and managed species that are presumed to be particularly susceptible to habitat degradation, here we examine the main drivers of tropical bee gene flow. We employ a novel landscape genetic approach to analyse data from 135 populations of 17 stingless bee species distributed across diverse tropical biomes within the Americas. Our work has important methodological implications, as we illustrate how a maximum-likelihood approach can be applied in a meta-analysis framework to account for multiple factors, and weight estimates by sample size. In contrast to previously held beliefs, gene flow was not related to body size or deforestation, and isolation by geographic distance (IBD) was significantly affected by management, with managed species exhibiting a weaker IBD than wild ones. Our study thus reveals the critical importance of beekeeping practices in shaping the patterns of genetic differentiation across bee species. Additionally, our results show that many stingless bee species maintain high gene flow across heterogeneous landscapes. We suggest that future efforts to preserve wild tropical bees should focus on regulating beekeeping practices to maintain natural gene flow and enhancing pollinator-friendly habitats, prioritizing species showing a limited dispersal ability.

Replicated landscape genetic and network analyses reveal wide variation in functional connectivity for American pikas.

Landscape connectivity is essential for maintaining viable populations, particularly for species restricted to fragmented habitats or naturally arrayed in metapopulations and facing rapid climate change. The importance of assessing both structural connectivity (physical distribution of favorable habitat patches) and functional connectivity (how species move among habitat patches) for managing such species is well understood. However, the degree to which functional connectivity for a species varies among landscapes, and the resulting implications for conservation, have rarely been assessed. We used a landscape genetics approach to evaluate resistance to gene flow and, thus, to determine how landscape and climate-related variables influence gene flow for American pikas (Ochotona princeps) in eight federally managed sites in the western United States. We used empirically derived, individual-based landscape resistance models in conjunction with predictive occupancy models to generate patch-based network models describing functional landscape connectivity. Metareplication across landscapes enabled identification of limiting factors for dispersal that would not otherwise have been apparent. Despite the cool microclimates characteristic of pika habitat, south-facing aspects consistently represented higher resistance to movement, supporting the previous hypothesis that exposure to relatively high temperatures may limit dispersal in American pikas. We found that other barriers to dispersal included areas with a high degree of topographic relief, such as cliffs and ravines, as well as streams and distances greater than 1-4 km depending on the site. Using the empirically derived network models of habitat patch connectivity, we identified habitat patches that were likely disproportionately important for maintaining functional connectivity, areas in which habitat appeared fragmented, and locations that could be targeted for management actions to improve functional connectivity. We concluded that climate change, besides influencing patch occupancy as predicted by other studies, may alter landscape resistance for pikas, thereby influencing functional connectivity through multiple pathways simultaneously. Spatial autocorrelation among genotypes varied across study sites and was largest where habitat was most dispersed, suggesting that dispersal distances increased with habitat fragmentation, up to a point. This study demonstrates how landscape features linked to climate can affect functional connectivity for species with naturally fragmented distributions, and reinforces the importance of replicating studies across landscapes.

Genetic and morphological analysis of Berberis microphylla G. Forst. accessions in southern Tierra del Fuego

Calafate (Berberis microphylla G. Forst.) is a spontaneous shrub grown in the Patagonian region, from which berries are traditionally harvested for different purposes. This study aims to investigate on the spatial genetic structure of calafate populations grown in southern Tierra del Fuego and their morphological and genetic diversity. A first step of the research focused on 23 putative populations screened by a landscape genetic approach based on 82 geo-referenced and Random Amplified Polymorphic DNA marker characterized plants. The second phase regarded the analysis of the morphological characteristics of fruits, shoots and leaves observed on a subset of 39 plants. Taking into account multiple similarity between pairs and sub-sets of accessions, the observed differences have been associated to geographical and environmental conditions. The results allowed to postulate the existence of homogeneous populations within the studied plant sets and to formulate hypothesis on the evolution of B. microphylla in that area. No association between genetic and morphologic distances of the accessions has been observed.

Age and sex-dependent effects of landscape cover and trapping on the spatial genetic structure of the stone marten (Martes foina)

Maintenance of genetic variation is of critical importance for wild populations since low levels limit the species’ ability to respond to different threats (diseases, predators, environmental changes) in both the long and the short term. Human activities could impact the genetic variation of wild species in multiple ways, including via fragmentation and harvesting. We used an individual-based landscape genetics approach to describe the impact of landscape elements and trapping pressure on the spatial genetic structure of a large sample (n = 370) of the stone marten (Martes foina) in central-eastern France (Bresse). An analysis of isolation-by-resistance using a causal modeling approach showed an influence of landscape cover and/or trapping pressure on gene flow according to age and sex class. Overall, the connectivity in the study area is provided mainly by vegetation cover, while roads and open areas partially impede it. Unexpectedly for this “urban adapter” species, buildings could reduce gene flow. We also emphasized the sex-dependent effect of trapping on gene flow. Genetic differentiation in males was influenced by trapping pressure and landscape structure while only the latter influenced genetic differentiation in females. A stronger isolation by distance in males than in females suggested that at the scale of the study area, males are more exposed to trapping pressure, which reduces effective dispersal. Overall, the combination of both landscape and trapping costs might create an ‘ecological trap’ that could disrupt gene flow, leading to a north–south division in the study area.

Phylogeography of the Alpine shrew,Sorex alpinus(Soricidae, Mammalia)

Cold tolerant species often exhibit specific responses to Pleistocene climate oscillations, including range expansions during glacial periods and altitudinal shifts between glacial and interglacial periods. Small terrestrial mammals are ideal candidates to study these processes due to their limited dispersal abilities, short generation time and rapid sequence evolution. The aim of this study was to investigate phylogeographical structure of the Alpine shrew (Sorex alpinus) within its recently fragmented range in the central and southern European mountain system. To examine its genetic structure, we sequenced the hypervariable domain of the mitochondrial control region in 51 individuals from 18 localities, covering the majority of the distributional area of the species. We analyzed the sequence dataset using population and landscape genetic approaches. We discovered shallow mitochondrial genealogy with degree of differentiation among site-specific haplogroups. This pattern, together with demographic analyses showing population expansion, corroborate the hypothesis that during the glacial periods, S. alpinus expanded its range into lower elevations between northern and high mountain system glaciers. This expansion was followed by a postglacial range breakup, retreat to moderate elevations of high mountain systems, and a formation of relict enclaves in smaller hilly areas.

Landscape determinants of fine-scale genetic structure of a small rodent in a heterogeneous landscape (Hluhluwe-iMfolozi Park, South Africa)

Small mammals provide ecosystem services, acting, for example, as pollinators and seed dispersers. In addition, they are also disease reservoirs that can be detrimental to human health and they can also act as crop pests. Knowledge of their dispersal preferences is therefore useful for population management and landscape planning. Genetic data were used alongside landscape data to examine the influence of the landscape on the demographic connectedness of the Natal multimammate mouse (Mastomys natalensis) and to identify landscape characteristics that influence the genetic structure of this species across a spatially and temporally varying environment. The most significant landscape features shaping gene flow were aspect, vegetation cover, topographic complexity (TC) and rivers, with western facing slopes, topographic complexity and rivers restricting gene flow. In general, thicket vegetation was correlated with increased gene flow. Identifying features of the landscape that facilitate movement/dispersal in M. natalensis potentially has application for other small mammals in similar ecosystems. As the primary reservoir host of the zoonotic Lassa virus, a landscape genetics approach may have applications in determining areas of high disease risk to humans. Identifying these landscape features may also be important in crop management due to damage by rodent pests.

Identification of landscape features influencing gene flow: How useful are habitat selection models?

Understanding how dispersal patterns are influenced by landscape heterogeneity is critical for modeling species connectivity. Resource selection function (RSF) models are increasingly used in landscape genetics approaches. However, because the ecological factors that drive habitat selection may be different from those influencing dispersal and gene flow, it is important to consider explicit assumptions and spatial scales of measurement. We calculated pairwise genetic distance among 301 Dall's sheep (Ovis dalli dalli) in southcentral Alaska using an intensive noninvasive sampling effort and 15 microsatellite loci. We used multiple regression of distance matrices to assess the correlation of pairwise genetic distance and landscape resistance derived from an RSF, and combinations of landscape features hypothesized to influence dispersal. Dall's sheep gene flow was positively correlated with steep slopes, moderate peak normalized difference vegetation indices (NDVI), and open land cover. Whereas RSF covariates were significant in predicting genetic distance, the RSF model itself was not significantly correlated with Dall's sheep gene flow, suggesting that certain habitat features important during summer (rugged terrain, mid‐range elevation) were not influential to effective dispersal. This work underscores that consideration of both habitat selection and landscape genetics models may be useful in developing management strategies to both meet the immediate survival of a species and allow for long‐term genetic connectivity.

Genetic and phenotypic variation in central and northern European populations of Aedes (Aedimorphus) vexans (Meigen, 1830) (Diptera, Culicidae).

The floodwater mosquito Aedes vexans can be a massive nuisance in the flood plain areas of mainland Europe, and is the vector of Tahyna virus and a potential vector of Dirofilaria immitis. This epidemiologically important species forms three subspecies worldwide, of which Aedes vexans arabiensis has a wide distribution in Europe and Africa. We quantified the genetic and phenotypic variation in Ae. vexans arabiensis in populations from Sweden (northern Europe), Hungary, and Serbia (central Europe). A landscape genetics approach (FST , STRUCTURE, BAPS, GENELAND) revealed significant differentiation between northern and southern populations. Similar to genetic data, wing geometric morphometrics revealed two different clusters, one made by Swedish populations, while another included Hungarian and Serbian populations. Moreover, integrated genetic and morphometric data from the spatial analysis suggested groupings of populations into three clusters, one of which was from Swedish and Hungarian populations. Data on spatial analysis regarding an intermediate status of the Hungarian population was supported by observed Isolation-by-Distance patterns. Furthermore, a low proportion of interpopulation vs intrapopulation variance revealed by AMOVA and low-to-moderate FST values on a broader geographical scale indicate a continuous between-population exchange of individuals, including considerable gene flow on the regional scale, are likely to be responsible for the maintenance of the observed population similarity in Aе. vexans. We discussed data considering population structure in the light of vector control strategies of the mosquito from public health importance.

Anthropogenic Habitats Facilitate Dispersal of an Early Successional Obligate: Implications for Restoration of an Endangered Ecosystem.

Landscape modification and habitat fragmentation disrupt the connectivity of natural landscapes, with major consequences for biodiversity. Species that require patchily distributed habitats, such as those that specialize on early successional ecosystems, must disperse through a landscape matrix with unsuitable habitat types. We evaluated landscape effects on dispersal of an early successional obligate, the New England cottontail (Sylvilagus transitionalis). Using a landscape genetics approach, we identified barriers and facilitators of gene flow and connectivity corridors for a population of cottontails in the northeastern United States. We modeled dispersal in relation to landscape structure and composition and tested hypotheses about the influence of habitat fragmentation on gene flow. Anthropogenic and natural shrubland habitats facilitated gene flow, while the remainder of the matrix, particularly development and forest, impeded gene flow. The relative influence of matrix habitats differed between study areas in relation to a fragmentation gradient. Barrier features had higher explanatory power in the more fragmented site, while facilitating features were important in the less fragmented site. Landscape models that included a simultaneous barrier and facilitating effect of roads had higher explanatory power than models that considered either effect separately, supporting the hypothesis that roads act as both barriers and facilitators at all spatial scales. The inclusion of LiDAR-identified shrubland habitat improved the fit of our facilitator models. Corridor analyses using circuit and least cost path approaches revealed the importance of anthropogenic, linear features for restoring connectivity between the study areas. In fragmented landscapes, human-modified habitats may enhance functional connectivity by providing suitable dispersal conduits for early successional specialists.

Striking the right balance between site and landscape-scale conservation actions for a woodland insect within a highly fragmented landscape: A landscape genetics perspective

Landscape-scale conservation is increasingly seen as an effective strategy to combat habitat loss and fragmentation. However, there is debate on the relative merit and balance between site and landscape-scale conservation actions. Here, we provide much needed evidence to inform this debate. Our study, set in the highly fragmented landscape of the Isle of Wight, Southern England, focuses on the wood cricket (Nemobius sylvestris), a poorly dispersing woodland specialist. We use a landscape genetics approach, combining evidence from microsatellite DNA variation with an analysis of the contemporary landscape. Results revealed impacts of fragmentation in the form of high genetic differentiation and restricted gene flow between woodlands. Despite this, we found low relatedness, high genetic diversity and little evidence of inbreeding or bottlenecking. Our study also revealed that the present day landscape has only a limited role in explaining the observed genetic pattern. These results indicate that conservation actions for this study species should focus primarily on site-based activities to improve habitat quality and maintain large populations. However, we acknowledge that many other species that operate over larger spatial scales and have much smaller populations may be far more susceptible to habitat fragmentation and may benefit from wider landscape-scale actions. We demonstrate the utility and challenges of using landscape genetics to inform conservation strategies and we highlight the need to strike a balance between site and landscape-scale actions. Furthermore, our results suggest a blanket adoption of landscape-scale conservation strategies, no matter how appealing, may in practice be a poor use of conservation resources.

基于生境斑块的滇金丝猴景观连接度分析

PDF HTML阅读 XML下载 导出引用 引用提醒 基于生境斑块的滇金丝猴景观连接度分析 DOI: 10.5846/stxb201408191641 作者: 作者单位: 昆明理工大学环境科学与工程学院,云南财经大学野生动植物管理与生态系统健康研究中心,云南财经大学野生动植物管理与生态系统健康研究中心,云南财经大学野生动植物管理与生态系统健康研究中心,云南师范大学旅游与地理科学学院,云南财经大学野生动植物管理与生态系统健康研究中心 作者简介: 通讯作者: 中图分类号: 基金项目: 国家自然科学基金项目(31100351) Analysis of landscape connectivity of the Yunnan snub-nosed monkeys (Rhinopithecus bieti) based on habitat patches Author: Affiliation: Faculty of Environmental Science and Engineering, Kunming University of Science and Technology,Wildlife Management and Ecosystem Health center, Yunnan University of Finance and Economics,,,, Fund Project: 摘要 | 图/表 | 访问统计 | 参考文献 | 相似文献 | 引证文献 | 资源附件 | 文章评论 摘要:基于生境斑块,结合最小费用距离并运用图论法对滇金丝猴分布区进行栖息地连接度分析,研究利用猴群的现实分布结合Logistic回归模型确定了景观功能连接的最佳距离阈值,对于功能畅通的组分,以景观指数BC定量识别出作为"踏脚石"的优先保护区域;对于功能不连接的组分,绘制出最小费用路径,确定了该路径中优先恢复区域。结果表明:最佳的最小费用距离阈值为1400,该阈值下猴群主要存在于5个组分中,所有组分中猴群间的连接度优劣排序为组分3 > 组分1 > 组分5 > 组分4,龙马山猴群(G15)没有"踏脚石"斑块使其与同一组分内的其他猴群相连接,应考虑优先恢复该区域的植被,研究成果对于该物种的保护和其他濒危物种的类似研究具有较强的参考价值和借鉴意义。 Abstract:Habitat fragmentation is a major cause of biodiversity loss; it impedes gene flow between populations and interrupts the network of habitat patches. Populations are faced with a high risk of extinction owing to their small and isolated habitat patches. The maintenance of landscape connectivity can promote population movement between habitat patches, and this is extremely important to maintain gene flow and biological dispersal in fragmented landscapes. Using current habitat patches, the least-cost distance method and graph theory were implemented to study the habitat connectivity across the distribution of the Yunnan snub-nosed monkeys, and the optimal distance threshold of landscape functional connectivity was identified. Priority protected areas referred to as "stepping stones" were quantitatively identified based on highly connected functional components. The least-cost path was estimated to determine restoration priority areas for less connected functional components. This study had the following aims: (1) to explore new methods for identifying the optimal distance threshold, (2) to analyze the connectivity between monkey groups, and (3) to quantitatively analyze priority protected areas among monkey groups. The best resistance assignment for each habitat type was determined by a landscape genetics approach that combines the relationship between the least-cost-distance and gene flow, and reflects the promotion and impediment of the landscape matrix on species movement. The optimal threshold distance of least cost comprehensively reflected landscape features and species distribution characteristics; it incorporated the habitat area of each connected component into the monkey distribution. The priority conservation area was quantified using the landscape index. Based on the results, the optimal threshold distance of least cost was 1400 cost units. Monkey groups were mainly classified into five components that did not exceed this threshold, and the connectivity scores for monkey groups within components was Component 3 > Component 1 > Component 5 > Component 4. "Stepping-stone" patches do not exist in the Longma mountain group, resulting in a disconnect between that group and other monkey groups. This connection should first be restored. The results of this study can facilitate the protection of this and other species. 参考文献 相似文献 引证文献

Using multiple landscape genetic approaches to test the validity of genetic clusters in a species characterized by an isolation-by-distance pattern

Bayesian clustering methods are typically used to identify barriers to gene flow, but they are prone to deduce artificial subdivisions in a study population characterized by an isolation-by-distance pattern (IbD). Here we analysed the landscape genetic structure of a population of wild boars (Sus scrofa) from south-western Germany. Two clustering methods inferred the presence of the same genetic discontinuity. However, the population in question was characterized by a strong IbD pattern. While landscape-resistance modelling failed to identify landscape features that influenced wild boar movement, partial Mantel tests and multiple regression of distance matrices (MRDMs) suggested that the empirically inferred clusters were separated by a genuine barrier. When simulating random lines bisecting the study area, 60% of the unique barriers represented, according to partial Mantel tests and MRDMs, significant obstacles to gene flow. By contrast, the random-lines simulation showed that the boundaries of the inferred empirical clusters corresponded to the most important genetic discontinuity in the study area. Given the degree of habitat fragmentation separating the two empirical partitions, it is likely that the clustering programs correctly identified a barrier to gene flow. The differing results between the work published here and other studies suggest that it will be very difficult to draw general conclusions about habitat permeability in wild boar from individual studies.

Gene Flow of a Forest-Dependent Bird across a Fragmented Landscape.

Habitat loss and fragmentation can affect the persistence of populations by reducing connectivity and restricting the ability of individuals to disperse across landscapes. Dispersal corridors promote population connectivity and therefore play important roles in maintaining gene flow in natural populations inhabiting fragmented landscapes. In the prairies, forests are restricted to riparian areas along river systems which act as important dispersal corridors for forest dependent species across large expanses of unsuitable grassland habitat. However, natural and anthropogenic barriers within riparian systems have fragmented these forested habitats. In this study, we used microsatellite markers to assess the fine-scale genetic structure of a forest-dependent species, the black-capped chickadee (Poecile atricapillus), along 10 different river systems in Southern Alberta. Using a landscape genetic approach, landscape features (e.g., land cover) were found to have a significant effect on patterns of genetic differentiation. Populations are genetically structured as a result of natural breaks in continuous habitat at small spatial scales, but the artificial barriers we tested do not appear to restrict gene flow. Dispersal between rivers is impeded by grasslands, evident from isolation of nearby populations (~ 50 km apart), but also within river systems by large treeless canyons (>100 km). Significant population genetic differentiation within some rivers corresponded with zones of different cottonwood (riparian poplar) tree species and their hybrids. This study illustrates the importance of considering the impacts of habitat fragmentation at small spatial scales as well as other ecological processes to gain a better understanding of how organisms respond to their environmental connectivity. Here, even in a common and widespread songbird with high dispersal potential, small breaks in continuous habitats strongly influenced the spatial patterns of genetic variation.

Landscape genetics, adaptive diversity and population structure in Phaseolus vulgaris.

Here we studied the organization of genetic variation of the common bean (Phaseolus vulgaris) in its centres of domestication. We used 131 single nucleotide polymorphisms to investigate 417 wild common bean accessions and a representative sample of 160 domesticated genotypes, including Mesoamerican and Andean genotypes, for a total of 577 accessions. By analysing the genetic spatial patterns of the wild common bean, we documented the existence of several genetic groups and the occurrence of variable degrees of diversity in Mesoamerica and the Andes. Moreover, using a landscape genetics approach, we demonstrated that both demographic processes and selection for adaptation were responsible for the observed genetic structure. We showed that the study of correlations between markers and ecological variables at a continental scale can help in identifying local adaptation genes. We also located putative areas of common bean domestication in Mesoamerica, in the Oaxaca Valley, and the Andes, in southern Bolivia-northern Argentina. These observations are of paramount importance for the conservation and exploitation of the genetic diversity preserved within this species and other plant genetic resources.

Landscape genetics of a tropical rescue pollinator

Pollination services are increasingly threatened by the loss and modification of natural habitats, posing a risk to the maintenance of both native plant biodiversity and agricultural production. In order to safeguard pollination services, it is essential to examine the impacts of habitat degradation on the population dynamics of key pollinators and identify potential “rescue pollinators” capable of persisting in these human-altered landscapes. Using a landscape genetic approach, we assessed the impact of landscape structure on genetic differentiation in the widely-distributed tropical stingless bee Trigona spinipes (Apidae: Meliponini) across agricultural landscape mosaics composed of coffee plantations and Atlantic forest fragments in southeastern Brazil. We genotyped 115 bees at 16 specific and highly polymorphic microsatellite loci, developed using next-generation sequencing. Our results reveal that T. spinipes is capable of dispersing across remarkably long distances, as we did not find genetic differentiation across a 200 km range, nor fine-scale spatial genetic structure. Furthermore, gene flow was not affected by forest cover, land cover, or elevation, indicating that reproductive individuals are able to disperse well through agricultural landscapes and across altitudinal gradients. We also found evidence of a recent population expansion, suggesting that this opportunistic stingless bee is capable of colonizing degraded habitats. Our results thus suggest that T. spinipes can persist in heavily-altered landscapes and can be regarded as a rescue pollinator, potentially compensating for the decline of other native pollinators in degraded tropical landscapes.

A novel landscape genetic approach demonstrates the effects of human disturbance on the Udzungwa red colobus monkey (Procolobus gordonorum)

A comprehensive understanding of how human disturbance affects tropical forest ecosystems is critical for the mitigation of future losses in global biodiversity. Although many genetic studies of tropical forest fragmentation have been conducted to provide insight into this issue, relatively few have incorporated landscape data to explicitly test the effects of human disturbance on genetic differentiation among populations. In this study, we use a newly developed landscape genetic approach that relies on a genetic algorithm to simultaneously optimize resistance surfaces to investigate the effects of human disturbance in the Udzungwa Mountains of Tanzania, which is an important part of a universally recognized biodiversity hotspot. Our study species is the endangered Udzungwa red colobus monkey (Procolobus gordonorum), which is endemic to the Udzungwa Mountains and a known indicator species that thrives in large and well-protected blocks of old growth forest. Population genetic analyses identified significant population structure among Udzungwa red colobus inhabiting different forest blocks, and Bayesian cluster analyses identified hierarchical structure. Our new method for creating composite landscape resistance models found that the combination of fire density on the landscape and distance to the nearest village best explains the genetic structure observed. These results demonstrate the effects that human activities are having in an area of high global conservation priority and suggest that this ecosystem is in a precarious state. Our study also illustrates the ability of our novel landscape genetic method to detect the impacts of relatively recent landscape features on a long-lived species.

How spatio-temporal habitat connectivity affects amphibian genetic structure.

Heterogeneous landscapes and fluctuating environmental conditions can affect species dispersal, population genetics, and genetic structure, yet understanding how biotic and abiotic factors affect population dynamics in a fluctuating environment is critical for species management. We evaluated how spatio-temporal habitat connectivity influences dispersal and genetic structure in a population of boreal chorus frogs (Pseudacris maculata) using a landscape genetics approach. We developed gravity models to assess the contribution of various factors to the observed genetic distance as a measure of functional connectivity. We selected (a) wetland (within-site) and (b) landscape matrix (between-site) characteristics; and (c) wetland connectivity metrics using a unique methodology. Specifically, we developed three networks that quantify wetland connectivity based on: (i) P. maculata dispersal ability, (ii) temporal variation in wetland quality, and (iii) contribution of wetland stepping-stones to frog dispersal. We examined 18 wetlands in Colorado, and quantified 12 microsatellite loci from 322 individual frogs. We found that genetic connectivity was related to topographic complexity, within- and between-wetland differences in moisture, and wetland functional connectivity as contributed by stepping-stone wetlands. Our results highlight the role that dynamic environmental factors have on dispersal-limited species and illustrate how complex asynchronous interactions contribute to the structure of spatially-explicit metapopulations.

Ecological connectivity assessment in a strongly structured fire salamander (Salamandra salamandra) population.

Small populations are more prone to extinction if the dispersal among them is not adequately maintained by ecological connections. The degree of isolation between populations could be evaluated measuring their genetic distance, which depends on the respective geographic (isolation by distance, IBD) and/or ecological (isolation by resistance, IBR) distances. The aim of this study was to assess the ecological connectivity of fire salamander Salamandra salamandra populations by means of a landscape genetic approach. The species lives in broad-leaved forest ecosystems and is particularly affected by fragmentation due to its habitat selectivity and low dispersal capability. We analyzed 477 biological samples collected in 47 sampling locations (SLs) in the mainly continuous populations of the Prealpine and Eastern foothill lowland (PEF) and 10 SLs in the fragmented populations of the Western foothill (WF) lowland of Lombardy (northern Italy). Pairwise genetic distances (Chord distance, DC) were estimated from allele frequencies of 16 microsatellites loci. Ecological distances were calculated using one of the most promising methodology in landscape genetics studies, the circuit theory, applied to habitat suitability maps. We realized two habitat suitability models: one without barriers (EcoD) and a second one accounting for the possible barrier effect of main roads (EcoDb). Mantel tests between distance matrices highlighted how the Log-DC in PEF populations was related to log-transformed geographic distance (confirming a prevalence of IBD), while it was explained by the Log-EcoD, and particularly by the Log-EcoDb, in WF populations, even when accounting for the confounding effect of geographic distance (highlighting a prevalence of IBR). Moreover, we also demonstrated how considering the overall population, the effect of Euclidean or ecological distances on genetic distances acting at the level of a single group (PEF or WF populations) could not be detected, when population are strongly structured.

Beyond species distribution modeling: A landscape genetics approach to investigating range shifts under future climate change

Understanding how biodiversity will respond to future climate change is a major conservation and societal challenge. Climate change is predicted to force many species to shift their ranges in pursuit of suitable conditions. This study aims to use landscape genetics, the study of the effects of environmental heterogeneity on the spatial distribution of genetic variation, as a predictive tool to assess how species will shift their ranges to track climatic changes and inform conservation measures that will facilitate movement. The approach is based on three steps: 1) using species distribution models (SDMs) to predict suitable ranges under future climate change, 2) using the landscape genetics framework to identify landscape variables that impede or facilitate movement, and 3) extrapolating the effect of landscape connectivity on range shifts in response to future climate change. I show how this approach can be implemented using the publicly available genetic dataset of the grey long-eared bat, Plecotus austriacus, in the Iberian Peninsula. Forest cover gradient was the main landscape variable affecting genetic connectivity between colonies. Forest availability is likely to limit future range shifts in response to climate change, primarily over the central plateau, but important range shift pathways have been identified along the eastern and western coasts. I provide outputs that can be directly used by conservation managers and review the viability of the approach. Using landscape genetics as a predictive tool in combination with SDMs enables the identification of potential pathways, whose loss can affect the ability of species to shift their range into future climatically suitable areas, and the appropriate conservation management measures to increase landscape connectivity and facilitate movement.