Searching for the fundamental niche using individual‐based habitat selection modelling across populations

Strictly speaking, fundamental niches are inestimable. Nevertheless, ecologists attempt approximating them to understand species’ distribution and plasticity to environmental changes, with invaluable repercussions on both theoretical and applied ecology. So far, individual‐based habitat selection models only characterized realized niches of populations delimited by physical (e.g. fences), historical (colonization) and biotic (competition) barriers constraining access to a subset of resources available to the species. As populations with different realized niches share the same fundamental niche, we developed a novel framework to scale‐up response curves from population‐scale habitat selection models to approximate the species’ optimal habitat choices, unbiased by barriers constraining accessibility. We used GPS‐locations from 147 wild mountain reindeer Rangifer t. tarandus, belonging to 7 of the remaining populations scattered throughout the subspecies’ range. We linked individual choices to accessible habitat features using conditional‐logistic regression with log‐link function in a use‐available design. Focal variables were modeled using 2nd degree polynomials on log‐scale, which correspond to a Gaussian curve used to approximate the fundamental niche optimum (curve mean) and breadth (variance). Using both real and simulated data we demonstrate that robust approximations of a fundamental niche optimum and breadth can be estimated using a relatively small number of representative populations with relatively few individuals. While each classical realized niche model had strong predictive power for the focal population but poorly predicted across populations, the approximation of the fundamental niche allowed for robust inter‐population comparisons in habitat quality. The proposed approach brings individual‐based habitat selection models forward along the continuum from investigating the realized niche of a population towards investigating a species’ fundamental niche, and allows us to quantify empirically the relationship between realized and fundamental niches. This allows improving the understanding of differences in fitness among populations, the prediction of species’ distributions and plasticity to environmental changes, and suggestions for mitigation priorities.     

Habitat availability and gene flow influence diverging local population trajectories under scenarios of climate change: a place‐based approach

Ecological niche theory holds that species distributions are shaped by a large and complex suite of interacting factors. Species distribution models (SDMs) are increasingly used to describe species’ niches and predict the effects of future environmental change, including climate change. Currently, SDMs often fail to capture the complexity of species’ niches, resulting in predictions that are generally limited to climate‐occupancy interactions. Here, we explore the potential impact of climate change on the American pika using a replicated place‐based approach that incorporates climate, gene flow, habitat configuration, and microhabitat complexity into SDMs. Using contemporary presence–absence data from occupancy surveys, genetic data to infer connectivity between habitat patches, and 21 environmental niche variables, we built separate SDMs for pika populations inhabiting eight US National Park Service units representing the habitat and climatic breadth of the species across the western United States. We then predicted occurrence probability under current (1981–2010) and three future time periods (out to 2100). Occurrence probabilities and the relative importance of predictor variables varied widely among study areas, revealing important local‐scale differences in the realized niche of the American pika. This variation resulted in diverse and – in some cases – highly divergent future potential occupancy patterns for pikas, ranging from complete extirpation in some study areas to stable occupancy patterns in others. Habitat composition and connectivity, which are rarely incorporated in SDM projections, were influential in predicting pika occupancy in all study areas and frequently outranked climate variables. Our findings illustrate the importance of a place‐based approach to species distribution modeling that includes fine‐scale factors when assessing current and future climate impacts on species’ distributions, especially when predictions are intended to manage and conserve species of concern within individual protected areas.     

A comprehensive framework for the study of species co‐occurrences,nestedness and turnover

Binary presence–absence matrices (rows = species, columns = sites) are often used to quantify patterns of species co‐occurrence, and to infer possible biotic interactions from these patterns. Previous classifications of co‐occurrence patterns as nested, segregated, or modular have led to contradictory results and conclusions. These analyses usually do not incorporate the functional traits of the species or the environmental characteristics of the sites, even though the outcomes of species interactions often depend on trait expression and site quality. Here we address this shortcoming by developing a method that incorporates realized functional and environmental niches, and relates them to species co‐occurrence patterns. These niches are defined from n‐dimensional ellipsoids, and calculated from the n eigenvectors and eigenvalues of the variance–covariance matrix of measured environmental or trait variables. Average niche overlap among species and the spatial distribution of niches define a triangle plot with vertices of species segregation (low niche overlap), nestedness (high niche overlap), and modular co‐occurrence (clusters of overlapping niches). Applying this framework to temperate understorey plant communities in southwest Poland, we found a consistent modular structure of species occurrences, a pattern not detected by conventional presence–absence analysis. These results suggest that, in our case study, habitat filtering is the most important process structuring understorey plant communities. Furthermore, they demonstrate how incorporating trait and environmental data into co‐occurrence analysis improves pattern detection and provides a stronger theoretical framework for understanding community structure.     

How to understand species’ niches and range dynamics: a demographic research agenda for biogeography

Range dynamics causes mismatches between a species’ geographical distribution and the set of suitable environments in which population growth is positive (the Hutchinsonian niche). This is because source–sink population dynamics cause species to occupy unsuitable environments, and because environmental change creates non‐equilibrium situations in which species may be absent from suitable environments (due to migration limitation) or present in unsuitable environments that were previously suitable (due to time‐delayed extinction). Because correlative species distribution models do not account for these processes, they are likely to produce biased niche estimates and biased forecasts of future range dynamics. Recently developed dynamic range models (DRMs) overcome this problem: they statistically estimate both range dynamics and the underlying environmental response of demographic rates from species distribution data. This process‐based statistical approach qualitatively advances biogeographical analyses. Yet, the application of DRMs to a broad range of species and study systems requires substantial research efforts in statistical modelling, empirical data collection and ecological theory. Here we review current and potential contributions of these fields to a demographic understanding of niches and range dynamics. Our review serves to formulate a demographic research agenda that entails: (1) advances in incorporating process‐based models of demographic responses and range dynamics into a statistical framework, (2) systematic collection of data on temporal changes in distribution and abundance and on the response of demographic rates to environmental variation, and (3) improved theoretical understanding of the scaling of demographic rates and the dynamics of spatially coupled populations. This demographic research agenda is challenging but necessary for improved comprehension and quantification of niches and range dynamics. It also forms the basis for understanding how niches and range dynamics are shaped by evolutionary dynamics and biotic interactions. Ultimately, the demographic research agenda should lead to deeper integration of biogeography with empirical and theoretical ecology.     

Of niches and distributions: range size increases with niche breadth both globally and regionally but regional estimates poorly relate to global estimates

The relationship between species’ niche breadth (i.e. the range of environmental conditions under which a species can persist) and range size (i.e. the extent of its spatial distribution) has mostly been tested within geographically restricted areas but rarely at the global extent. Here, we not only tested the relationship between range size (derived from species’ distribution data) and niche breadth (derived from species’ distribution and co‐occurrence data) of 1255 plant species at the regional extent of the European Alps, but also at the global extent and across both spatial scales for a subset of 180 species. Using correlation analyses, linear models and variation partitioning, we found that species’ realized niche breadth estimated at the regional level is a weak predictor of species’ global niche breadth and range size. Against our expectations, distribution‐derived niche breadth was a better predictor for species’ range size than the co‐occurrence‐based estimate, which should, theoretically, account for more than the climatically determined niche dimensions. Our findings highlight that studies focusing on the niche breadth vs range size relationship must explicitly consider spatial mismatches that might have confounded and diminished previously reported relationships.     

Cryptic niche conservatism among evolutionary lineages of an invasive lizard

Aim There is increasing evidence that the quality and breadth of ecological niches vary among individuals, populations, evolutionary lineages and therefore also across the range of a species. Sufficient knowledge about niche divergence among clades might thus be crucial for predicting the invasion potential of species. We tested for the first time whether evolutionary lineages of an invasive species vary in their climate niches and invasive potential. Furthermore, we tested whether lineage‐specific models show a better performance than combined models. Location Europe. Methods We used species distribution models (SDMs) based on climatic information at native and invasive ranges to test for intra‐specific niche divergence among mitochondrial DNA (mtDNA) clades of the invasive wall lizard Podarcis muralis. Using DNA barcoding, we assigned 77 invasive populations in Central Europe to eight geographically distinct evolutionary lineages. Niche similarity among lineages was assessed and the predictive power of a combination of clade‐specific SDMs was compared with a combined SDM using the pooled records of all lineages. Results We recorded eight different invasive mtDNA clades in Central Europe. The analysed clades had rather similar realized niches in their native and invasive ranges, whereas inter‐clade niche differentiation was comparatively strong. However, we found only a weak correlation between geographic origin (i.e. mtDNA clade) and invasive occurrences. Clades with narrow realized niches still became successful invaders far outside their native range, most probably due to broader fundamental niches. The combined model using data for all invasive lineages achieved a much better prediction of the invasive potential. Conclusions Our results indicate that the observed niche differentiation among evolutionary lineages is mainly driven by niche realization and not by differences in the fundamental niches. Such cryptic niche conservatism might hamper the success of clade‐specific niche modelling. Cryptic niche conservatism may in general explain the invasion success of species in areas with apparently unsuitable climate.     

Water availability,fundamental niches and realized niches: A case study from the Cape flora

The ability of plants to survive drought or waterlogging constitutes an important niche parameter, which might be particularly significant in explaining species coexistence in the species‐rich and seasonally dry Cape Floristic Region of South Africa. However, the degree of physiological adaptation and specialization to these eco‐hydrological parameters (the fundamental niche) cannot be readily inferred from correlative studies based on species distributions and spatial variation in environmental parameters (the realized niche). We used an ex situ greenhouse experiment to compare the fundamental hydrological niches (different mean annual precipitation, rainfall seasonality and soil drainage) of six eco‐hydrologically divergent African Restionaceae species. Juvenile plants were subjected to six different watering treatments, ranging from no watering to waterlogging, to determine drought and waterlogging susceptibility and optimal growth conditions. We used the rate of biomass accumulation and survival rate as response measures. We found that species from dry and mesic (but well‐drained) habitats had optimal or near‐optimal growth at benign conditions (under which most restio species grow well). All species performed worse when droughted and died when not watered. Species from dry habitats tended to perform better (assessed in growth) than species from wet habitats under droughting. Species from wet habitats performed best when waterlogged, whereas species from dry habitats performed very poorly when waterlogged – thus showing that realized and fundamental niches covaried at the wet end of the hydrological gradient. We conclude that eco‐hydrological parameters are part of the fundamental niche, and fundamental and realized species niches are approximately correlated along them. The distribution of wet habitat species appears not to reflect their drought tolerance, suggesting that it may not be predicted by bioclimatic variables, but rather by soil drainage characteristics.     

Insect occurrence in agricultural land-uses depends on realized niche and geographic range properties

Geographic range size predicts species’ responses to land-use change and intensification, but the reason why is not well established because many correlates of larger geographic ranges, such as realized niche breadth, may mediate species’ responses to environmental change. Agricultural land uses (hereafter ‘agroecosystems’) have warm, dry and more variable microclimates than do cooler and wetter mature forests, so are predicted to filter for species that have warmer, drier and broader fundamental and realized niches. To test these predictions, we estimated species’ realized niches, for temperature and precipitation, and geographic range sizes of 764 insect species by matching GBIF occurrence records to global climate layers, and modelled how species presence/absence in mature forest and nearby agroecosystems depend on species’ realized niches or geographic ranges. The predicted species niche effects consistently matched the expected direction of microclimatic transition from mature forest to agroecosystems. We found a clear signal that species with preference for warmer and drier climates were more likely to be present in agroecosystems. In addition, the probability that species occurred in different land-use types was predicted better by species’ realized niche than their geographic range size. However, niche effects are often context-dependent and varied amongst studies, taxonomic groups and regions used in this analysis: predicting which particular aspects of species’ realized niche cause sensitivity to land-use change, and the underpinning mechanisms, remains a major challenge for future research and multiple components of species’ realized niches may be important to consider. Using realized niches derived from open-source occurrence records can be a simple and widely applicable tool to help identify when biodiversity responds to the microclimate component of land-use change.     

Niches in the Anthropocene: passerine assemblages show niche expansion from natural to urban habitats

Human‐mediated habitat transformation is increasingly evident around the world. Yet, how this transformation influences species’ niche width and overlap remains unclear. On the one hand, human‐mediated habitat transformation promotes increased species similarity through trait‐based filtering, and an increased prevalence of generalist species with broad niches, resulting in functional homogenization. On the other hand, species that colonize transformed habitats could use empty niches, resulting in decreased species similarity and an expansion of assemblage‐level niche space. Here we explore these two alternatives in eight highly diverse passerine assembles in natural, rural and urban habitats in south and southwest China, a rapidly developing region of the world. Based on stable isotopes, we found that species’ niche width increased from natural to human‐made habitats, but there were no differences in niche overlap among habitats. Therefore, we found evidence for niche expansion, with generalists appearing to use empty niches created by human habitat modification, and with assemblages being comprised of complementary species. Further research is needed to determine whether increased between‐ or within‐individual niche variation is the main driver of niche expansion in transformed habitats.     

Equilibrium or not? Modelling potential distribution of invasive species in different stages of invasion

Aim The assumption of equilibrium between organisms and their environment is a standard working postulate in species distribution models (SDMs). However, this assumption is typically violated in models of biological invasions where range expansions are highly constrained by dispersal and colonization processes. Here, we examined how stage of invasion affects the extent to which occurrence data represent the ecological niche of organisms and, in turn, influences spatial prediction of species’ potential distributions. Location Six ecoregions in western Oregon, USA. Methods We compiled occurrence data from 697 field plots collected over a 9‐year period (2001–09) of monitoring the spread of invasive forest pathogen Phytophthora ramorum. Using these data, we applied ecological‐niche factor analysis to calibrate models of potential distribution across different years of colonization. We accounted for natural variation and uncertainties in model evaluation by further investigating three hypothetical scenarios of varying equilibrium in a simulated virtual species, for which the ‘true’ potential distribution was known. Results We confirm our hypothesis that SDMs calibrated in early stages of invasion are less accurate than models calibrated under scenarios closer to equilibrium. SDMs that are developed in early stages of invasion tend to underpredict the potential range compared to models that are built in later stages of invasion. Main conclusions A full environmental niche of invasive species cannot be effectively captured with data from a realized distribution that is restricted by processes preventing full occupancy of suitable habitats. If SDMs are to be used effectively in conservation and management, stage of invasion needs to be considered to avoid underestimation of habitats at risk of invasion.     

Patterns of niche filling and expansion across the invaded ranges of an Australian lizard

Studies of realized niche shifts in alien species typically ignore the potential effects of intraspecific niche variation and different invaded‐range environments on niche lability. We incorporate our detailed knowledge of the native‐range source populations and global introduction history of the delicate skink Lampropholis delicata to examine intraspecific variation in realized niche expansion and unfilling, and investigate how alternative niche modelling approaches are affected by that variation. We analyzed the realized niche dynamics of L. delicata using an ordination method, ecological niche models (ENMs), and occurrence records from 1) Australia (native range), 2) New Zealand, 3) Hawaii, 4) the two distinct native‐range clades that were the sources for the New Zealand and Hawaii introductions, and 5) the species’ global range (including Lord Howe Island, Australia). We found a gradient of realized niche change across the invaded ranges of L. delicata: niche stasis on Lord Howe Island, niche unfilling in New Zealand (16%), and niche unfilling (87%) and expansion (14%) in Hawaii. ENMs fitted to native‐range data generally identified suitable climatic conditions at sites where the species has established non‐native populations, whereas ENMs based on native‐range source clades and non‐native populations had lower spatial transferability. Our results suggest that the extent to which realized niches are maintained during invasion does not depend on species‐level traits. When realized niche shifts are predominately due to niche unfilling, fully capturing species’ responses along climatic gradients by basing ENMs on native distributions may be more important for accurate invasion forecasts than incorporating phylogenetic differentiation, or integrating niche changes in the invaded range.     

Biotic attrition from tropical forests correcting for truncated temperature niches

Species migration in response to warming temperatures is expected to lead to ‘biotic attrition,’ or loss of local diversity, in areas where the number of species emigrating or going locally extinct exceeds the number immigrating. Biotic attrition is predicted be especially severe in the low‐lying hot tropics since elevated temperatures may surpass the observed tolerances of most extant species. It is possible, however, that the estimated temperature niches of many species are inaccurate and truncated with respect to their true tolerances due to the absence of hotter areas under current global climate. If so, these species will be capable of persisting in some areas where future temperatures exceed current temperatures, reducing rates of biotic attrition. Here, we use natural history collections data to estimate the realized thermal niches of > 2000 plant species from the tropical forests of South America. In accord with the truncation hypothesis, we find that the thermal niches of species from hot lowland areas are several degrees narrower than the thermal niches of species from cooler areas. We estimate rates of biotic attrition for South American tropical forests due to temperature increases ranging from 1 to 5 °C, and under two niche assumptions. The first is that the observed thermal niches truly reflect the plant's tolerances and that the reduction in niche breadth is due to increased specialization. The second is that lowland species have the same mean thermal niche breadth as nonlowland and nonequatorial species. The differences between these two models are dramatic. For example, using observed thermal niches we predict an almost complete loss of plant diversity in most South American tropical forests due to a 5 °C temperature increase, but correcting for possible niche truncation we estimate that most forests will retain > 50–70% of their current species richness. The different predictions highlight the importance of using fundamental vs. realized niches in predicting the responses of species to global climate change.     

Using ecological niche modelling to evaluate niche stability in deep time

Aim To investigate relative niche stability in species responses to various types of environmental pressure (biotic and abiotic) on geological time‐scales using the fossil record. Location The case study focuses on Late Ordovician articulate brachiopods of the Cincinnati Arch in eastern North America. Methods Species niches were modelled for a suite of fossil brachiopod species based on five environmental variables inferred from sedimentary parameters using GARP and Maxent . Niche stability was assessed by comparison of (1) the degree of overlap of species distribution models developed for a time‐slice and those generated by projecting niche models of the previous time‐slice onto environmental layers of a second time‐slice using GARP and Maxent , (2) Schoener’s D statistic, and (3) the similarity of the contribution of each environmental parameter within Maxent niche models between adjacent time‐slices. Results Late Ordovician brachiopod species conserved their niches with high fidelity during intervals of gradual environmental change but responded to inter‐basinal species invasions through niche evolution. Both native and invasive species exhibited similar levels of niche evolution in the invasion and post‐invasion intervals. Niche evolution was related mostly to decreased variance within the former ecological niche parameters rather than to shifts to new ecospace. Main conclusions Although the species examined exhibited morphological stasis during the study interval, high levels of niche conservatism were observed only during intervals of gradual environmental change. Rapid environmental change, notably inter‐basinal species invasions, resulted in high levels of niche evolution among the focal taxa. Both native and invasive species responded with similar levels of niche evolution during the invasion interval and subsequent environmental reorganization. The assumption of complete niche conservatism frequently employed in ecological niche modelling (ENM) analyses to forecast or hindcast species geographical distributions is more likely to be accurate for climate change studies than for invasive species analyses over geological time‐scales.     

Trait plasticity in species interactions: a driving force of community dynamics

Evolutionary community ecology is an emerging field of study that includes evolutionary principles such as individual trait variation and plasticity of traits to provide a more mechanistic insight as to how species diversity is maintained and community processes are shaped across time and space. In this review we explore phenotypic plasticity in functional traits and its consequences at the community level. We argue that resource requirement and resource uptake are plastic traits that can alter fundamental and realised niches of species in the community if environmental conditions change. We conceptually add to niche models by including phenotypic plasticity in traits involved in resource allocation under stress. Two qualitative predictions that we derive are: (1) plasticity in resource requirement induced by availability of resources enlarges the fundamental niche of species and causes a reduction of vacant niches for other species and (2) plasticity in the proportional resource uptake results in expansion of the realized niche, causing a reduction in the possibility for coexistence with other species. We illustrate these predictions with data on the competitive impact of invasive species. Furthermore, we review the quickly increasing number of empirical studies on evolutionary community ecology and demonstrate the impact of phenotypic plasticity on community composition. Among others, we give examples that show that differences in the level of phenotypic plasticity can disrupt species interactions when environmental conditions change, due to effects on realized niches. Finally, we indicate several promising directions for future phenotypic plasticity research in a community context. We need an integrative, trait-based approach that has its roots in community and evolutionary ecology in order to face fast changing environmental conditions such as global warming and urbanization that pose ecological as well as evolutionary challenges.     

Species traits affect the performance of species distribution models for plants in southern California

Questions: To what extent do plant species traits, including life history, life form, and disturbance response characteristics, affect the degree to which species distributions are determined by physical environmental factors? Is the strength of the relationship between species distribution and environment stronger in some disturbance‐response types than in others? Location: California southwest ecoregion, USA. Methods: We developed species distribution models (SDMs) for 45 plant species using three primary modeling methods (GLMs, GAMs, and Random Forests). Using AUC as a performance measure of prediction accuracy, and measure of the strength of species–environment correlations, we used regression analyses to compare the effects of fire disturbance response type, longevity, dispersal mechanism, range size, cover, species prevalence, and model type. Results: Fire disturbance response type explained more variation in model performance than any other variable, but other species and range characteristics were also significant. Differences in prediction accuracy reflected variation in species life history, disturbance response, and rarity. AUC was significantly higher for longer‐lived species, found at intermediate levels of abundance, and smaller range sizes. Models performed better for shrubs than sub‐shrubs and perennial herbs. The disturbance response type with the highest SDM accuracy was obligate‐seeding shrubs with ballistic dispersal that regenerate via fire‐cued germination from a dormant seed bank. Conclusions: The effect of species characteristics on predictability of species distributions overrides any differences in modeling technique. Prediction accuracy may be related to how a suite of species characteristics co‐varies along environmental gradients. Including disturbance response was important because SDMs predict the realized niche. Classification of plant species into disturbance response types may provide a strong framework for evaluating performance of SDMs.     

Limiting similarity and functional diversity along environmental gradients

Recent developments in community models emphasize the importance of incorporating stochastic processes (e.g. ecological drift) in models of niche‐structured community assembly. We constructed a finite, spatially explicit, lottery model to simulate the distribution of species in a one‐dimensional landscape with an underlying gradient in environmental conditions. Our framework combines the potential for ecological drift with environmentally‐mediated competition for space in a heterogeneous environment. We examined the influence of niche breadth, dispersal distances, community size (total number of individuals) and the breadth of the environmental gradient on levels of species and functional trait diversity (i.e. differences in niche optima). Three novel results emerge from this model: (1) niche differences between adjacent species (e.g. limiting similarity) increase in smaller communities, because of the interaction of competitive effects and finite population sizes; (2) immigration from a regional species pool, stochasticity and niche‐assembly generate a bimodal distribution of species residence times (‘transient’ and ‘resident’) under a heterogeneous environment; and (3) the magnitude of environmental heterogeneity has a U‐shaped effect on diversity, because of shifts in species richness of resident vs. transient species. These predictions illustrate the potential importance of stochastic (although not necessarily neutral) processes in community assembly.     

Contrasting climate niches among co‐occurring subdominant forbs of the sagebrush steppe

Aim

Abiotic conditions are key components that determine the distribution of species. However, co‐occurring species can respond differently to the same factors, and determining which climate components are most predictive of geographic distributions is important for understanding community response to climate change. Here, we estimate and compare climate niches of ten subdominant, herbaceous forb species common in sagebrush steppe systems, asking how niches differ among co‐occurring species and whether more closely related species exhibit higher niche overlap.

Location

Western United States.

Methods

We used herbarium records and ecological niche modelling to estimate area of occupancy, niche breadth and overlap, and describe characteristics of suitable climate. We compared mean values and variability in summer precipitation and minimum temperatures at occurrence locations among species, plant families, and growth forms, and related estimated phylogenetic distances to niche overlap.

Results

Species varied in the size and spatial distribution of suitable climate and in niche breadth. Species also differed in the variables contributing to their suitable climate and in mean values, spatial variation and interannual variation in highly predictive climate variables. Only two of ten species shared comparable climate niches. We found family‐level differences associated with variation in summer precipitation and minimum temperatures, as well as in mean minimum temperatures. Growth forms differed in their association with variability in summer precipitation and minimum temperatures. We found no relationship between phylogenetic distance and niche overlap among our species.

Main conclusions

We identified contrasting climate niches for ten Great Basin understorey forbs, including differences in both mean values and climate variability. These estimates can guide species selection for restoration by identifying species with a high tolerance for climate variability and large climatic niches. They can also help conservationists to understand which species may be least tolerant of climate variability, and potentially most vulnerable to climate change.

     

Functional homogenization of bird communities along habitat gradients: accounting for niche multidimensionality

Aim To test whether functional homogenization of bird communities is promoted by anthropogenic landscape transformation, using specialization and habitat preference indices that account for the multidimensionality of niches. Location Catalonia, north‐east Iberian Peninsula. Methods We used data on bird species occurrences and landscape features in 2834 1‐km² squares. Three orthogonal landscape gradients, which were taken as niche dimensions, were defined by means of principal components analysis (PCA). Specialization and habitat preference indices were created for 103 terrestrial bird species on the basis of their frequency of occurrence variation along the landscape gradients. These indices, together with species rarity, were then averaged for bird communities. We then analysed the patterns of variation of communities’ mean specialization, mean rarity and mean habitat preference values along a gradient of agricultural–forest habitat mosaics. Results Wherever we found a significant variation in the degree of specialization along the agricultural–forest gradient, agricultural habitats held more specialized bird communities than did forest ones and bore, on average, rarer species. Thus, results contradicted our initial hypothesis that humanized areas would bear more functionally homogenized bird communities. Higher α‐diversity values tended to be associated with generalist communities and with those having rarer species. Main conclusions Estimations of bird community specialization for different niche dimensions can behave differently along certain landscape gradients, and some of these differences can be explained by the variation of mean habitat preferences. Thus, we argue that a multidimensional approach to assess average niche breadth of communities can be more informative than a unidimensional measure. Our results suggest that widespread land abandonment and current secondary forest expansion throughout the Mediterranean area are promoting functional homogenization of bird communities. It would be desirable to construct larger‐scale indicators of functional homogenization in order to monitor communities’ responses to widespread landscape changes.     

Seasonal climatic niches diverge in migratory birds

Migratory birds occupy different geographical areas during breeding and non-breeding periods, and thus different factors may determine their range limits depending on each season. One such factor is the spatial climatic component of the niche, which is widely used to model species distributions, yet the temporal component is often neglected and is generally assumed to be constant. We tested the hypothesis that the climatic niche is conserved between breeding and non-breeding areas in 355 bird species migrating through Eurasian–African flyways. For this, we performed niche overlap analyses and compared niche differences between sister or phylogenetically closely related species, as well as linking the differences to migratory distances. For more than 80% of the species, there was no or very little overlap between their breeding and non-breeding climatic niches. For most closely related species, the degree of overlap of their breeding climatic niches was larger than the overlap observed within each species, but not for their wintering climatic niches, suggesting a phylogenetic conservation of breeding climatic niches. Finally, there was a clear negative relationship between migratory distances and climatic niche overlap within each species. Our results confirmed that the climatic niche of most Eurasian–African migratory species differs between both breeding and non-breeding ranges, suggesting distinctive seasonal climatic requirements. Given these results and the geographically uneven effects of climate change, the impact of global change is likely to have different effects in each seasonal range. Hence, both breeding and non-breeding climatic data need to be considered when using species distribution models.     

Local adaptation versus historical isolation as sources of melanin‐based coloration in the white‐throated thrush Turdus assimilis

Local adaptation seems to be one of the causes of variation in melanin‐based colors in bird plumages, related mainly to the heterogeneity of the environmental conditions along the distribution of a species. Based on comparisons of genetic (mtDNA sequences), ecological (niche models), and quantitative colorimetric data, we explored variation in plumage coloration of the white‐throated thrush Turdus assimilis, a Mesoamerican species whose dorsal color varies from brown (northern and central Mexico) to dark gray (southern Mexico and Central America). Our results suggest the existence of two major patterns of coloration in this bird, which are congruent with the genetic structure, and comparisons of ecological niche models showed that population's niches were more similar than expected by chance, suggesting that color variation in plumage of T. assimilis is not consequence of local adaptation to different environmental conditions. Our results also showed that a greater geographic distance between populations is correlated with greater colorimetric differences, suggesting that color variation in T. assimilis may be consequence of historical isolation.