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Motivation: Documenting potential interactions between species represents a major step towards understanding and predicting the spatial and temporal structure of multi‐trophic communities and their functioning. The metaweb concept summarizes the potential trophic (and non‐trophic) interactions in a given species pool. As such, it generalizes the regional species pool of community ecology by incorporating the potential relationships between species from different trophic levels along with their functional characteristics. However, although this concept is very attractive theoretically, it has rarely been used to understand the structure of an ecological network, mostly because of data availability. Here, we provide a continental‐scale, species‐level metaweb for all tetrapods (mammals, breeding birds, reptiles and amphibians) occurring in Europe and in the Northern Mediterranean basin. This metaweb is based on data extracted from the scientific literature, including published papers, books and grey literature. Main type of variable contained: For each species considered, we built the network of potential two‐way trophic interactions. Spatial location and grain: We considered all species occurring in the entire European subcontinent, from Macaronesia (including only the islands belonging politically to Spain and Portugal) to the Ural Mountains (west to east) and from Fennoscandia and U.K. islands to the Mediterranean (north to south). We included Turkey, geographically part of Asia, to provide a complete picture of the north‐eastern Mediterranean coast. Time period: The data represent information published and/or collected during the last 50 years. Major taxa studied and level of measurement: We focused our metaweb on terrestrial tetrapods occurring in the study area. Only species introduced in historical times and currently naturalized were considered; new introductions were excluded. In total, we included 288 mammals, 509 regularly breeding birds, 250 reptiles and 104 amphibians. Software format: Data are supplied as semicolon‐separated text files. [ABSTRACT FROM AUTHOR]

Aim: Functional diversity indices that summarize trait variation between organisms within communities are widely used tools in community ecology. Although intraspecific trait variation is often an important component of the total variation, traditional functional diversity indices neglect this component. Recently, Carmona et al. proposed a framework to overcome this limitation based on fitting trait probability distributions (TPDs). Unfortunately, this article does not contain any guidance on pooling data before fitting TPDs. Innovation: Reliable fitting of TPDs needs larger sample size than usually used. This larger sample size can be reached pooling of data comes from different localities. If the TPD is the same in these localities, pooling results in a more reliable estimation. Moreover, if pooled data represent different TPDs, the fitted distribution is an artefact. In this paper, we suggest an algorithm for the automated selection of optimal pooling. It is based on fitting Gaussian mixture models and model selection using Bayes information criterion (BIC). Main conclusions: The new algorithm was able to select the optimal pooling of data, which is illustrated using artificial data. Analysis of field data examples showed that optimal pooling is often not obvious: both merging all data and analysing measurements from each locality separately might result in unreliable estimates. [ABSTRACT FROM AUTHOR]

Aim Multiple spatial and non-spatial processes are involved in determining the complex patterns underlying the spatial variation of individual species and their assemblages. This complexity, and the logistical challenges involved in following dispersal for multiple species across multiple sites, make it challenging to infer the processes underlying metacommunity spatial heterogeneity. The goal of our paper is to present a robust quantitative framework for inferring spatial patterns across multiple ecological communities. Innovation Unlike numerous metapopulation studies that have inferred migration rates based on landscape connectivity metrics which take into account the spatial positioning of occupied and empty patches, metacommunity studies have relied on spatial predictors built without considering such information. Here, we introduce a novel method called the multi-species spatial network ( MSSN) to detect and explain spatial variability in community assemblies using a graph-theoretical approach. The MSSN approach can be best described as a reconciliation between the spatial positioning of sites and their patterns of patch occupation. Main conclusions Our simulation and real data analyses showed that our MSSN approach was better at detecting spatial patterns within metacommunities than the commonly used MEM method (Moran's eigenvector maps). In addition, our proposed framework is also useful in estimating the levels of spatial connectivity for each local community. Finally, our framework is flexible enough to incorporate different types of functions, metrics and algorithms to detect complex spatial patterns. [ABSTRACT FROM AUTHOR]

Aim In this paper, we applied the concept of 'hierarchical filters' in community ecology to model marine species distribution at nested spatial scales. Location Global, Mediterranean Sea and the Gulf of Gabes ( Tunisia). Methods We combined the predictions of bioclimatic envelope models ( BEMs) and habitat models to assess the current distribution of 20 exploited marine species in the Gulf of Gabes. BEMs were first built at a global extent to account for the full range of climatic conditions encountered by a given species. Habitat models were then built using fine-grained habitat variables at the scale of the Gulf of Gabes. We also used this hierarchical filtering approach to project the future distribution of these species under both climate change (the A2 scenario implemented with the Mediterranean climatic model NEMOMED8) and habitat loss (the loss of Posidonia oceanica meadows) scenarios. Results The hierarchical filtering approach predicted current species geographical ranges to be on average 56% smaller than those predicted using the BEMs alone. This pattern was also observed under the climate change scenario. Combining the habitat loss and climate change scenarios indicated that the magnitude of range shifts due to climate change was larger than from the loss of P. oceanica meadows. Main conclusions Our findings emphasize that BEMs may overestimate current and future ranges of marine species if species-habitat relationships are not also considered. A hierarchical filtering approach that accounts for fine-grained habitat variables limits the uncertainty associated with model-based recommendations, thus ensuring their outputs remain applicable within the context of marine resource management. [ABSTRACT FROM AUTHOR]

Aim: Evaluating the similarity of diversity patterns across micro‐ to macroevolutionary scales in natural communities, such as species–genetic diversity correlations (SGDCs), may inform on processes shaping community assembly. However, whether SGDCs not only hold across communities but also across lineages has never been explored so far. Here we investigated SGDCs across co‐distributed taxa for different spatial components (α, β, γ), and formally tested the influence of dispersal traits on β‐SGDCs. Location: Western Indian Ocean. Time period: 2016–2017. Major taxa studied: Tropical reef fish species with contrasting dispersal traits. Methods: Using double‐digest restriction‐site associated DNA sequencing (ddRADseq) Single Nucleotide Polymorphism data for 20 tropical reef fishes and distribution data of 2,446 species belonging to 12 families, we analysed the correlations between within‐species genetic diversity and within‐family species diversity (i.e., lineage diversity) for the three spatial components (α, β, γ‐SGDCs). We then related the strength of β‐SGDCs per species to proxies of larval dispersal abilities. Results: We detected positive and significant lineage‐based SGDC only for the β component, that is, the families showing the greatest level of species turnover among sites contain the species with the greatest levels of genetic differentiation. We showed that the Monsoon Drift mainly explained the β‐diversity patterns at both intraspecific and interspecific levels. Higher β‐SGDCs were found for species with short pelagic larval duration and weak larval swimming capacity. Main conclusions: Our study reveals a strong correlation between genetic and species β‐diversity, a result explained by the presence of a 'soft' barrier and mediated by larval dispersal processes. This suggests that vicariance and dispersal limitation are major processes shaping β‐diversity patterns from microevolutionary to macroevolutionary scales in tropical reef fishes. [ABSTRACT FROM AUTHOR]

Aim: While it is now well accepted that human activities are having pronounced effects on natural ecosystems, regional variation in the rate and magnitude of various human impacts is unclear. Moreover, the effects of land use change on natural aquatic communities have only relatively recently begun to be explored. Our goal was to understand how and where assemblages of a central food web component of freshwater lakes have changed over the course of industrialization in relation to land use. Location: Canada. Time period: Pre‐1880 AD to present. Major taxa studied: Cladoceran zooplankton. Methods: As part of the Natural Sciences and Engineering Research Council (NSERC) Canadian Lake Pulse Network, we selected 101 lakes across Canada along a gradient of human impact to analyse subfossil cladoceran assemblages from sediment cores. We examined relationships between taxonomic and functional indicators of cladoceran assemblage change among lakes and through time. Results: Contemporary assemblages were taxonomically and functionally less diverse locally relative to pre‐industrial assemblages (α‐diversity) and were structured by the degree of human impact in watersheds. Local α‐diversity losses were greatest in highly impacted lakes where agriculture and pasture are prevalent. While spatial homogenization (spatial β‐diversity) did not increase since pre‐industrial times as expected, temporal turnover (temporal β‐diversity) showed a non‐significant but increasing trend in highly impacted lakes, especially in urbanized watersheds. Main conclusions: Cladoceran assemblages have changed significantly over the course of the Industrial period, and especially in more highly impacted watersheds, underscoring the important role of watershed land use in shaping diversity. However, indicators of cladoceran function have remained relatively conserved over time and land use change showed little impact on β‐diversity, despite important environmental variation. Overall, this research furthers our understanding of the health status of Canadian lakes and the consequences of human activities, especially agriculture and urbanization, on lake zooplankton. [ABSTRACT FROM AUTHOR]

Aim: Understanding the variation in community composition and species abundances (i.e., β‐diversity) is at the heart of community ecology. A common approach to examine β‐diversity is to evaluate directional variation in community composition by measuring the decay in the similarity among pairs of communities along spatial or environmental distance. We provide the first global synthesis of taxonomic and functional distance decay along spatial and environmental distance by analysing 148 datasets comprising different types of organisms and environments. Location: Global. Time period: 1990 to present. Major taxa studied: From diatoms to mammals. Method: We measured the strength of the decay using ranked Mantel tests (Mantel r) and the rate of distance decay as the slope of an exponential fit using generalized linear models. We used null models to test whether functional similarity decays faster or slower than expected given the taxonomic decay along the spatial and environmental distance. We also unveiled the factors driving the rate of decay across the datasets, including latitude, spatial extent, realm and organismal features. Results: Taxonomic distance decay was stronger than functional distance decay along both spatial and environmental distance. Functional distance decay was random given the taxonomic distance decay. The rate of taxonomic and functional spatial distance decay was fastest in the datasets from mid‐latitudes. Overall, datasets covering larger spatial extents showed a lower rate of decay along spatial distance but a higher rate of decay along environmental distance. Marine ecosystems had the slowest rate of decay along environmental distances. Main conclusions: In general, taxonomic distance decay is a useful tool for biogeographical research because it reflects dispersal‐related factors in addition to species responses to climatic and environmental variables. Moreover, functional distance decay might be a cost‐effective option for investigating community changes in heterogeneous environments. [ABSTRACT FROM AUTHOR]

Aim: Global declines in structurally complex habitats are reshaping both land‐ and seascapes in directions that affect the responses of biological communities to warming. Here, we test whether widespread loss of kelp habitats through sea urchin overgrazing systematically changes the sensitivity of fish communities to warming. Location: Global temperate latitudes. Time period: Modern. Major taxa studied: Fishes. Methods: Community shifts in thermal affinity related to habitat were assessed by simulating and comparing fish communities from 2271 surveys across 15 ecoregions. Results: We found that fishes in kelp and urchin barrens differed in realized thermal affinities and range sizes, but only in regions where species pools had high variability in the thermal affinities of species. Barrens on warm temperate reefs host relatively more warm‐affinity fish species than neighbouring kelp beds, highlighting the acceleration of tropicalization processes facilitated by urchin grazing. In contrast, proportionally more cool‐affinity fishes colonize barrens at high temperate latitudes, contributing to community lags with ocean warming in these regions. Main conclusions: Our findings implicate urchins as drivers of ecological change, in part by affecting ecological resilience to warming. [ABSTRACT FROM AUTHOR]

Aim: The aim was to identify the primary drivers of compositional change in breeding bird assemblages over a 40‐year period. Location: Britain. Time period: From 1970 to 2010. Major taxa studied: Birds. Methods: Using morphological trait measurements and a dataset of presence–absence data for British breeding birds surveyed in 10 km × 10 km hectads during two time periods, we calculated temporal taxonomic and functional beta diversity for each hectad alongside the change in species richness, mean nearest taxon distance (MNTD) and mean pairwise distance (MPD). We also estimated potential drivers of beta diversity, including climatic and land‐use and land‐cover (LULC) change variables, elevation and assemblage species richness in 1970 (1970rich). We used random forest regressions to test which variables best explained compositional change in the assemblages. We also assessed spatial taxonomic and functional change by analysing multiple‐site beta diversity and pairwise dissimilarities between time periods. Results: Initial (1970) species richness was the most important predictor (highest importance score) across all models, with areas characterized by higher initial richness experiencing less assemblage change overall. The coordinates included to capture spatial autocorrelation in the data were also important predictors of change. Most climate and LULC variables had relatively low explanatory power; elevation and average temperature were the most influential. All metrics increased slightly with increasing elevation, except for species richness change and MPD, which decreased. Main conclusions: The composition of British breeding bird assemblages changed substantially between 1970 and 2010. Spatial heterogeneity increased, both taxonomically and functionally. We show evidence that hectads with larger assemblages have been buffered from temporal diversity change and that those at higher elevations changed more in composition than those at lower elevations. Overall, coarse‐resolution climate and LULC explained only small to moderate amounts of variation, suggesting that stochastic assembly change or finer‐scale drivers might be drivers of temporal changes in assemblage composition. [ABSTRACT FROM AUTHOR]

Aim: A large body of ecological theory predicts that non‐indigenous species (NIS) are successful invaders if their niches overlap little with native taxa. Native–non‐indigenous trait dissimilarity, however, may also be observed if NIS have outcompeted ecologically similar native species. Discriminating these scenarios is essential for assessing invasion impacts but requires baseline assemblage data that are frequently unavailable. We overcome this impediment by analysing death assemblages – identifiable organism remains in the seafloor – which are natural community archives. Focusing on molluscs from the heavily invaded Eastern Mediterranean, we gain insights into the contentious role of competitive displacement by NIS as the primary driver of the massive regional declines of native populations, and their potential to alter ecosystem functioning. Location: Israel/Eastern Mediterranean. Time period: Pre‐Lessepsian invasion (pre‐1869) to contemporary. Major taxa studied: Mollusca. Methods: We sampled molluscan living and death assemblages from various substrates on the Israeli shelf and compiled trait information on all constituent species. We then compared the abundance‐weighted trait composition and functional diversity of native and non‐indigenous assemblage components. Death assemblage time‐coverage was quantified radiometrically. Results: Native and non‐indigenous assemblage components consistently differed in trait composition, both in present‐day (i.e., living) and historical (i.e., death) assemblages, irrespective of habitat conditions. Furthermore, present‐day non‐indigenous assemblage components had a different trait composition than historical native assemblages. These findings suggest that the increasing NIS dominance has considerably altered the functional properties of shallow‐water molluscan assemblages. Main conclusions: By utilizing death assemblages, we show that native and non‐indigenous assemblage components have differed in trait composition since the onset of the invasion, suggesting that competition was unlikely the primary driver of the regional‐scale native biodiversity loss. Our findings, however, also imply that NIS cannot functionally compensate for native species disappearance. Instead, the transition towards increasingly NIS‐dominated assemblages has profoundly altered ecosystem functioning, with unknown consequences. [ABSTRACT FROM AUTHOR]

Aim: In an age of increased anthropogenic changes, it is crucially important to understand how and why ecological communities change. Community assembly is governed by colonization and extinction processes, and the simplest model describing it is dynamic equilibrium (DE), which assumes that communities are shaped solely by stochastic colonization and extinction events. Deviations from this model can point to the role of species life histories, niches or human stressors acting on communities. Despite its potential to serve as a null model for community dynamics, there is currently no accepted methodology for identifying and measuring such deviations. Innovation: Here we propose a new, easily applicable methodology for testing and quantifying deviations of empirically observed time series of community dynamics from the predictions and assumptions of the classical DE model, in which assemblages of independent species undergo stochastic colonization–extinction dynamics with constant rates. The methodology consists of a novel randomization‐based null model to generate synthetic time series (PARIS) and a set of statistics that quantify and test how different facets of community dynamics deviate from DE. These statistics are designed to test the assumptions of the theory, namely species independence and constancy of colonization and extinction rates, and the predictions of the theory regarding the magnitude of changes in species richness and composition. Main conclusions: Tested against simulated data and a case study, the proposed methodology is shown to have good statistical properties: acceptable type I error rates, good statistical power and robustness against errors in the data. We discuss alternative methods and present guidelines for practical use of the methodology, hoping it will enhance the applicability of DE as a reference for studying changes in ecological communities. [ABSTRACT FROM AUTHOR]

Aim: In response to warming, species are shifting their ranges towards higher elevations. These elevational range shifts have been documented in a variety of taxonomic groups across latitude. However, the rate and direction of species range shifts in response to warming vary, potentially as a consequence of variation in species traits across elevation. Specifically, diurnal and seasonal climates are often more variable at higher elevations, which results in high-elevation species that have broader thermal physiologies relative to low-elevation species. High-elevation species that are thermal generalists might not need to move as far to track their thermal niche as lowelevation thermal specialists. We investigated whether rates of range shifts varied systematically with increasing elevation across taxa and regions. Location: Sixteen montane regions world-wide. Time period: 1850-2013. Taxon: Nine hundred and eighty-seven species of plants and animals. Methods: We gathered published data on elevational range shifts from 20 transect studies comparing historical and recent distributions and examined how rates of range shifts changed across elevation. Specifically, we performed a meta-analysis to calculate the pooled effect of elevation on species range shifts. Results: We found that rates of range shifts show a negative relationship with elevation such that low-elevation species have moved upslope farther than high-elevation species on the same transect. This finding was primarily a result of shifts in the upper range limits. We also found that 28% of species shifted downslope against predictions, but elevation did not show a relationship with downslope range shifts. Main conclusions: Idiosyncratic range shifts will significantly alter montane ecological communities, which are home to some of the greatest biodiversity on Earth. Our results demonstrate that species range shifts vary with elevation and might be a consequence of differences in species traits that also vary along montane gradients. [ABSTRACT FROM AUTHOR]

Aim: Biogeographical regions (realms) reflect patterns of co‐distributed species (biotas) across space. Their boundaries are set by dispersal barriers and difficulties of establishment in new locations. We extend new methods to assess these two contributions by quantifying the degree to which realms intergrade across geographical space and the contributions of individual species to the delineation of those realms. As our example, we focus on Wallace's Line, the most enigmatic partitioning of the world's faunas, where climate is thought to have little effect and the majority of dispersal barriers are short water gaps. Location: Indo‐Pacific. Time period: Present day. Major taxa studied: Birds and mammals. Methods: Terrestrial bird and mammal assemblages were established in 1‐degree map cells using range maps. Assemblage structure was modelled using latent Dirichlet allocation, a continuous clustering method that simultaneously establishes the likely partitioning of species into biotas and the contribution of biotas to each map cell. Phylogenetic trees were used to assess the contribution of deep historical processes. Spatial segregation between biotas was evaluated across time and space in comparison with numerous hard realm boundaries drawn by various workers. Results: We demonstrate that the strong turnover between biotas coincides with the north‐western extent of the region not connected to the mainland during the Pleistocene, although the Philippines contains mixed contributions. At deeper taxonomic levels, Sulawesi and the Philippines shift to primarily Asian affinities, resulting from transgressions of a few Asian‐derived lineages across the line. The partitioning of biotas sometimes produces fragmented regions that reflect habitat. Differences in partitions between birds and mammals reflect differences in dispersal ability. Main conclusions: Permanent water barriers have selected for a dispersive archipelago fauna, excluded by an incumbent continental fauna on the Sunda shelf. Deep history, such as plate movements, is relatively unimportant in setting boundaries. The analysis implies a temporally dynamic interaction between a species' intrinsic dispersal ability, physiographic barriers, and recent climate change in the genesis of Earth's biotas. [ABSTRACT FROM AUTHOR]

Aim: Trait data are increasingly being used in studies investigating the impacts of global changes on the structure and functioning of ecological communities. Despite a growing number of trait data collations for terrestrial vertebrates, there is to date no global assessment of the gaps and biases the data present. Here, we assess whether terrestrial vertebrate trait data are taxonomically, spatially and phylogenetically biased. Location: Global. Time period: Present. Major taxa studied: Terrestrial vertebrates. Methods: We compile seven ecological traits and quantify coverage as the proportion of species for which an estimate is available. For a species, we define completeness as the proportion of non‐missing values across traits. We assess whether coverage and completeness differ across classes and examine phylogenetic biases in trait data. To investigate spatial biases, we test whether wider‐ranging species have more complete trait data than narrow‐ranging species. Additionally, we test whether species‐rich regions, which are of most concern for conservation, are less well sampled than species‐poor regions. Results: Mammals and birds are well sampled even in species‐rich regions. For reptiles and amphibians (herptiles), only body size presents a high coverage (>80%), in addition to habitat‐related variables (amphibians). Herptiles are poorly sampled for other traits. The shortfalls are particularly acute in some species‐rich regions and for certain clades. Across all classes, geographically rarer species have less complete trait information. Main conclusions: Trait information is less available on average in some of the most diverse areas and in geographically rarer species, both of which crucial for biodiversity conservation. Gaps in trait data might impede our ability to conduct large‐scale analyses, whereas biases can impact the validity of extrapolations. A short‐term solution to the problem is to estimate missing trait data using imputation techniques, whereas a longer‐term and more robust filling of existing gaps requires continued data‐collection efforts. [ABSTRACT FROM AUTHOR]

Aim: Decades of experimental research have conclusively shown a positive relationship between species richness and ecosystem function. However, authoritative reviews find no consensus on how species loss affects function in natural communities. We analyse experimental and observational data in an identical way and test whether they produce similar results. Location: North America and Europe (experimental communities); global (natural communities). Time period: Experimental communities: 1998–2013; natural communities: 1982–2018. Major taxa studied: Experimental communities: temperate grassland plants; natural communities: temperate grassland plants, tropical forest trees, kelp forest producers and native bees. Methods: We used an approach inspired by the Price equation to analyse 129 datasets from experimental and natural communities worldwide. We tested how the effects of species loss on ecosystem function varied with dominance and the non‐randomness of species loss and, in turn, how these two factors differed between experiments and observations. Results: Studies carried out in experimental and natural communities reached different conclusions regarding the effects of species loss. First, species loss had greater effects on ecosystem function in experiments than in nature. Second, the importance of species loss was negatively correlated with dominance in nature because as dominance increased, lost species were increasingly those contributing little to ecosystem function. Although experimental and natural communities exhibited similar levels of dominance, an analogous relationship was not possible in experiments because the order of species loss was randomized by design. Main conclusions: Species loss was sometimes, but not always, the major driver of loss of function in nature. Variation in the importance of species loss was not messy and context dependent; instead, it was predicted by functional dominance. Although results from experimental and natural communities were similar in several key ways, they differed in that species loss was a consistent predictor of ecosystem function in experiments and not in nature. [ABSTRACT FROM AUTHOR]

Aim: Climate change impacts forest functioning and services through two inter‐related effects. First, it impacts tree growth, with effects, for example, on biomass production. Second, climate change also reshuffles community composition, with further effects on forest functioning. However, the relative importance of these two effects has rarely been studied. Here, we developed a new modelling approach to investigate these relative importances for forest productivity. Location: Eleven forest sites in central Europe. Time period: Historical (1990) and end‐of‐21st‐century climate‐like conditions. We simulated 2,000 years of forest dynamics for each set of conditions. Major taxa studied: Twenty‐five common tree species in European temperate forests. Methods: We coupled species distribution models and a forest succession model, working at complementary spatial and temporal scales, to simulate the climatic filtering that shapes potential tree species pools, the biotic filtering that shapes realized communities and the functioning of these realized communities in the long‐term. Results: Under an average temperature increase (relative to 1901–1990) of between 1.5 and 1.7 °C, changes in simulated forest productivity were caused mostly by changes in the growth of persisting tree species. With an average temperature increase of 3.6–4.0 °C, changes in simulated productivity at sites that currently have a mild climate were again caused predominantly by changes in tree species growth. However, at the warmest and coldest sites, changes in productivity were related mostly to shifts in species composition. In general, at the coldest sites, forest productivity is likely to be enhanced by climate change, whereas at the warmest sites the productivity might increase or decrease depending on the future precipitation regime. Main conclusions: A combination of two complementary modelling approaches that address questions at the interface between biogeography, community ecology and ecosystem functioning, reveals that climate change‐driven community reshuffling in the long term might be crucially important for ecosystem functioning. [ABSTRACT FROM AUTHOR]

Aim: More than ever, ecologists seek to understand how species are distributed and have assembled into communities using the "filtering framework". This framework is based on the hypothesis that local assemblages result from a series of abiotic and biotic filters applied to regional species pools and that these filters leave predictable signals in observed diversity patterns. In theory, statistical comparisons of expected and observed patterns enable data‐driven tests of assembly processes. However, so far this framework has fallen short in delivering generalizable conclusions, challenging whether (and how) diversity patterns can be used to characterize and understand underlying assembly processes better. Methods: By synthesizing the previously raised critiques and suggested solutions in a comprehensive way, we identify 10 pitfalls that can lead to flawed interpretations of α‐diversity patterns, summarize solutions developed to circumvent these pitfalls and provide general guidelines. Results: We find that most issues arise from an overly simplistic view of potential processes that influence diversity patterns, which is often motivated by practical constraints on study design, focal scale and methodology. We outline solutions for each pitfall, such as methods spanning over spatial, environmental or phylogenetic scales, and suggest guidelines for best scientific practices in community ecology. Among key future challenges are the integration of mechanistic modelling and multi‐trophic interactions. Main conclusions: Our conclusion is that the filtering framework still holds promise, but only if researchers successfully navigate major pitfalls, foster the integration of mechanistic modelling and multi‐trophic interactions and directly account for uncertainty in their conclusions. [ABSTRACT FROM AUTHOR]

Aim: Intraspecific trait variation (ITV) within natural plant communities can be large, influencing local ecological processes and dynamics. Here, we shed light on how ITV in vegetative and floral traits responds to large‐scale abiotic and biotic gradients (i.e., climate and species richness). Specifically, we tested whether associations of ITV with temperature, precipitation and species richness were consistent with any of four hypotheses relating to stress tolerance and competition. Furthermore, we estimated the degree of correlation between ITV in vegetative and floral traits and how they vary along the gradients. Location: Global. Time period: 1975–2016. Major taxa studied: Herbaceous and woody plants. Methods: We compiled a dataset of 18,401 measurements of the absolute extent of ITV (measured as the coefficient of variation) in nine vegetative and seven floral traits from 2,822 herbaceous and woody species at 2,372 locations. Results: Large‐scale associations between ITV and climate were trait specific and more prominent for vegetative traits, especially leaf morphology, than for floral traits. The ITV showed pronounced associations with climate, with lower ITV values in colder areas and higher values in drier areas. The associations of ITV with species richness were inconsistent across traits. Species‐specific associations across gradients were often idiosyncratic, and covariation in ITV was weaker between vegetative and floral traits than within the two trait groups. Main conclusions: Our results show that, depending on the traits considered, ITV either increased or decreased with climate stress and species richness, suggesting that both factors can constrain or enhance ITV, which might foster plant‐population persistence in stressful conditions. Given the species‐specific responses and covariation in ITV, associations can be hard to predict for traits and species not yet studied. We conclude that consideration of ITV can improve our understanding of how plants cope with stressful conditions and environmental change across spatial and biological scales. [ABSTRACT FROM AUTHOR]

Aim: Many clades display the macroevolutionary pattern of a negative relationship between standing diversity and diversification rates. Competition among species has been proposed as the main mechanism that explains this pattern. However, we currently lack empirical insight into how the effects of individual‐level ecological interactions scale up to affect species diversification. Here, we investigate a clade that shows evidence for negative diversity‐dependent diversification in the fossil record and test whether the clade's modern communities show a corresponding signal of interspecific competition. Location: World's oceans. Time period: Holocene. Major taxa studied: Planktonic Foraminifera (Rhizaria). Methods: We explore spatial and temporal ecological patterns expected under interspecific competition. Firstly, we use a community phylogenetics approach to test for signs of local competitive exclusion among ecologically similar species (defined as closely related or of similar shell sizes) by combining species relative abundances in seafloor sediments. Secondly, we analyse whether population abundances of co‐occurring species covary negatively through time using sediment trap time‐series spanning 1–12 years. Results: The great majority of the assemblages are indistinguishable from randomly assembled communities, showing no significant spatial co‐occurrence patterns regarding phylogeny or size similarity. Through time, most species pairs correlated positively, indicating synchronous rather than compensatory population dynamics. Main conclusions: We found no detectable evidence for interspecific competition structuring extant planktonic Foraminifera communities. Species co‐occurrences and population dynamics are likely regulated by the abiotic environment and/or distantly related species, rather than intra‐clade density‐dependent processes. This interpretation contradicts the idea that competition drives the clade's macroevolutionary dynamics. One way to better integrate community ecology and macroevolution is to consider that diversification dynamics are influenced by groups that interact ecologically even when distantly related. [ABSTRACT FROM AUTHOR]

Aim: Mesophotic coral ecosystems (MCEs) are unique communities that support a high proportion of depth‐endemic species distinct from shallow‐water coral reefs. However, there is currently little consensus on the boundaries between shallow and mesophotic coral reefs and between upper versus lower MCEs because studies of these communities are often site specific. Here, we examine the ecological evidence for community breaks, defined here as species loss, in fish and benthic taxa between shallow reefs and MCEs globally. Location: Global MCEs. Time period: 1973–2017. Major taxa studied: Macrophytes, Porifera, Scleractinia, Hydrozoa, Octocorallia, Antipatharia and teleost fishes. Methods: We used random‐effects models and breakpoint analyses on presence/absence data to identify regions of higher than expected species loss along a depth gradient of 1–69 m, based on a meta‐analysis of 26 studies spanning diverse photoautotrophic and heterotrophic taxa. We then investigated the extent to which points of high faunal turnover can be explained by environmental factors, including light, temperature and nutrient availability. Results: We found evidence for a community break, indicated by a significant loss of shallow‐water taxa, at ~ 60 m across several taxonomically and functionally diverse benthic groups and geographical regions. The breakpoint in benthic composition is best explained by decreasing light, which is correlated with the optical depths between 10 and 1% of surface irradiance. A concurrent shift in the availability of nutrients, both dissolved and particulate organic matter, and a shift from photoautotroph to heterotroph‐dominated assemblages also occurs at ~ 60 m depth. Main conclusions: We found evidence for global community breaks across multiple benthic taxa at ~ 60 m depth, indicative of distinct community transitions between shallow and mesophotic coral ecosystems. Changes in the underwater light environment and the availability of trophic resources along the depth gradient are the most parsimonious explanations for the observed patterns. [ABSTRACT FROM AUTHOR]

Aim: Community phylogenetic studies use information about the evolutionary relationships of species to understand the ecological processes of community assembly. A central premise of the field is that the evolution of species maps onto ecological patterns, and phylogeny reveals something more than species traits alone about the ecological mechanisms structuring communities, such as environmental filtering, competition, and facilitation. We argue, therefore, that there is a need for better understanding and modelling of the interaction of phylogeny with species traits and community composition. Innovation: We outline a new approach that identifies clades that are ecophylogenetically clustered or overdispersed and assesses whether those clades have different rates of trait evolution. Ecophylogenetic theory would predict that the traits of clustered or overdispersed clades might have evolved differently, in terms of either tempo (fast or slow) or mode (e.g., under constraint or neutrally). We suggest that modelling the evolution of independent trait data in these clades represents a strong test of whether there is an association between the ecological co‐occurrence patterns of a species and its evolutionary history. Main conclusions: Using an empirical dataset of mammals from around the world, we identify two clades of rodents whose species tend not to co‐occur in the same local assemblages (are phylogenetically overdispersed) and find independent evidence of slower rates of body mass evolution in these clades. Our approach, which assumes nothing about the mode of species trait evolution but instead seeks to explain it using ecological information, presents a new way to examine ecophylogenetic structure. [ABSTRACT FROM AUTHOR]

Aim The number of studies investigating the nestedness and turnover components of beta diversity has increased substantially, but our general understanding of the drivers of turnover and nestedness remains elusive. Here, we examined the effects of species traits, spatial extent, latitude and ecosystem type on the nestedness and turnover components of beta diversity. Location Global. Time period 1968-2017. Major taxa studied From bacteria to mammals. Methods From the 99 studies that partition total beta diversity into its turnover and nestedness components, we assembled 269 and 259 data points for the pairwise and multiple site beta-diversity metrics, respectively. Our data covered a broad variation in species dispersal type, body size and trophic position. The data were from freshwater, marine and terrestrial realms, and encompassed geographical areas from the tropics to near polar regions. We used linear modelling as a meta-regression tool to analyse the data. Results Pairwise turnover, multiple site turnover and total beta diversity all decreased significantly with latitude. In contrast, multiple site nestedness showed a positive relationship with latitude. Beta-diversity components did not generally differ among the realms. The turnover component and total beta diversity increased with spatial extent, whereas nestedness was scale invariant for pairwise metrics. Multiple site beta-diversity components did not vary with spatial extent. Surprisingly, passively dispersed organisms had lower turnover and total beta diversity than flying organisms. Body size showed a relatively weak relationship with beta diversity but had important interactions with trophic position, thus also affecting beta diversity via interactive effects. Producers had significantly higher average pairwise turnover and total beta diversity than carnivores. Main conclusions The present results provide evidence that species turnover, being consistently the larger component of total beta diversity, and nestedness are related to the latitude of the study area and intrinsic organismal features. We showed that two beta-diversity components had generally opposing patterns with regard to latitude. We highlight that beta-diversity partition may give additional insights into the underlying causes of spatial variability in biotic communities compared with total beta diversity alone. [ABSTRACT FROM AUTHOR]

Aim Many hypotheses posit that species-rich tropical communities are dominated by species-species interactions, apparent as competitive exclusion or character displacement, whereas species-poor temperate communities are dominated by species-environment interactions. Recent studies demonstrate a strong influence of macroevolutionary and biogeographical factors. We simultaneously test for the effects of species interactions, climate and biotic interchange on Western Hemisphere mammal communities using a phylogenetic and functional diversity approach. Location Western Hemisphere. Time period Modern. Major taxa studied Mammalia. Methods Using Western Hemisphere mammal distributional and body mass data, we calculate body mass dispersion, phylogenetic diversity (Net Relatedness Index) and assemblage-averaged rates of co-occurrence (Checkerboard scores) in 100 km × 100 km grid cells under an equal area projection. We model body mass dispersion as a function of phylogenetic diversity, co-occurrence rates and species richness, as well as mean annual temperature and precipitation. We infer rates of dispersal among the temperate and tropical zones of the Western Hemisphere using phylogenetic methods. Results The dispersion of northern temperate mammal body masses is higher than null communities and shows correlated change with climate, consistent with resource competition and environmental filtering. Conversely, the dispersions of tropical and southern temperate mammal body masses are lower than and not differentiable from null expectations, respectively, suggesting a limited role of species-species and species-environment interactions at the grain of our analysis. Low tropical body mass dispersion and phylogenetic evenness are best explained by the high rates of faunal mixing. High rates of dispersal might also explain the similarity in community structure between the southern temperate and tropical zones. Main conclusions Mammal community assembly processes differ among the temperate and tropical zones of the Western Hemisphere, and faunal mixture during dispersal events, such as the Great American Biotic Interchange (Pliocene c. 3 Ma), may have been important in structuring Western Hemisphere mammal communities. [ABSTRACT FROM AUTHOR]

Aim Biotic interactions have traditionally been predicted to be stronger towards the tropics. However, all previous studies about the latitudinal gradient in seed predation were either based on single species or compiled data from studies that used different methods in different ecosystems. Our goal was to provide the first broad-scale quantification of the latitudinal gradient in seed predation at both cross-species and within-species levels. Location Twenty-five sites spanning 28° of latitude on the east coast of Australia. Methods Using consistent protocols, we measured pre-dispersal seed predation for 256 species × site combinations (including a total of 170 species) and post-dispersal seed removal for 126 species × site combinations (including a total of 91 species), as well as removal of standard rice grains at each site. The relationships between seed predation and latitude were quantified using generalized mixed-effects models and meta-analyses. Results Contrary to expectations, the proportion of seeds lost to pre-dispersal seed predation increased with latitude at the cross-species level and showed no latitudinal trend at the within-species level. There was no significant relationship between latitude and the proportion of seeds lost to post-dispersal seed removal, either within species or across species. We found significantly higher removal of standard rice grains at lower latitudes, but this trend reversed if we excluded the four island sites from analysis. Main conclusions Seed predation on natural seeds was not higher at lower latitudes. Thus, our study joins a growing body of evidence contrary to the idea that tropical species suffer greater losses to herbivores than do temperate species. The latitudinal gradient in removal rates for standard rice grains suggests that natural seeds from low latitudes may have achieved a similar predation rate to high-latitudinal species through increased investment in defenses. However, additional data will be necessary to test this hypothesis. [ABSTRACT FROM AUTHOR]

Aim Understanding the relative contribution of different species interactions in shaping community assembly has been a pivotal aim in community ecology. Biotic interactions are acknowledged to be important at local scales, although their signal is assumed to weaken over longer distances. We examine the relationship between positive, neutral and negative pairwise bird abundance distributions and the phylogenetic and functional distance between these pairs after first controlling for habitat associations. Location France and Finland. Time period 1984 to 2011 (Finland), 2001 to 2012 (France). Major Taxa studied Birds. Methods We used results from French and Finnish land bird monitoring programmes, from which we created three independent datasets (French forests, French farmlands and Finnish forests). Separately for the three datasets, we fitted linear mixed-effects models for pairwise abundance values across years per point count station to infer the association between all common species pairs, while controlling for geographical distribution and habitat associations, and saved pairwise regression coefficients for further analyses. We used a null model approach to infer whether the observed associations (effect sizes) differ from random. Finally, using quantile regression, we analysed the relationships between functional dissimilarity/phylogenetic distance and effect sizes. Results Our results show both negative and positive species interactions, although negative interactions were twice as common as positive interactions. Closely related species were more likely to show strong associations, both negative and positive, than more distant species across broad spatial scales. For functional dissimilarity, the results varied across datasets. Main conclusions Our results emphasize the potential of functional and phylogenetic proximity in generating both negative and positive species associations, which can produce pervasive patterns from local to geographical scales. Future assembly studies should refrain from strict dichotomies, such as compensatory dynamics versus environmental forcing, and instead consider the possibility of positive interactions. [ABSTRACT FROM AUTHOR]

Aim Many studies postulate that physiological tolerance of climatic variables imposes the primary limit on species geographical distributions, that tolerances are constant through time, that climate has warmed and that geographical distributions shift to maintain species in their thermal niches when climate changes. However, recent studies present evidence that is inconsistent with each of these propositions. Here we ask: how strongly did avian species entire geographical distributions (as opposed to their latitudinal extremes) in North America track temperature changes between 1979 and 2010? Location The continental United States (excluding Alaska) and southern Canada. Methods We examined changes from 1979 to 2010 in the geographical distributions, and the realized temperature niches, of 21 species of passerine birds whose entire breeding ranges fall within the area well sampled by the North American Breeding Bird Survey. We related changes in breeding distributions to the concomitant changes in breeding season temperature. Results The median temperature increased within the breeding ranges of most, but not all, species. Temperature on the coolest 2.5% of routes increased significantly for only 8 of 21 species. Most species' distributions shifted geographically, but the most frequent shift was westward, not northward. Most species' realized temperature niches changed detectably through time, mainly as a result of changing temperature (versus geographical shifts). Where shifts in geographical distribution occurred, in most cases they did not result in smaller changes in species realized temperature niche than species would have experienced by not moving at all. There is little suggestion of a lagged response to climate change. Main conclusions We find only slight evidence that the geographical distributions of North American passeriform birds, considered in their entirety (as opposed to their latitudinal extremes), tracked temperature change. Of the factors that have driven recent shifts in the geographical distributions of North American avian species temperature change is probably only a minor one. [ABSTRACT FROM AUTHOR]

Although the role that Pleistocene glacial cycles have played in shaping the present biota of oceanic islands world-wide has long been recognized, their geographical, biogeographical and ecological implications have not yet been fully incorporated within existing biogeographical models. Here we summarize the different types of impacts that glacial cycles may have had on oceanic islands, including cyclic changes in climate, shifts in marine currents and wind regimes and, especially, cycles of sea level change. The latter have affected geographical parameters such as island area, isolation and elevation. They have also influenced the configurations of archipelagos via island fusion and fission, and cycles of seamount emergence and submergence. We hypothesize that these sea level cycles have had significant impacts on the biogeographical processes shaping oceanic island biotas, influencing the rates and patterns of immigration and extinction and hence species richness. Here we provide a first step toward the development of a glacial-sensitive model of island biogeography, representing the tentative temporal evolution of those biogeographical parameters during the last glacial cycle. From this reasoning we attempt to derive predictions regarding the imprint of sea level cycles on genetic, demographic or biogeographical patterns within remote island biotas. [ABSTRACT FROM AUTHOR]

Aim The processes leading to the assembly of ecological communities can determine their functional structure. We assess the influence of biogeographical correlates associated with species diversity gradients on the global patterns of functional diversity of island parasitoid assemblages ( Hymenoptera, Braconidae). We also evaluate whether island assemblages present a non-random functional structure. Location Fifty-three archipelagos distributed world-wide. Methods Six traits related to morphology, attack strategy and development were used to measure functional diversity and determine the level of departure from randomness on trait diversity between islands and their corresponding species pool, through null models. We used generalized and partial regressions to determine the influence of different predictors (climate, regional and local island characteristics) on the functional diversity of island assemblages, comparing results with those obtained for species richness. We also evaluated whether any of the predictors or particular species traits were related to the patterns obtained when comparing island assemblages with null models. Results Most of the geographical variation in functional diversity was not explained by the predictors evaluated, while for species richness these explained over 70% of spatial variation. The abiotic characteristics of islands with functionally clustered parasitoid biotas (c. 40% of all islands) did not differ from those of other islands. Comparisons between functionally clustered assemblages and those expected randomly from the species pool indicated a higher percentage of that the former included proportionally fewer ectoparasitoid and idiobiont species, which attack fewer host orders and prefer the egg and larval stages of their hosts. Main conclusions The predictors correlated with functional diversity differ from those driving species richness patterns. We argue that biotic filters associated with the structure of the host communities may be important determinants of the assembly of many island parasitoid faunas, leading to assemblages dominated by species presenting particular ranges of trait values that differ from those in their pool of potential colonists. [ABSTRACT FROM AUTHOR]

Aim Phylogenetic endemism ( PE) identifies geographic concentrations of evolutionarily isolated and spatially restricted biota. Locations with high PE hold elements of biodiversity with little representation elsewhere and whose loss would impact disproportionately on phylogenetic diversity. We aim to determine the global distribution of PE for the world's mammals and to test hypotheses regarding the role of past and present environment and isolation in creating current patterns of evolutionary and spatial isolation. Location Global land. Methods IUCN range polygons were combined with a mammal supertree to estimate PE and related measures at three resolutions. We tested the relationship between PE and predictors representing current and Last Glacial Maximum ( LGM) environment and isolation in a model selection framework, for all terrestrial mammals and separately for bats. Results We identified 12 centres of mammal PE, with implications for conservation decisions. Endemism of mammal evolutionary diversity peaks predominantly in tropical and Southern Hemisphere island and montane regions. PE was most strongly associated with energy availability, isolation, elevation and low variability of current climate. Post LGM climate stability was a surprisingly weak predictor of PE compared with LGM climate itself. When controlling for current species ranges, PE is more strongly explained by past climate and past isolation. Main conclusions While present conditions better explain species endemism, past climate and isolation are central to explaining PE. Isolation at the LGM was a significantly stronger predictor of PE than current isolation, confirming the key role of persistent barriers, even narrow ones such as Wallace's Line. This global evaluation of PE offers an innovative and effective way to capture and test the evolutionary underpinning of whole-clade biogeography. With improving spatial and phylogenetic information, integrative measures such as PE offer a substantial contribution toward comprehending and conserving evolutionary diversity. [ABSTRACT FROM AUTHOR]

Aim Habitat loss continues to cause loss of biodiversity. To quantify the effects of land-use change on the diversity and composition of ecological communities - in terms of functional groups - we make modelled estimates of the impact of past and future (to 2050) land-use change on the overall diversity and dietary guild structure of tropical forest bird communities. Location Tropical and subtropical forests (40° S to 40° N). Methods Using a likelihood-based model, we project the impact of land-use intensity on the diversity and functional structure of tropical forest bird communities, including an estimation of uncertainty. To explore the extent to which predicted impacts are determined by the inherent sensitivity of communities because of the traits possessed by the species present, we quantify communities in terms of trait composition and explore relationships between trait composition and diversity/guild loss. Results We estimate that habitat loss has led to an average decrease of 4% in total abundance, but with marked differences across different guilds, leading to substantial changes in community composition: an 11.4% loss of frugivores, 7.8% loss of nectarivores and 7.3% loss of insectivores, and a 4.0% gain of other herbivores. Projected land-use change is predicted to result in average future losses of 1% of total abundance, 1% of each of frugivores, nectarivores and insectivores, but no average change in the abundance of other herbivores. Past and future changes have varied substantially across the biome, owing to variation in land-use change and in the initial trait composition of communities. Main conclusions We predict that marked changes in community structure have occurred in the past and will occur in the future, with disproportionate losses of frugivores, nectarivores and insectivores compared with other species; these species are known to provide important ecosystem services. In the past, South America has been particularly strongly affected, while Southeast Asia will experience the strongest impacts in the future. [ABSTRACT FROM AUTHOR]