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Cardoso, P.

Publications and source records attributed to Cardoso, P..

At least 19 recordsLinked to original sources

Winners and Losers Among European Arthropods over the Last Half Century of Global Change

Widespread concern over arthropod declines has raised questions about how global change is reshaping biodiversity, yet large-scale responses within the group remain poorly understood. Here, we analyse 50 years (1970-2019) of European arthropod occurrence data to quantify distributional changes across more than 700 species within 11 taxonomic groups. Using occupancy-detection models that account for imperfect detection, we compare time-only and environmentally mediated trends, including changes to temperature, precipitation, and agricultural and urban land cover. We find no universal signal of decline; responses are highly heterogeneous, revealing distinct winners and losers both within and among groups. Climate variables, particularly temperature and precipitation, are the strongest predictors of change, while agricultural intensification is broadly negative and urbanisation produces group-specific effects. Trait analyses indicate that warm- and dry-affiliated species and larger-bodied arthropods generally fare better. These results show that recent European arthropod change is dominated by redistribution rather than uniform collapse, with important implications for conservation and monitoring under ongoing global change.

ecology↗

The what, how and why of trait-based analyses in ecology

Functional diversity is increasingly used alongside taxonomic diversity to describe populations and communities in ecology. Indeed, functional diversity metrics allow researchers to summarize complex occupancy patterns in space and/or time (what is changing?) that lead to changes in communities and/or populations (the process; how is it changing?) in response to some stressors (the mechanism; why is it changing?). However, as the diversity of functional diversity metrics and methods increases, it is often not directly clear which metric is more readily appropriate for which question. We studied the ability of different functional diversity metrics to recover patterns and signals from different processes linked to common assembly mechanisms (environmental filtering, competitive exclusion, equalizing fitness, and facilitation) in community ecology. Using both simulated data and an empirical dataset affected by more complex and nuanced mechanisms, we tested the effectiveness of different space occupancy metrics to recover the simulated or empirical changes. We show that different metrics perform better for different tasks, emphasizing the importance of not using a one-size-fits-all metric. Instead, researchers should carefully consider and test whether a particular metric will be effective in capturing a pattern of interest.

ecology↗

Species-associated bacterial diversity increases along a gradient of habitat degradation

Alterations of microbial communities have evident impacts on development, digestion, fecundity, metabolism, immunity, and diverse other biological functions of their hosts. Yet, the factors affecting microbial communities associated with wild species often remain uncharacterized. For example, the impact of the hosts habitat degradation due to anthropogenic activities has received little attention, which contrasts with the large literature showing how such habitat degradation is at least partly responsible for the on-going global patterns of macro-biodiversity erosion. Here, we use metacommunities of herbivorous insect species specialized in feeding on Plantago lanceolata in the fragmented landscape of the [A]land Islands, Finland, as a model system to test whether and how bacterial communities associated with wild species change along a gradient of habitat degradation. We evaluated microbial species diversity and community composition in two sympatric insect species sampled from local meadow habitats with various levels of human disturbance within or around these habitats (e.g. forests, roads, agriculture fields, buildings). Counter to our expectations, we found that bacterial diversity can increase with habitat degradation, with individuals from more degraded habitats hosting more rare bacterial species. In contrast, as the dominant microbial species remain similar across habitats, the community composition and function of the microbiota persist under habitat degradation. In this system, the strength of human activities might induce changes in habitat heterogeneity rather than changes in overall habitat quality, thus allowing local insects to encounter and host more rare microbes rather than trigger local microbial extinction.

microbiology↗

SPECTRE: standardized global spatial data on terrestrial SPECies ThREats

MotivationSPECTRE is an open-source database containing standardised spatial data on global environmental and anthropogenic variables that are potential threats to terrestrial species and ecosystems. Its goal is to allow users to swiftly access spatial data on multiple threats at a resolution of 30 arc-seconds for all terrestrial areas. Following the standard set by Worldclim, this data allows full comparability and ease of use under common statistical frameworks for global change studies, species distribution modelling, threat assessments, quantification of ecosystem services and disturbance, among multiple other uses. A web user interface, a persistent online repository, and an accompanying R package with functions for downloading and manipulating data are provided. Main types of variable containedSPECTRE is a GIS product with 24 geoTiff raster layers (with plans to expand in the near future) with an approximate 1 km2 resolution.

bioinformatics↗

A big and hairy business: Investigating the interplay of species traits and trade dynamics in the tarantula pet market.

Species traits significantly influence pet trade dynamics, affecting demand, exploitation, and extinction risk. We examined the effect of species- and advertisement-level attributes on tarantula abundance and price in online markets, exploring rarely-considered fine-scale traits. Data from 977 ads showing 217 species and 81 trade names were collected from eight e-commerce websites located in six countries and analyzed using Structural Equation Models. Hairy, aggressive, and popular tarantulas were more abundant in commerce. Big, recently described species with ontogenetic changes in color and urticating hairs, with no evidence of captive breeding, had higher average price. Variability of prices in the ads were mainly explained by differences in website, lifestage and sex of the individual advertised. After accounting for these drivers of market abundance and price, we found only weak evidence of direct price-rarity relationships, implying they are largely independently determined. This can have important implications for the future management and regulation of the international tarantula trade. Understanding consumer behavior in the pet trade is crucial for effective conservation efforts and we recommend using online ad data to track and understand supply and demand in tarantula trade. Leveraging marketing insights can enhance conservationists influence on consumers, promoting sustainable practices and benefit sharing for wildlife-dependent communities. Hobbyist communities may be the most strategic messenger for conservation messaging trying to reach consumers in the tarantula pet trade. Article impact statementTarantula price and abundance in pet trade are shaped by species traits and advertisement attributes.

ecology↗

Modelling the probability of meeting IUCN Red List criteria to support reassessments.

Comparative extinction risk analysis - which predicts species extinction risk from correlation with traits or geographical characteristics - has gained research attention as a promising tool to support extinction risk assessment in the IUCN Red List of Threatened Species. However, its uptake has been very limited so far, possibly because these models only predict a species Red List category, without indicating which Red List criteria may be triggered by which such approaches cannot easily be used in Red List assessments. We overcome this implementation gap by developing models that predict the probability of species meeting individual Red List criteria. Using data on the worlds birds, we evaluated the predictive performance of our criterion-specific models and compared it with the typical criterion-blind modelling approach. We compiled data on biological traits (e.g., range size, clutch size) and external drivers (e.g., change in canopy cover) often associated with extinction risk. For each specific criterion, we modelled the relationship between extinction risk predictors and species Red List category under that criterion using ordinal regression models. We found criterion-specific models were better at predicting threatened species compared to a criterion-blind model (higher sensitivity), but less good at predicting not threatened species (lower specificity). As expected, different covariates were important for predicting threat status under different criteria, for example change in annual temperature was important to predict criteria related to population trends, while clutch size was important for criteria related to restricted area of occupancy or small population size. Our criteria-specific method can support Red List assessors by producing outputs that identify species likely to meet specific criteria, and which are the most important predictors: these species can be prioritised for re-evaluation. We expect this new approach to increase the uptake of extinction risk models in Red List assessments, bridging a long-standing research-implementation gap.

ecology↗

Drivers of species knowledge across the Tree of Life

Knowledge of biodiversity is unevenly distributed across the Tree of Life. In the long run, such disparity in awareness unbalances our understanding of life on Earth, influencing policy decisions and the allocation of research and conservation funding. We investigated how humans accumulate knowledge of biodiversity by searching for consistent relationships between scientific (number of publications) and societal (number of views in Wikipedia) interest, and species-level morphological, ecological and socio-cultural factors. Across a random selection of 3,019 species spanning 29 Phyla/Divisions, we show that socio-cultural factors are the most important correlates of scientific and societal interest in biodiversity, including the fact that a species is useful or harmful to humans, has a common name and is listed in the IUCN Red List. Furthermore, large-bodied, broadly distributed and taxonomically unique species receive more scientific and societal attention, whereas colorfulness and phylogenetic proximity to humans correlates exclusively with societal attention. These results highlight a favoritism towards limited branches of the Tree of Life, and that scientific and societal priorities in biodiversity research broadly align. This suggests that we may be missing out on key species in our research and conservation agenda simply because they are not on our cultural radar.

ecology↗

Functional convergence underground? The scale-dependency of community assembly processes in European cave spiders

Understanding how species assemble into communities is a central tenet in ecology. One of the most elusive questions is the relative contribution of environmental filtering versus limiting similarity. Important advances in this area have been achieved by looking at communities through a functional lens (i.e., the traits they express), so as to derive principles valid across species pools. Yet, even using traits in lieu of taxonomy, the issue remains controversial because i) environmental filtering and limiting similarity often act simultaneously in shaping communities; and ii) their effect is scale-dependent. We exploited the experimental arena offered by caves, island-like natural laboratories characterized by largely constant environmental gradients and a limited diversity of species and interactions. Leveraging uniquely available data on distribution and traits for European cave spiders, we tested explicit hypotheses about variations in community assembly rules across ecological gradients and scales. We demonstrate that environmental filtering and limiting similarity shape cave communities acting on trait evolution in opposing directions. These effects are strongly scale dependent, varying along multiple environmental gradients. Conversely, the effect of geography on trait composition is weak, indicating that trait turnover in space happens primarily by substitution of species pursuing similar functions due to strong environmental filters. Our findings reconcile contrasted views about the relative importance of the two main mechanisms shaping patterns of biodiversity, and provide a conceptual foundation to account for scaling effects in the study of community assembly.

ecology↗

An expert-based global assessment of threats and conservation measures for subterranean ecosystems

Subterranean ecosystems host unique biodiversity and deliver important services to humans. Yet, available data for subterranean ecosystems are limited in space and/or taxonomic scope and global monitoring programs are absent, preventing practitioners to develop effective conservation and management strategies. Expert opinion may help overcome some of these knowledge gaps. We designed a global survey to quantify the importance of anthropogenic impacts and conservation measures for subterranean ecosystems. We obtained 279 responses from 155 experts in different subterranean habitats, taxa, and regions. Experts perceived surface habitat change, direct habitat destruction (e.g., pollution, damming, mining), and climate change as the most relevant threats impacting subterranean ecosystems. Legislation, land protection, and education were scored as the most effective conservation measures, whereas species-level conservation was deemed less relevant. Whenever lacking hard data, expert opinion may be an effective, largely available, yet often overlooked source of information to implement timely conservation interventions for subterranean ecosystems.

ecology↗

Calculating functional diversity metrics using neighbor-joining trees

O_LIThe study of functional diversity (FD) provides ways to understand phenomena as complex as community assembly or the dynamics of biodiversity change under multiple pressures. Different frameworks are used to quantify FD, either based on dissimilarity matrices (e.g., Rao entropy, functional dendrograms) or multidimensional spaces (e.g. convex hulls, kernel-density hypervolumes). While the first does not enable the measurement of FD within a richness/divergence/regularity framework, or results in the distortion of the functional space, the latter does not allow for comparisons with phylogenetic diversity (PD) measures and can be extremely sensitive to outliers. C_LIO_LIWe propose the use of neighbor-joining trees (NJ) to represent and quantify functional diversity in a way that combines the strengths of current FD frameworks without many of their weaknesses. Our proposal is also uniquely suited for studies that compare FD with PD, as both share the use of trees (NJ or others) and the same mathematical principles. C_LIO_LIWe test the ability of this novel framework to represent the initial functional distances between species with minimal functional space distortion and sensitivity to outliers. The results using NJ are compared with conventional functional dendrograms, convex hulls, and kernel-density hypervolumes using both simulated and empirical datasets. C_LIO_LIUsing NJ we demonstrate that it is possible to combine much of the flexibility provided by multidimensional spaces with the simplicity of tree-based representations. Moreover, the method is directly comparable with PD measures, and enables quantification of the richness, divergence and regularity of the functional space. C_LI

ecology↗

Accuracy of non-parametric species richness estimators across taxa and regions

O_LINon-parametric species richness estimators are efficient and widely used when sampling is incomplete. There is little consensus on which of the available estimators works best across taxa and regions. Until now no work compared existing algorithms with multiple datasets encompassing contrasting scenarios. C_LIO_LIWe used data from 62 inventories worldwide at different spatial scales, including 20 vertebrate, 22 invertebrate and 20 plant datasets, and compared the accuracy of the most used non-parametric estimators (Chao and Jackknife) and improvements to their original formulations. C_LIO_LIOur results highlight the good performance of the Jackknife estimators for incidence data, especially the P-corrected first order jackknife estimator (Jack1inP). This algorithm ranked most often the best or among the best performing estimators using two measures of accuracy that measure deviation from expectation along the accumulation curve. C_LIO_LIWe argue that Jack1inP can be considered a universal estimator for species richness, regardless of taxon, temporal and spatial scales, or completeness of the sampling. More research should however be directed towards finding the precise contexts when each estimator might perform best. C_LI

ecology↗

The influence of biotic and abiotic drivers on arthropod co-occurrence network topology in native forest remnants in the Azores

Island biota are in imminent threat from anthropogenic impacts. Of these impacts the negative effects of exotic species on the taxonomic and functional diversity of the local fauna are of particularly major concern. Aside from their impact on the diversity of native fauna, exotics may also have a detrimental effect on native interactions which, in turn, can destabilise ecological networks. Species co-occurrence networks are used to predict ecological interaction networks and utilised as tools to assess environmental impacts on community structure. Here, we investigate the topological differences of the arthropod co-occurrence networks among native forest fragments from seven Azorean islands and reveal the influence of the abiotic environment and exotic species on these networks. We found that co-occurrence networks were sensitive to environmental and community dissimilarities, showing a clear separation between islands and pinpointed differences between indigenous and exotic networks. Most exotics are little connected and exotic networks have a large proportion of unconnected species. The resulting decreased connectance and the increased modularity with the increase of the proportions of exotics in the networks suggests that most exotics have too low prevalence to show associations with other species, and only a few dominants drive co-occurrences. Moreover, the proportion of negative links, as indicators of competition, did not increase with the increase of exotics in the habitats, suggesting that exotics occupied empty niches when they colonised native forest remnants. However, when the theoretical networks consisting of only indigenous species were investigated both the number of negative associations and modularity increased with the increase of exotics, suggesting obscure competition and processes of network degradation. Since our study provides ample evidence for the usefulness of co-occurrence network analysis in studying island ecosystems, we recommend the use of this tool for ecosystem assessments, early warning systems and decision making in island biodiversity conservation. Significance statementGlobal anthropogenic biodiversity decline affects islands to a disproportionately greater extent than other ecosystems. One major cause of declining island biodiversity is the spread of exotic species which may overcompete and replace native biota. In this study, we show, by using arthropod species co-occurrence networks from the Azorean archipelago, that species association patterns reflect both abiotic and biotic impacts and that the increasing proportion of exotics in an ecosystem seemingly has little impact on association networks at large. However, when the effects on the association network of solely indigenous species were scrutinised, signs of network degradation were observed, suggesting an obscure, and most likely slow, negative impact of exotics on native arthropod assemblages. This disintegration of the co-occurrence networks can be the first sign of disappearing interaction links which, in turn, may jeopardise ecosystem function and can lead to regime shifts. In this work, we used a unique long-term dataset collected across the islands of the Azorean archipelago with standardised methodology. We built on the deep knowledge gathered over two decades on the ecology of species, as well as on the ongoing processes shaping the islands arthropod fauna, yet took a novel methodological approach and disentangled hidden ecological processes of great ecological and conservation concern.

ecology↗

Combined effects of bird extinctions and introductions in oceanic islands: decreased functional diversity despite increased species richness

AimWe analyse the functional consequences of the changes in species composition resulting from extinctions and introductions on oceanic island bird assemblages. Specifically, we ask if introduced species have compensated the functional loss resulting from species extinctions. LocationSeventy-four oceanic islands (>100 km2) in the Atlantic, Pacific and Indian Oceans. Time periodLate Holocene. Major taxa studiedTerrestrial and freshwater bird species. MethodsWe compiled a species list per island (extinct and extant, native and introduced), and then compiled traits per species. We used single-trait analyses to assess the effects of past species extinctions and introductions on functional composition. Then, we used probabilistic hypervolumes in trait space to calculate functional richness and evenness of original versus present avifaunas of each island (and net change), and to estimate functional originality of extinct and introduced species. ResultsThe net effects of extinctions and introductions were: an increase in average species richness per island (alpha diversity), yet a decline in diversity across all islands (gamma diversity); an average increase in the prevalence of most functional traits (23 out of 35) yet an average decline functional richness and evenness, associated with the fact that extinct species were functionally more original (when compared to extant natives) than introduced species. Main conclusionsIntroduced species are on average offsetting (and even surpassing) the losses of extinct species per island in terms of species richness, and they are increasing the prevalence of most functional traits. However, they are not compensating the loss of functional richness due to extinctions. Current island bird assemblages are becoming functionally poorer, having lost original species and being composed of functionally more homogeneous species. This is likely to have cascading repercussions on the functioning of island ecosystems.

ecology↗

arakno - An R package for effective spider nomenclature, distribution and trait data retrieval from online resources

Online open databases are increasing in number, usefulness, and ease of use. There are currently two main global databases exclusive for spiders, the World Spider Catalogue (WSC) and the World Spider Trait (WST) database. Both are regularly used by thousands of researchers. Computational tools that allow effective processing of large data are now part of the workflow of any researcher and R is becoming a de facto standard for data manipulation, analysis, and presentation. Here we present an R package, arakno, that allows interface with the two databases. Implemented tools include checking species names against nomenclature of the WSC, obtaining and mapping data on distribution of species from both WST and the Global Biodiversity Information Facility (GBIF), and downloading trait data from the WST. A set of tools are also provided to prepare data for further statistical analysis.

zoology↗

Distance decay 2.0 - a global synthesis of taxonomic and functional turnover in ecological communities.

Understanding the variation in community composition and species abundances, i.e., {beta}-diversity, is at the heart of community ecology. A common approach to examine {beta}-diversity is to evaluate directional turnover in community composition by measuring the decay in the similarity among pairs of communities along spatial or environmental distances. We provide the first global synthesis of taxonomic and functional distance decay along spatial and environmental distance by analysing 149 datasets comprising different types of organisms and environments. We modelled an exponential distance decay for each dataset using generalized linear models and extracted r2 and slope to analyse the strength and the rate of the decay. We studied whether taxonomic or functional similarity has stronger decay across the spatial and environmental distances. We also unveiled the factors driving the rate of decay across the datasets, including latitude, spatial extent, realm, and organismal features. Taxonomic distance decay was stronger along spatial and environmental distances compared with functional distance decay. The rate of taxonomic spatial distance decay was the fastest in the datasets from mid-latitudes while the rate of functional decay increased with latitude. Overall, datasets covering larger spatial extents showed a lower rate of decay along spatial distances but a higher rate of decay along environmental distances. Marine ecosystems had the slowest rate of decay. This synthesis is an important step towards a more holistic understanding of patterns and drivers of taxonomic and functional {beta}-diversity.

ecology↗

Biological traits and threats interact to drive extinctions in a simulation study

How a particular threat influences extinction risk may depend on biological traits. Empirical studies relating threats and traits are needed, but data are scarce, making simulations useful. We implemented an eco-evolutionary model to analyse how five threat types influence the extinction risk of virtual organisms differing in body size, maturity age, fecundity, and dispersal ability. Results show that direct killing mostly affected slow-living and low dispersal organisms. Habitat loss and fragmentation both affected larger and less fecund organisms, but drove contrasting responses according to dispersal ability. Habitat degradation and the introduction of invasive competitors had similar effects, mostly affecting large, fast-living, and highly fecund organisms. Many of the reported results confirm previous studies, while others were never tested, creating new hypotheses for future empirical work. Statement of authorshipFC, LC and PC designed the study, FC implemented the model and ran the statistical analyses. FC and PC wrote the first draft, and all authors contributed substantially to further revisions.

ecology↗

Insect threats and conservation through the lens of global experts

While many recent studies have focused on global insect population trends, all are limited either in space or taxonomic scope. Since global monitoring programs for insects are not implemented, biased data are therefore the norm. However, expert opinion is both valuable and widely available, and should be fully exploited when hard data are not available. Our aim is to use global expert opinion to provide insights on the root causes of potential insect declines worldwide, as well as on effective conservation strategies that could mitigate insect biodiversity loss. We obtained 753 responses from 413 respondents with a wide variety of expertise. The most relevant threats identified through the survey were agriculture and climate change, followed by pollution, while land management and land protection were recognized as the most significant conservation measures. Nevertheless, there were differences across regions and insect groups, reflecting the variability within the most diverse class of living organisms on our planet. Lack of answers for certain biogeographic regions or taxa also reflects the need for research, particularly in less investigated settings. Our results provide a first step towards understanding global threats and conservation measures for insects.

ecology↗

Towards a taxonomically unbiased EU Biodiversity Strategy for 2030

Through the Habitats Directive (92/43/EEC) and the LIFE projects financial investments, Europe has been the world’s experimental arena for biological conservation. With an estimated budget of €20 billion/year, the EU Biodiversity Strategy for 2030 has set an ambitious goal of reaching 30% Protected Areas and ensure no deterioration in conservation trends and status of all protected species. We analyzed LIFE projects focused on animals from 1992 to 2018 and we found that investment towards vertebrates has been six times higher than that for invertebrates (€970 vs €150 million), with birds and mammals alone accounting for 72% species and 75% total budget. Budget allocation is primarily explained by species’ popularity. We propose a roadmap to achieve unbiased conservation targets for 2030 and beyond.Competing Interest StatementThe authors have declared no competing interest.View Full Text

ecology↗