Turnover In Composition Research Articles

Differences in trait–environment relationships: Implications for community weighted means tests

Abstract One of J.P. Grime's greatest achievements was demonstrating the importance of the relationship between the environment and plant functional traits for understanding community assembly processes and the effects of biodiversity on ecosystem functioning. A popular approach assessing trait–environment relationships is the community weighted means (CWMs) method, which evaluates changes in communities' average trait values along gradients, with Grime being among its first practitioners. Today the CWM method is well‐established but some scholars have criticized it for inflated Type I errors. That is, in some scenarios of compositional turnover along a gradient, CWM tests can provide significant results even for randomly generated traits. Null models have been proposed to correct for such effects by randomizing trait values across species (CWM‐sp). We review different approaches relating traits to the environment within the framework of the accepted dichotomy between species‐level (observations are species) versus community‐level (observations are community parameters) analyses. Between these families of analyses and their combinations, a great variety of methods exist that test different trait–environment relationships, each with different null hypotheses and ecological questions. In classic CWM tests, the null hypothesis focuses on characteristics of trait distributions at the community level along gradients. The Type I error rate should not be a priori considered inflated when this test is used to identify changes in community trait structure affecting the functioning of communities. Trait changes observed with CWM tests may be accurate, but the interpretation that a specific trait drives turnover may be fallacious. Approaches like CWM‐sp may be more appropriate for testing other ecological hypotheses, such as whether trait–environment relationships are widespread across species. In effect, this moves the ecological focus towards species‐level analyses, that is on the adaptive value of traits and their relation to species niches. Synthesis. There is no single trait–environment relationship. Species‐level and community‐level analyses, including variants within them, test different relationships with different null hypotheses, such that the potential for inflated error rates can be misleading. Using a spectrum of methods provides a comprehensive picture of the diversity of trait–environment relationships.

Soil Micro-eukaryotic Diversity Patterns Along Elevation Gradient Are Best Estimated by Increasing the Number of Elevation Steps Rather than Within Elevation Band Replication.

The development of high-throughput sequencing (HTS) of environmental DNA (eDNA) has stimulated the study of soil microbial diversity patterns and drivers at all scales. However, given the heterogeneity of soils, a challenge is to define effective and efficient sampling protocols that allow sound comparison with other records, especially vegetation. In studies of elevational diversity pattern, a trade-off is choosing between replication within elevation bands vs. sampling more elevation bands. We addressed this question for soil protists along an elevation gradient on Mt. Asahi, Hokkaido, Japan. We compared two sampling approaches: (1) the replicate strategy (five replicates at six elevational bands, total = 30) and (2) the transect strategy (one sample in each of 16 different elevational bands). Despite a nearly twofold lower sampling effort, the transect strategy yielded congruent results compared to the replicate strategy for the estimation of elevational alpha diversity pattern: the regression coefficients between diversity indices and elevation did not differ between the two options. Furthermore, for a given total number of samples, gamma diversity estimated across the entire transect was higher when sampling more elevational bands as compared to replication from fewer elevational bands. Beta diversity (community composition turnover) was lower within a given elevational band than between adjacent bands and increased with elevation distance. In redundancy analyses, soil organic matter-related variable (the first principal component of soil organic matter, water content, total organic carbon, and nitrogen by whom were highly correlated) and elevation best explained elevational beta diversity pattern for both sampling approaches. Taken together, our results suggest that sampling a single plot per elevation band will be sufficient to obtain a good estimate of soil micro-eukaryotic diversity patterns along elevation gradients. This study demonstrated the effectiveness of the transect strategy in estimating diversity patterns along elevation gradients which is instructive for future environmental or even experimental studies. While not advocating for completely replacing replication-based sampling practices, it is important to note that both replicate and transect strategies have their merits and can be employed based on specific research goals and resource limitations.

Sustained mangrove reproduction despite major turnover in pollinator community composition at expanding range edge.

How well plants reproduce near their geographic range edge can determine whether distributions will shift in response to changing climate. Reproduction at the range edge can be limiting if pollinator scarcity leads to pollen limitation, or if abiotic stressors affect allocation to reproduction. For many animal-pollinated plants with expanding ranges, the mechanisms by which they have overcome these barriers are poorly understood. In this study, we examined plant-pollinator interactions hypothesized to impact reproduction of the black mangrove, Avicennia germinans, which is expanding northward in coastal Florida, USA. We monitored insects visiting A. germinans populations varying in proximity to the geographic range edge, measured the pollen loads of the most common insect taxa and pollen receipt by A. germinans stigmas, and quantified flower and propagule production. We found that despite an 84 % decline in median floral visits by insects at northernmost versus southernmost sites, range-edge pollen receipt remained high. Notably, local floral visitor assemblages exhibited substantial turnover along the study's latitudinal gradient, with large-bodied bees and hover flies increasingly common at northern sites. We also observed elevated flower production in northern populations and higher per capita reproductive output at the range edge. Furthermore, mean propagule mass in northern populations was 18 % larger than that from the southernmost populations. These findings reveal no erosion of fecundity in A. germinans populations at range limits, allowing rapid expansion of mangrove cover in the region. These results also illustrate that substantial turnover in the assemblage of flower-visiting insects can occur at an expanding range edge without altering pollen receipt.

Control of diatom and chrysophyte cyst dynamics by a meteorologically driven mixing regime in eutrophic Lake Żabińskie, northern Poland

Abstract Ongoing climate warming has strong moderating control over aquatic processes, such as ice cover duration, length of the growing season, vertical mixing patterns, thermal stratification, and the availability of light and nutrients. These fundamental mechanisms in turn influence the population dynamics of aquatic organisms such as diatoms and chrysophytes. In our study, over 3.5 years with contrasting meteorological conditions, we investigated eutrophic Lake Żabińskie located in northeast Poland. By combining observational data of meteorological conditions, physicochemical variables measured in the water column, and modern sedimentation, we sought to explain the relationships between changes in meteorological conditions, dynamics of total fluxes and the taxonomic composition of diatoms and chrysophyte cysts. Our results show the direct influence of meteorological conditions on physicochemical conditions and their indirect influence on total diatom and chrysophyte cyst fluxes and taxonomic succession. The former refers to the importance of air temperature and wind speed in shaping the mixing regime of Lake Żabińskie, while the latter refers to the nutrient cycling driven by changes in the mixing regime, which in turn influences the formation of biotic signals in the sediment. Our study also revealed that the biotic response to unusual meteorological conditions that occurred in 2020 (i.e., warm winter without ice cover) differed from typical years in terms of the phenology of diatom and chrysophyte cyst blooms. However, this response was not as pronounced as in lakes with lower productivity and can be attributed to the already turbid conditions and high nutrient concentrations, which alter the threshold for noticeable changes to occur. The taxonomic composition of diatoms and chrysophyte cysts also changed in response to changes in meteorological conditions. Complex interactions between physical and chemical conditions masked the direct influences of meteorological conditions on lake biota under eutrophic conditions. Nevertheless, high‐resolution monitoring enabled indirect links to be recognised. Both phenology and turnover in community composition responded to changes in meteorological conditions. These results show how ongoing climate change might affect biota in eutrophic lakes in the future.

Hydrogels to Recapture Extracellular Matrix Cues That Regulate Vascularization.

The ECM (extracellular matrix) is a 3-dimensional network that supports cellular responses and maintains structural tissue integrity in healthy and pathological conditions. The interactions between ECM and cells trigger signaling cascades that lead to phenotypic changes and structural and compositional turnover of the ECM, which in turn regulates vascular cell behavior. Hydrogel biomaterials are a powerful platform for basic and translational studies and clinical applications due to their high swelling capacity and exceptional versatility in compositions and properties. This review highlights recent developments and uses of engineered natural hydrogel platforms that mimic the ECM and present defined biochemical and mechanical cues for vascularization. Specifically, we focus on modulating vascular cell stimulation and cell-ECM/cell-cell interactions in the microvasculature that are the established biomimetic microenvironment.

Biodiversity time series are biased towards increasing species richness in changing environments

The discrepancy between global loss and local constant species richness has led to debates over data quality, systematic biases in monitoring programmes and the adequacy of species richness to capture changes in biodiversity. We show that, more fundamentally, null expectations of stable richness can be wrong, despite independent yet equal colonization and extinction. We analysed fish and bird time series and found an overall richness increase. This increase reflects a systematic bias towards an earlier detection of colonizations than extinctions. To understand how much this bias influences richness trends, we simulated time series using a neutral model controlling for equilibrium richness and temporal autocorrelation (that is, no trend expected). These simulated time series showed significant changes in richness, highlighting the effect of temporal autocorrelation on the expected baseline for species richness changes. The finite nature of time series, the long persistence of declining populations and the potential strong dispersal limitation probably lead to richness changes when changing conditions promote compositional turnover. Temporal analyses of richness should incorporate this bias by considering appropriate neutral baselines for richness changes. Absence of richness trends over time, as previously reported, can actually reflect a negative deviation from the positive biodiversity trend expected by default.

Neutral‐based processes overrule niche‐based processes in shaping tropical montane orchid communities across spatial scales

Abstract Tropical montane forests (TMF) are characterised by high endemism, species richness and turnover across elevations. A key question is how niche‐based processes, via adaptation of species to local environmental conditions, and neutral‐based processes from dispersal limitation shape community composition at different spatial scales across human‐modified landscapes. We expect that (1) communities are highly distinct even within the same habitat type and (2) niche‐based processes play the main role in compositional turnover. To address these expectations, we investigated the compositional turnover of orchids, one of the most prominent floristic elements of TMFs. We sampled orchids in 332 plots spanning over 270 km in the eastern Colombian Andes. Plots ranged between elevations of 1160–3750 m. We used two different spatial extents (whole gradient and two elevational bands), two grains of analysis for the first expectation (regional and local) and two spatial grains for the second expectation (broad and fine scales based on Moran's Eigenvector Maps [MEMs]). We found 331 orchid species in 171 (51%) plots. We found a strong pattern of high compositional turnover across scales (>72% of total beta diversity is given by species turnover), with 87.5% of the total species pool occurring in fewer than five plots, supporting our first expectation. Contrary to our second expectation, we found that community composition is mainly driven by geographical distance, while the relative influence of elevation, environmental variables and their combined fractions were negligible across habitats and spatial scales, rejecting niche‐based processes. Synthesis. High compositional turnover, even across habitats with the highest degree of human intervention, suggests that both forest‐dwelling and open‐habitat species do not easily disperse across habitats. Species dispersal is the major force of orchid community turnover and might be strongly dependent upon macroevolutionary processes and species life‐history traits over multiple scales. Dispersal limitation also draws attention to the importance of preserving habitat connectivity to halt biodiversity losses.

Thresholds and tipping points are tempting but not necessarily suitable concepts to address anthropogenic biodiversity change—an intervention

Thresholds and tipping points are frequently used concepts to address the risks of global change pressures and their mitigation. It is tempting to also consider them to understand biodiversity change and design measures to ensure biotic integrity. Here, we argue that thresholds and tipping points do not work well in the context of biodiversity change for conceptual, ethical, and empirical reasons. Defining a threshold for biodiversity change (a maximum tolerable degree of turnover or loss) neglects that ecosystem multifunctionality often relies on the complete entangled web of species interactions and invokes the ethical issue of declaring some biodiversity dispensable. Alternatively defining a threshold for pressures on biodiversity might seem more straightforward as it addresses the causes of biodiversity change. However, most biodiversity change appears to be gradual and accumulating over time rather than reflecting a disproportionate change when transgressing a pressure threshold. Moreover, biodiversity change is not in synchrony with environmental change, but massively delayed through inertia inflicted by population dynamics and demography. In consequence, formulating environmental management targets as preventing the transgression of thresholds is less useful in the context of biodiversity change, as such thresholds neither capture how biodiversity responds to anthropogenic pressures nor how it links to ecosystem functioning. Instead, addressing biodiversity change requires reflecting the spatiotemporal complexity of altered local community dynamics and temporal turnover in composition leading to shifts in distributional ranges and species interactions.

Groundfish biodiversity change in northeastern Pacific waters under projected warming and deoxygenation.

In the coming decades, warming and deoxygenation of marine waters are anticipated to result in shifts in the distribution and abundance of fishes, with consequences for the diversity and composition of fish communities. Here, we combine fisheries-independent trawl survey data spanning the west coast of the USA and Canada with high-resolution regional ocean models to make projections of how 34 groundfish species will be impacted by changes in temperature and oxygen in British Columbia (BC) and Washington. In this region, species that are projected to decrease in occurrence are roughly balanced by those that are projected to increase, resulting in considerable compositional turnover. Many, but not all, species are projected to shift to deeper depths as conditions warm, but low oxygen will limit how deep they can go. Thus, biodiversity will likely decrease in the shallowest waters (less than 100 m), where warming will be greatest, increase at mid-depths (100-600 m) as shallow species shift deeper, and decrease at depths where oxygen is limited (greater than 600 m). These results highlight the critical importance of accounting for the joint role of temperature, oxygen and depth when projecting the impacts of climate change on marine biodiversity. This article is part of the theme issue 'Detecting and attributing the causes of biodiversity change: needs, gaps and solutions'.

A framework for the detection and attribution of biodiversity change.

The causes of biodiversity change are of great scientific interest and central to policy efforts aimed at meeting biodiversity targets. Changes in species diversity and high rates of compositional turnover have been reported worldwide. In many cases, trends in biodiversity are detected, but these trends are rarely causally attributed to possible drivers. A formal framework and guidelines for the detection and attribution of biodiversity change is needed. We propose an inferential framework to guide detection and attribution analyses, which identifies five steps-causal modelling, observation, estimation, detection and attribution-for robust attribution. This workflow provides evidence of biodiversity change in relation to hypothesized impacts of multiple potential drivers and can eliminate putative drivers from contention. The framework encourages a formal and reproducible statement of confidence about the role of drivers after robust methods for trend detection and attribution have been deployed. Confidence in trend attribution requires that data and analyses used in all steps of the framework follow best practices reducing uncertainty at each step. We illustrate these steps with examples. This framework could strengthen the bridge between biodiversity science and policy and support effective actions to halt biodiversity loss and the impacts this has on ecosystems. This article is part of the theme issue 'Detecting and attributing the causes of biodiversity change: needs, gaps and solutions'.

Ground-dwelling arthropods as biodiversity indicators in maize agroecosystems of Northern Italy

Reliable monitoring of arthropod diversity in a given agroecosystem is essential for the conservation of the related ecosystem services, such as biological control. The often daunting complexity of arthropod collection and identification, however, highlights the need for surrogate taxa that can be easily sampled and be representative of a number of other taxa in term of diversity, general community features and specific composition.In this study, we used pitfall traps to sample three ground-dwelling arthropod taxa important as biocontrol agents (ground beetles, rove beetles and spiders) in 9 conventionally managed maize agroecosystems of Northern Italy over the course of two years, with the goal of characterizing their assemblages and evaluating their reciprocal potential as indicators of activity density, species richness, community turnover and species co-occurrence.Although dominated by few generalist species, sampled arthropod communities were relatively species-rich, and included the first Italian record of the spider Zelotes metellus (Roewer) (Araneae: Gnaphosidae). Ground beetles as a group were confirmed as promising indicators for the species richness and community composition turnover of rove beetles and spiders. Additionally, several abundant arthropod species acted as indicators of the species richness of their respective groups, and the ground beetle Pterostichus macer (Marsham) also worked as an indicator of overall rove beetle activity density. While the co-occurrence of individual arthropod species was limited for the studied taxa, a few species such as the ground beetle Parophonus maculicornis (Duftschmid) did show promise as species-specific bioindicators. Our results could be useful in improving the monitoring and management of these important natural enemies in maize-growing regions.

Structural changes and carbon reduction due to habitat loss in Atlantic Forest

Habitat loss is a significant threat to biodiversity in tropical forests, leading to changes in composition, structure, and function. In this study, we aimed to evaluate the influence of the forest amount at the landscape scale on the structure and the stored carbon of tree communities. Eleven landscape samples of 36 km2 (6 × 6 km), with different amounts of forest cover at the landscape scale (between 5 and 60%), were randomly selected within a wide latitudinal range of Atlantic Forests in Brazil. We also used a sample design to control and avoid some biases in landscape-scale studies during the landscape selection, such as the rescue effect from the surrounding landscapes, differences in matrix permeability in each landscape, and the control for the same vegetation type or successional stage. In each selected landscape, we surveyed all woody individuals with a diameter at breast height (DBH) ≥ 2.5 cm in eight plots of 250 m2, randomly placed in the landscape’s forested areas. The structural variables evaluated were: total abundance, the abundance of prominent families, the abundance of large trees (DBH ≥ 30 cm), mean DBH, and average height, besides carbon storage. From the set of 8,179 individuals, we observed a positive correlation between forest amount and the total abundance, the abundance of large trees, and carbon stock. The abundance of the prominent hardwood tree families were positively correlated with forest amount. When comparing the two landscapes with the lowest proportion of habitats (5–15%) and the highest proportion (55−60%), almost one thousand trees and more than 150 T of carbon per hectare are lost. This reduction in the overall abundance and carbon indicates no compensatory effects on the tree community due to a turnover in composition or substitution of large trees for smaller ones. The Atlantic Forest is undergoing a process of homogenization and functional collapse, derived directly or indirectly from habitat loss, leading to a possible regime shift.

Exploring spatio-temporal patterns of palynological changes in Asia during the Holocene

Historical legacies influence present-day ecosystem composition and dynamics. It is therefore important to understand the long-term dynamics of ecosystems and their properties. Analysis of ecosystem properties during the Holocene using fossil pollen assemblages provides valuable insights into past ecosystem dynamics by summarising so-called pollen-assemblage properties (PAPs). Using 205 fossil pollen data-sets (records), we quantify eight PAPs [pollen-taxonomic richness, diversity, evenness, pollen-compositional turnover, pollen-compositional change, and rate of pollen-compositional change (RoC)] for the Asian continent at different spatial scales (in individual records, within and across climate-zones, and within the continent) and time (temporal patterns over the past 12,000 years). Regression tree (RT) partitioning of the PAP-estimates using sample-age as a sole predictor revealed the “change-point(s)” (time or sample-age of major change in a PAP). We estimated the density of RT and multivariate regression tree (MRT) change-points in 1,000-year time bins during the Holocene. Pollen-compositional turnover (range of sample scores along the first DCCA axis) and change (number of MRT partitions) in each record reveal gradual spatial variation across latitude and a decline with longitude eastward. Temporally, compositional turnover declines linearly throughout the Holocene at all spatial scales. Other PAPs are heterogeneous across and within spatial scales, being more detectable at coarser scales. RT and MRT change-point density is broadly consistent in climate-zones and the continent, increasing from the early- to mid-Holocene, and mostly decrease from the mid-Holocene to the present for all PAPs. The heterogenous patterns in PAPs across the scales of study most likely reflect responses to variations in regional environmental conditions, anthropogenic land-use, and their interactions over space and time. Patterns at the climate-zone and continental scales indicate a gradual but congruent decline in major PAPs such as compositional turnover, rate of compositional change, and major temporal compositional changes (MRT) during the Holocene, especially during recent millennia, suggesting that vegetation in Asia has become progressively more homogenous. Data properties (e.g., spatial distribution of the records, distribution of samples within the records, and data-standardisation and analytical approaches) may also have partly influenced the results. It is critically important to evaluate the data properties and the approaches to data standardisation and summarisation.

Niche modelling predicts that soil fungi occupy a precarious climate in boreal forests

AbstractAimEfforts to predict the responses of soil fungal communities to climate change are hindered by limited information on how fungal niches are distributed across environmental hyperspace. We predict the climate sensitivity of North American soil fungal assemblage composition by modelling the ecological niches of several thousand fungal species.LocationOne hundred and thirteen sites in the United States and Canada spanning all biomes except tropical rain forest.Major Taxa StudiedFungi.Time Period2011–2018.MethodsWe combine internal transcribed spacer (ITS) sequences from two continental‐scale sampling networks in North America and cluster them into operational taxonomic units (OTUs) at 97% similarity. Using climate and soil data, we fit ecological niche models (ENMs) based on logistic ridge regression for all OTUs present in at least 10 sites (n = 8597). To describe the compositional turnover of soil fungal assemblages over climatic gradients, we introduce a novel niche‐based metric of climate sensitivity, the Sørensen climate sensitivity index. Finally, we map climate sensitivity across North America.ResultsENMs have a mean out‐of‐sample predictive accuracy of 73.8%, with temperature variables being strong predictors of fungal distributions. Soil fungal climate niches clump together across environmental space, which suggests common physiological limits and predicts abrupt changes in composition with respect to changes in climate. Soil fungi in North American climates are more likely to be limited by cold and dry conditions than by warm and wet conditions, and ectomycorrhizal fungi generally tolerate colder temperatures than saprotrophic fungi. Sørensen climate sensitivity exhibits a multimodal distribution across environmental space, with a peak in climates corresponding to boreal forests.Main ConclusionsThe boreal forest occupies an especially precarious region of environmental space for the composition of soil fungal assemblages in North America, as even small degrees of warming could trigger large compositional changes characterized mainly by an influx of warm‐adapted species.

Tipping points and interactive effects of chronic human disturbance and acute heat stress on coral diversity.

Multiple anthropogenic stressors co-occur ubiquitously in natural ecosystems. However, multiple stressor studies often produce conflicting results, potentially because the nature and direction of stressor interactions depends upon the strength of the underlying stressors. Here, we first examine how coral α- and β-diversities vary across sites spanning a gradient of chronic local anthropogenic stress before and after a prolonged marine heatwave. Developing a multiple stressor framework that encompasses non-discrete stressors, we then examine interactions between the continuous and discrete stressors. We provide evidence of additive effects, antagonistic interactions (with heatwave-driven turnover in coral community composition diminishing as the continuous stressor increased), and tipping points (at which the response of coral Hill-richness to stressors changed from additive to near synergistic). We show that community-level responses to multiple stressors can vary, and even change qualitatively, with stressor intensity, underscoring the importance of examining complex, but realistic continuous stressors to understand stressor interactions and their ecological impacts.

Model‐based assessment of the impact of agri‐environment scheme options and short‐term climate change on plant biodiversity in temperate grasslands

Abstract Agri‐environment schemes (AES) incentivise land‐management practices aimed at mitigating environmental impacts. However, their effectiveness depends on the duration and type of management. We modelled the potential for grassland AES options in Wales (UK) to achieve positive changes in plant diversity via change in soil conditions. We modelled the response of plants and soils to the predicted effects of AES options over a 13‐year time interval. We applied scenarios of change in soil conditions in three managed grassland types, using high‐resolution baseline soil and vegetation data collected in grasslands across Wales, UK. We also applied scenarios of climate change to determine the extent to which this might modify the impact of AES intervention on plant species compositional turnover. Empirical models of soil response to extensification were constructed from published experimental data and used to drive change in soil inputs to a small ensemble of ecological niche models for British plants. These models were applied to the local pool of species in each baseline (2 × 2 m) quadrat plus a wider 10 × 10 km pool from which we draw species absent at baseline but predicted to find conditions suitable as a result of AES intervention and climate change, thus estimating dark diversity at each location. Outputs were summarised by grouping species by the ecosystem functions and services they support and by matching projected species composition to the UK National Vegetation Classification. Scenario modelling indicated that at least 10 years of management under grassland AES options were needed to achieve conditions suitable for desirable plant assemblages more typical of lower fertility habitats. Synthesis and applications: We predict that management effects will have a more marked effect on vegetation and soil than predicted climate variation up to 2029. Realising modelled changes in habitat suitability as species compositional turnover and community assembly is likely to require additional measures to assist plant dispersal and establishment.

Habitat complexity, connectivity, and introduced fish drive pond community structure along an urban to rural gradient.

Urbanization can influence local richness (alpha diversity) and community composition (beta diversity) in numerous ways. For instance, reduced connectivity and land cover change may lead to the loss of native specialist taxa, decreasing alpha diversity. Alternatively, if urbanization facilitates nonnative species introductions and generalist taxa, alpha diversity may remain unchanged or increase, while beta diversity could decline due to the homogenization of community structure. Wetlands and ponds provide critical ecosystem services and support diverse communities, making them important systems in which to understand the consequences of urbanization. To determine how urban development shapes pond community structure, we surveyed 68 ponds around Madison, Wisconsin, USA, which were classified as urban, greenspace, or rural based on surrounding land use. We evaluated how landscape and local pond factors were correlated with the alpha diversity of aquatic plants, macroinvertebrates, and aquatic vertebrates. We also analyzed whether surrounding land use was associated with changes in community composition and the presence of specific taxa. We found a 23% decrease in mean richness (alpha diversity) from rural to urban pond sites and a 15% decrease from rural to greenspace pond sites. Among landscape factors, adjacent developed land, mowed lawn cover, and greater distances to other waterbodies were negatively correlated with observed pond richness. Among pond level factors, habitat complexity was associated with increased richness, while nonnative fishes were associated with decreased richness. Beta diversity was relatively high for all ponds due to turnover in composition between sites. Urban ponds supported more nonnative species, lacked a subset of native species found in rural ponds, and had slightly higher beta diversity than greenspace and rural ponds. Our results suggest that integrating ponds into connected greenspaces, maintaining riparian vegetation, preventing nonnative fish introductions, and promoting habitat complexity may mitigate the negative effects of urbanization on aquatic richness. While ponds are small in size and rarely incorporated into urban conservation planning, the high beta diversity of distinct pond communities emphasizes their importance for supporting urban biodiversity.

Regional occupancy increases for widespread species but decreases for narrowly distributed species in metacommunity time series

While human activities are known to elicit rapid turnover in species composition through time, the properties of the species that increase or decrease their spatial occupancy underlying this turnover are less clear. Here, we used an extensive dataset of 238 metacommunity time series of multiple taxa spread across the globe to evaluate whether species that are more widespread (large-ranged species) differed in how they changed their site occupancy over the 10–90 years the metacommunities were monitored relative to species that are more narrowly distributed (small-ranged species). We found that on average, large-ranged species tended to increase in occupancy through time, whereas small-ranged species tended to decrease. These relationships were stronger in marine than in terrestrial and freshwater realms. However, in terrestrial regions, the directional changes in occupancy were less extreme in protected areas. Our findings provide evidence for systematic decreases in occupancy of small-ranged species, and that habitat protection could mitigate these losses in the face of environmental change.

Resident species, not immigrants, drive reorganization of estuarine fish assemblages in response to warming.

Climate change is reshaping biological communities, as species track environmental temperature. Assemblage reorganization is underpinned by shifts in species abundance and distribution, but studies often focus on documenting compositional turnover. As a consequence, phenomena such as the tropicalization of temperate communities have been widely associated with increased occupancy of warm-affinity species. Abundance-weighted change in thermal affinity can be tracked with the Community Temperature Index (CTI), and decomposed into four processes: tropicalization (increasing warm-affinity), borealization (increasing cold-affinity), deborealization (decreasing cold-affinity), and detropicalization (decreasing warm-affinity). Further evaluation of these processes according to species persistence (i.e., immigrant, emigrant, and resident) may provide insights on whether novel communities emerge primarily from local shifts in species abundance or distribution. Using long-term data on fish assemblages undergoing climate change's effects across 19 temperate estuaries surveyed for at least 20 years, we hypothesized (1) deborealization is the main process reshaping communities under climate change, and (2) the contribution of resident species to processes reshaping communities surpass the ones from immigrants and emigrants. Community dissimilarity was calculated through the Temporal Beta Index (TBI), which was further decomposed into species and individual losses and gains. These values were then used as effect sizes in the meta-analyses performed to detect systematic trends in assemblage reorganization in response to climate change. We also calculated CTI and the strength of temperature-related processes for resident, immigrant and emigrant species. Species and individual gains outweighed losses in estuaries. Temperature was correlated with changes in species abundance, but not occurrence. Fish abundance decreased with warming, and initially cooler estuaries gained more fish than warmer ones. Novel communities were shaped by a variety of processes, but mainly tropicalization. Assemblage reorganization was primarily driven by shifts in abundance of resident species with distinct thermal affinities, while contributions of arriving and exiting species played a secondary role. These findings reveal that novel communities are drawn primarily from the local species pool, due to changes in climate-related drivers that favor distinct resident species.

Enzyme adaptation to habitat thermal legacy shapes the thermal plasticity of marine microbiomes

Microbial communities respond to temperature with physiological adaptation and compositional turnover. Whether thermal selection of enzymes explains marine microbiome plasticity in response to temperature remains unresolved. By quantifying the thermal behaviour of seven functionally-independent enzyme classes (esterase, extradiol dioxygenase, phosphatase, beta-galactosidase, nuclease, transaminase, and aldo-keto reductase) in native proteomes of marine sediment microbiomes from the Irish Sea to the southern Red Sea, we record a significant effect of the mean annual temperature (MAT) on enzyme response in all cases. Activity and stability profiles of 228 esterases and 5 extradiol dioxygenases from sediment and seawater across 70 locations worldwide validate this thermal pattern. Modelling the esterase phase transition temperature as a measure of structural flexibility confirms the observed relationship with MAT. Furthermore, when considering temperature variability in sites with non-significantly different MATs, the broadest range of enzyme thermal behaviour and the highest growth plasticity of the enriched heterotrophic bacteria occur in samples with the widest annual thermal variability. These results indicate that temperature-driven enzyme selection shapes microbiome thermal plasticity and that thermal variability finely tunes such processes and should be considered alongside MAT in forecasting microbial community thermal response.