Experiments reveal that environmental heterogeneity increases species richness, but they are rarely designed to detect the underlying mechanisms

Hidden diversity: DNA metabarcoding reveals hyper-diverse benthic invertebrate communities

BACKGROUND

Freshwater ecosystems, such as streams, are facing increasing pressures from agricultural land use and recent literature stresses the importance of robust biomonitoring to detect trends in insect decline globally. Aquatic insects and other macroinvertebrates are often used as indicators of ecological condition in freshwater biomonitoring programs; however, these diverse groups can present challenges to morphological identification and coarse-level taxonomic resolution can mask patterns in community composition. Here, we incorporate molecular identification (DNA metabarcoding) into a stream biomonitoring sampling design to explore the diversity and variability of aquatic macroinvertebrate communities at small spatial scales. While individual stream reaches can be very heterogenous, most community ecology studies focus on larger, landscape-level patterns of community composition. A high degree of community variability at the local scale has important implications for both biomonitoring and ecological research, and the incorporation of DNA metabarcoding into local biodiversity assessments will inform future sampling protocols.

RESULTS

We sampled twenty streams in southern Ontario, Canada, for aquatic macroinvertebrates across multiple time points and assessed local community variability by comparing field replicates taken ten meters apart within the same stream. Using bulk-tissue DNA metabarcoding, we revealed that aquatic macroinvertebrate communities are highly diverse at small spatial scales with unprecedented levels of local taxonomic turnover. We detected over 1600 Operational Taxonomic Units (OTUs) from 149 families, and a single insect family, the Chironomidae, contained over one third of the total number of OTUs detected in our study. Benthic communities were largely comprised of rare taxa detected only once per stream despite multiple biological replicates (24-94% rare taxa per site). In addition to numerous rare taxa, our species pool estimates indicated that there was a large proportion of taxa that remained undetected by our sampling regime (14-94% per site). Our sites were located across a gradient of agricultural activity, and while we predicted that increased land use would homogenize benthic communities, this was not supported as within-stream dissimilarity was unrelated to land use. Within-stream dissimilarity estimates were consistently high for all levels of taxonomic resolution (invertebrate families, invertebrate OTUs, chironomid OTUs), indicating stream communities are very dissimilar at small spatial scales.

Reduced predation pressure as a potential driver of prey diversity and abundance in complex habitats

Habitat complexity is positively associated with biodiversity and abundance and is often a focus of habitat restoration programmes, however, the mechanisms underlying these relationships are not yet resolved. In this Perspective, we postulate that reduced predation pressure in complex habitats could contribute to increased prey diversity and abundance. Based on a systematic review and meta-analysis of experimental studies, reduced predation pressure in complex habitats is consistent across freshwater and marine ecosystems, field and laboratory experiments, different hunting modes of predators, and different numbers of prey species. However, the effects are less clear in terrestrial ecosystems. Easing predation pressure, in conjunction with increased resources for prey, could help explain the high biodiversity and abundance found in complex habitats. This knowledge can be used in restoration and ecological engineering projects to maximise species diversity and abundance gains.

Distribution Pattern of Woody Plants in a Mountain Forest Ecosystem Influenced by Topography and Monsoons

Many areas are affected by the monsoon because of different sea and land positions. At the same time, the blocking effect of a mountain range forms different habitats on both sides of the mountain range. However, the distribution mechanism of woody plants is unclear in mountain forest ecosystems influenced by topography and monsoons. In this study, 10 plots, each with an area of 1 hm2 (100 m × 100 m), were randomly established on the south and north aspects of a mountain forest. We examined community structure differences and distribution preferences of woody plants on both sides of the mountain. Our findings were as follows: (1) The characteristics of woody plant assemblages differed among various aspects. (2) Network analysis showed that specialization index was 0.186 and modularity index was 0.235, and the torus translation test showed that a total of 45 species were detected to be associated with at least one of the habitats (45/106, 42.45%). (3) The community stability of the south aspect was higher than that of the north aspect. Our findings suggest that the distribution of woody plants among different aspects was specialized and not random in alpine forest ecosystems. This study contributes to a clear understanding of the distribution mechanism of woody plants in mountain forest ecosystems influenced by topography and monsoons.

Barren environment damages cognitive abilities in fish: Behavioral and transcriptome mechanisms

The surrounding environments that animals inhabit shape their behavioral phenotypes, physiological status and molecular processes. As one of the driving forces for the adaptation and evolution of marine animals, environmental complexity has been shown to affect several behavioral characteristics in fish. However, little is known about the effects of environmental complexity on fish spatial cognition and about the relevant regulatory mechanisms. To address this theoretical gap, black rockfish Sebastes schlegelii, which is a typical rock fish species, were exposed to laboratory-based small-scale contrasting environments (i.e., spatially complex environment vs. spatially barren environment) for seven weeks. Subsequently, the spatial cognitive abilities and behavioral performance during captive period were determined, and transcriptome sequencing and analyses for fish telencephalon were conducted. In general, the fish from barren environment had significantly lower spatial learning and memory abilities compared with the fish from complex environment (i.e., the complex fish exited the maze faster). During the whole captive period, the frequency of aggressive behavior among barren fish was significantly higher than complex fish. And meanwhile, the group dispersion index of barren group was also significantly higher than complex group, which indicated that complex fish tended to distribute in a more homogeneous pattern than barren fish. Through transcriptomic analyses, a series of differentially expressed genes and pathways which may underpin the damaged effects of barren environment on fish spatial cognition were identified, and these genes mainly related to stress response, metabolism, organism systems and neural plasticity. However, no significant differences in growth performance, locomotor activity (indicated by swimming behavior and rotatory behavior) between treatments were detected. Based on these results, mechanisms in the levels of behavior and molecule were proposed to explain the environmental effects on fish cognition. This study may provide fundamental information for deeply understanding the environmental effects on marine animals.

Can an exotic tree (Jackfruit, Artocarpus heterophyllus Lam.) influence the non-volant small mammals assemblage in a protected area of Atlantic Forest?

Jackfruit (Artocarpus heterophyllus Lam.) is an exotic invasive plant species in the Brazilian Atlantic Forest that causes changes in the environment through the release of allelopathic substances and has high fruit production. We aimed to understand the potential effects of the jackfruit on the non-volant small mammal assemblage in an area protected by law, in the municipality of Cariacica – Espírito Santo, south-eastern Brazil. We sampled the small mammals assemblage using live traps in 18 sites, eight with jackfruit and 10 without. We ordinated the assemblage and tested possible differences in species richness and abundance according to the jackfruit density. We recorded 31 species of non-volant small mammals, with 13 species endemic to the Atlantic Forest. Jackfruit species can affect both positively and negatively the studied assemblage of non-volant small mammals. For species with a frugivory habit, jackfruit has a positive effect favouring these species. On the other hand, for insectivorous species, jackfruit represents an impact inhibiting the presence of these species in an area with high jackfruit density. The results presented are the first step in understanding the effect of this invasive species on a small mammals assemblage and initiating a monitoring of these species in areas affected by jackfruits. Furthermore, management of jackfruits in this protected area is required.

Effects of urbanization and environmental heterogeneity on fish assemblages in small streams

Abstract The structure of freshwater assemblages may be driven directly by urbanization or indirectly by a reduction in environmental heterogeneity (EH). Disentangling the effects of urbanization and EH requires uncorrelated proxies of each of these factors. We assessed the effects of the degree of urbanization and EH on the structure of fish assemblages. We sampled fish in 45 streams located in the urban area of Cuiabá. We assessed the effects of urbanization and EH on rarefied fish species richness (Srarefied), the local contribution to beta diversity (LCBD), and composition with linear models and distance-based redundancy analysis. Our indexes of urbanization and EH were not correlated. We found that both Srarefied and the LCBD decreased with an increasing degree of urbanization, but were not associated with EH. We also noted that few native fish species abundances were associated with the EH. Serrapinnus microdon, S. calliurus, Hemigrammus tridens, and Astyanax lacustris were abundant in streams with a lower degree of urbanization. The non-native Poecilia reticulata was more abundant in streams with a higher degree of urbanization. Our results highlight that urbanization leads in negative impacts on fish assemblages, such as decreases in diversity and the dominance of non-native species.

Taxonomic and functional diversity of mollusk assemblages in a tropical rocky intertidal zone

ABSTRACT We investigated the spatial variation of molluscan assemblages with different habitat-forming species and bare rock habitat in a rocky intertidal zone in northeastern Brazil. The high intertidal zone substrate was covered predominantly of barnacles [Chthamalus bisinuatus (Pilsbry, 1916)], the mid-intertidal of mussels [Brachidontes exustus (Linnaeus, 1758)] and the low intertidal of macroalgae chlorophytes [Gayralia oxysperma (Kützing) K. L. Vinogradova ex Scagel et al., 1989 and Ulva lactuca Linnaeus, 1753], phaeophytes [Sargassum vulgare C. Agardh] and rhodophytes [Palisada flagellifera (J.Agardh) K. W. Nam, 2007]. A total of 3,861 mollusks were recorded, belonging to the classes Gastropoda (9 species; 3,800 individuals), Bivalvia (3 spp.; 54 ind.), and Polyplacophora (1 sp.; 7 ind.). Functional diversity was accessed through the trophic structure, in which we identified food guilds: suspension feeders, grazers, herbivores, and carnivores. The analysis revealed significant differences in mollusk abundance, species richness, diversity indices, and trophic diversity among barnacle belts, mussel beds, algae habitat, and bare rock habitats. The highest species richness and trophic diversity were detected in algae habitat and mussel beds, which showed low abundance. In contrast, barnacle belts registered low species richness and trophic diversity and a high number of individuals. Bare rock recorded low values in all surveyed indices. This result points to the effect of environmental modification caused by habitat-forming species in this system. These species increase environmental complexity and enable the establishment of organisms through facilitation processes. The various food guilds found in this study reaffirm the role of habitat-forming species in providing niches that support different occupation patterns.

Heterogeneity-diversity relationships in sessile organisms: a unified framework

The hypothesis that environmental heterogeneity promotes species richness by increasing opportunities for niche partitioning is a fundamental paradigm in ecology. However, recent studies suggest that heterogeneity-diversity relationships (HDR) are more complex than expected from this niche-based perspective, and often show a decrease in richness at high levels of heterogeneity. These findings have motivated ecologists to propose new mechanisms that may explain such deviations. Here we provide an overview of currently recognised mechanisms affecting the shape of HDRs and present a conceptual model that integrates all previously proposed mechanisms within a unified framework. We also translate the proposed framework into an explicit community dynamic model and use the model as a tool for generating testable predictions concerning how landscape properties interact with species traits in determining the shape of HDRs. Our main finding is that, despite the enormous complexity of such interactions, the predicted HDRs are rather simple, ranging from positive to unimodal patterns in a highly consistent and predictable manner.

Mapping physiology: biophysical mechanisms define scales of climate change impacts

The rocky intertidal zone is a highly dynamic and thermally variable ecosystem, where the combined influences of solar radiation, air temperature and topography can lead to differences greater than 15°C over the scale of centimetres during aerial exposure at low tide. For most intertidal organisms this small-scale heterogeneity in microclimates can have enormous influences on survival and physiological performance. However, the potential ecological importance of environmental heterogeneity in determining ecological responses to climate change remains poorly understood. We present a novel framework for generating spatially explicit models of microclimate heterogeneity and patterns of thermal physiology among interacting organisms. We used drone photogrammetry to create a topographic map (digital elevation model) at a resolution of 2 × 2 cm from an intertidal site in Massachusetts, which was then fed into to a model of incident solar radiation based on sky view factor and solar position. These data were in turn used to drive a heat budget model that estimated hourly surface temperatures over the course of a year (2017). Body temperature layers were then converted to thermal performance layers for organisms, using thermal performance curves, creating 'physiological landscapes' that display spatially and temporally explicit patterns of 'microrefugia'. Our framework shows how non-linear interactions between these layers lead to predictions about organismal performance and survivorship that are distinct from those made using any individual layer (e.g. topography, temperature) alone. We propose a new metric for quantifying the 'thermal roughness' of a site (RqT, the root mean square of spatial deviations in temperature), which can be used to quantify spatial and temporal variability in temperature and performance at the site level. These methods facilitate an exploration of the role of micro-topographic variability in driving organismal vulnerability to environmental change using both spatially explicit and frequency-based approaches.

Climatic and socioeconomic effects on land cover changes across Europe: Does protected area designation matter?

Land cover change is a dynamic phenomenon driven by synergetic biophysical and socioeconomic effects. It involves massive transitions from natural to less natural habitats and thereby threatens ecosystems and the services they provide. To retain intact ecosystems and reduce land cover change to a minimum of natural transition processes, a dense network of protected areas has been established across Europe. However, even protected areas and in particular the zones around protected areas have been shown to undergo land cover changes. The aim of our study was to compare land cover changes in protected areas, non-protected areas, and 1 km buffer zones around protected areas and analyse their relationship to climatic and socioeconomic factors across Europe between 2000 and 2012 based on earth observation data. We investigated land cover flows describing major change processes: urbanisation, afforestation, deforestation, intensification of agriculture, extensification of agriculture, and formation of water bodies. Based on boosted regression trees, we modelled correlations between land cover flows and climatic and socioeconomic factors. The results show that land cover changes were most frequent in 1 km buffer zones around protected areas (3.0% of all buffer areas affected). Overall, land cover changes within protected areas were less frequent than outside, although they still amounted to 18,800 km² (1.5% of all protected areas) from 2000 to 2012. In some parts of Europe, urbanisation and intensification of agriculture still accounted for up to 25% of land cover changes within protected areas. Modelling revealed meaningful relationships between land cover changes and a combination of influencing factors. Demographic factors (accessibility to cities and population density) were most important for coarse-scale patterns of land cover changes, whereas fine-scale patterns were most related to longitude (representing the general east/west economic gradient) and latitude (representing the north/south climatic gradient).

Local and regional drivers of ant communities in forest-grassland ecotones in South Brazil: A taxonomic and phylogenetic approach

Understanding biological community distribution patterns and their drivers across different scales is one of the major goals of community ecology in a rapidly changing world. Considering natural forest-grassland ecotones distributed over the south Brazilian region we investigated how ant communities are assembled locally, i.e. considering different habitats, and regionally, i.e. considering different physiographic regions. We used taxonomic and phylogenetic approaches to investigate diversity patterns and search for environmental/spatial drivers at each scale. We sampled ants using honey and tuna baits in forest and grassland habitats, in ecotones distributed at nine sites in Rio Grande do Sul state, Brazil. Overall, we found 85 ant species belonging to 23 genera and six subfamilies. At the local scale, we found forests and grasslands as equivalent in ant species and evolutionary history diversities, but considerably different in terms of species composition. In forests, the soil surface air temperature predicts foraging ant diversity. In grasslands, while the height of herbaceous vegetation reduces ant diversity, treelet density from forest expansion processes clearly increases it. At a regional scale, we did not find models that sufficiently explained ant taxonomic and phylogenetic diversity based on regional environmental variables. The variance in species composition, but not in evolutionary histories, across physiographic regions is driven by space and historical processes. Our findings unveil important aspects of ant community ecology in natural transition systems, indicating environmental filtering as an important process structuring the communities at the local scale, but mostly spatial processes acting at the regional scale.