• Energy Research

AbstractWe present an extensive, large-scale, long-term and multitaxon database on phenological and climatic variation, involving 506,186 observation dates acquired in 471 localities in Russian Federation, Ukraine, Uzbekistan, Belarus and Kyrgyzstan. The data cover the period 1890–2018, with 96% of the data being from 1960 onwards. The database is rich in plants, birds and climatic events, but also includes insects, amphibians, reptiles and fungi. The database includes multiple events per species, such as the onset days of leaf unfolding and leaf fall for plants, and the days for first spring and last autumn occurrences for birds. The data were acquired using standardized methods by permanent staff of national parks and nature reserves (87% of the data) and members of a phenological observation network (13% of the data). The database is valuable for exploring how species respond in their phenology to climate change. Large-scale analyses of spatial variation in phenological response can help to better predict the consequences of species and community responses to climate change.

SignificanceThe changing climate is causing shifts in the timing of species activity. We use data on over 820,000 nesting records to quantify changes in the beginning, end, and duration of breeding among boreal birds. In addition to a general advance of breeding, we find an overall contraction of the breeding period. This pattern was most common among resident and short-distance migrating species. Overall, we detect a shift in the community-level distribution of bird reproduction, involving the start and end of reproduction and how concentrated the breeding period is. From a methodological perspective, our study illustrates that a focus on quantifying phenological advances alone may mask important patterns of phenology change across the season.

Globally, rising temperatures are increasingly favoring warm-affiliated species. Although changes in community composition are typically measured by the mean temperature affinity of species (the community temperature index, CTI), they may be driven by different processes and accompanied by shifts in the diversity of temperature affinities and breadth of species thermal niches. To resolve the pathways to community warming in Finnish flora and fauna, we examined multidecadal changes in the dominance and diversity of temperature affinities among understory forest plant, freshwater phytoplankton, butterfly, moth, and bird communities. CTI increased for all animal communities, with no change observed for plants or phytoplankton. In addition, the diversity of temperature affinities declined for all groups except butterflies, and this loss was more pronounced for the fastest-warming communities. These changes were driven in animals mainly by a decrease in cold-affiliated species and an increase in warm-affiliated species. In plants and phytoplankton the decline of thermal diversity was driven by declines of both cold- and warm-affiliated species. Plant and moth communities were increasingly dominated by thermal specialist species, and birds by thermal generalists. In general, climate warming outpaced changes in both the mean and diversity of temperature affinities of communities. Our results highlight the complex dynamics underpinning the thermal reorganization of communities across a large spatiotemporal gradient, revealing that extinctions of cold-affiliated species and colonization by warm-affiliated species lag behind changes in ambient temperature, while communities become less thermally diverse. Such changes can have important implications for community structure and ecosystem functioning under accelerating rates of climate change.

Abstract Background Zoology’s dark matter comprises hyperdiverse, poorly known taxa that are numerically dominant but largely unstudied, even in temperate regions where charismatic taxa are well understood. Dark taxa are everywhere, but high diversity, abundance, and small size have historically stymied their study. We demonstrate how entomological dark matter can be elucidated using high-throughput DNA barcoding (“megabarcoding”). We reveal the high abundance and diversity of scuttle flies (Diptera: Phoridae) in Sweden using 31,800 specimens from 37 sites across four seasonal periods. We investigate the number of scuttle fly species in Sweden and the environmental factors driving community changes across time and space. Results Swedish scuttle fly diversity is much higher than previously known, with 549 putative species detected, compared to 374 previously recorded species. Hierarchical Modelling of Species Communities reveals that scuttle fly communities are highly structured by latitude and strongly driven by climatic factors. Large dissimilarities between sites and seasons are driven by turnover rather than nestedness. Climate change is predicted to significantly affect the 47% of species that show significant responses to mean annual temperature. Results were robust regardless of whether haplotype diversity or species-proxies were used as response variables. Additionally, species-level models of common taxa adequately predict overall species richness. Conclusions Understanding the bulk of the diversity around us is imperative during an era of biodiversity change. We show that dark insect taxa can be efficiently characterised and surveyed with megabarcoding. Undersampling of rare taxa and choice of operational taxonomic units do not alter the main ecological inferences, making it an opportune time to tackle zoology’s dark matter.

AbstractCurrent climate change is disrupting biotic interactions and eroding biodiversity worldwide. However, species sensitive to aridity, high temperatures, and climate variability might find shelter in microclimatic refuges, such as leaf rolls built by arthropods. To explore how the importance of leaf shelters for terrestrial arthropods changes with latitude, elevation, and climate, we conducted a distributed experiment comparing arthropods in leaf rolls versus control leaves across 52 sites along an 11,790 km latitudinal gradient. We then probed the impact of short‐ versus long‐term climatic impacts on roll use, by comparing the relative impact of conditions during the experiment versus average, baseline conditions at the site. Leaf shelters supported larger organisms and higher arthropod biomass and species diversity than non‐rolled control leaves. However, the magnitude of the leaf rolls’ effect differed between long‐ and short‐term climate conditions, metrics (species richness, biomass, and body size), and trophic groups (predators vs. herbivores). The effect of leaf rolls on predator richness was influenced only by baseline climate, increasing in magnitude in regions experiencing increased long‐term aridity, regardless of latitude, elevation, and weather during the experiment. This suggests that shelter use by predators may be innate, and thus, driven by natural selection. In contrast, the effect of leaf rolls on predator biomass and predator body size decreased with increasing temperature, and increased with increasing precipitation, respectively, during the experiment. The magnitude of shelter usage by herbivores increased with the abundance of predators and decreased with increasing temperature during the experiment. Taken together, these results highlight that leaf roll use may have both proximal and ultimate causes. Projected increases in climate variability and aridity are, therefore, likely to increase the importance of biotic refugia in mitigating the effects of climate change on species persistence.

Insects are diverse and sustain essential ecosystem functions, yet remain understudied. Recent reports about declines in insect abundance and diversity have highlighted a pressing need for comprehensive large-scale monitoring. Metabarcoding (high-throughput bulk sequencing of marker gene amplicons) offers a cost-effective and relatively fast method for characterizing insect community samples. However, the methodology applied varies greatly among studies, thus complicating the design of large-scale and repeatable monitoring schemes. Here we describe a non-destructive metabarcoding protocol that is optimized for high-throughput processing of Malaise trap samples and other bulk insect samples. The protocol details the process from obtaining bulk samples up to submitting libraries for sequencing. It is divided into four sections: 1) Laboratory workspace preparation; 2) Sample processing—decanting ethanol, measuring the wet-weight biomass and the concentration of the preservative ethanol, performing non-destructive lysis and preserving the insect material for future work; 3) DNA extraction and purification; and 4) Library preparation and sequencing. The protocol relies on readily available reagents and materials. For steps that require expensive infrastructure, such as the DNA purification robots, we suggest alternative low-cost solutions. The use of this protocol yields a comprehensive assessment of the number of species present in a given sample, their relative read abundances and the overall insect biomass. To date, we have successfully applied the protocol to more than 7000 Malaise trap samples obtained from Sweden and Madagascar. We demonstrate the data yield from the protocol using a small subset of these samples.