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Ground beetles are a highly sensitive and speciose biolog- ical indicator, making them vital for monitoring biodiver- sity. However, they are currently an underutilized resource due to the manual effort required by taxonomic experts to perform challenging species differentiations based on sub- tle morphological differences, precluding widespread ap- plications. In this paper, we evaluate 12 vision models on taxonomic classification across four diverse, long-tailed datasets spanning over 230 genera and 1769 species, with images ranging from controlled laboratory settings to chal- lenging field-collected (in-situ) photographs. We further ex- plore taxonomic classification in two important real-world contexts: sample efficiency and domain adaptation. Our re- sults show that the Vision and Language Transformer com- bined with an MLP head is the best performing model, with 97% accuracy at genus and 94% at species level. Sample efficiency analysis shows that we can reduce train data re- quirements by up to 50% with minimal compromise in per- formance. The domain adaptation experiments reveal sig- nificant challenges when transferring models from lab to in-situ images, highlighting a critical domain gap. Overall, our study lays a foundation for large-scale automated tax- onomic classification of beetles, and beyond that, advances sample-efficient learning and cross-domain adaptation for diverse long-tailed ecological datasets. 

This dataset is composed of a collection of 577 images of ethanol-preserved beetles collected at NEON sites in 2018. Each image contains a collection of beetles of the same species from a single plot at the labeled site. In 2022, they were arranged on a lattice and photographed; the elytra length and width were then annotated for each individual in each image using Zooniverse. The individual images were segemented out based on scaling the elytra measurement pixel coordinates to the full-size images (more information on this process is available on the Imageomics/2018-NEON-beetles-processing repository). 

Global change is altering the phenology and geographic ranges of flowering species, with potentially profound consequences for the timing and composition of floral resources and the seasonal structure of ecological communities. However, shifts in flowering phenology and species distributions have historically been studied in isolation due to disciplinary silos and limited data, leaving critical gaps in our understanding of their combined effects. To address this, we used millions of herbarium and occurrence records to model phenological and range shifts for 2,837 plant species in the United States across historical, recent, and projected climate and land cover conditions, enabling us to scale responses from species to communities, and from local to continental geographies. Our analysis reveals that communities are shifting toward earlier, longer flowering seasons in most biomes, with co-flowering species richness increasing at the edges of the season and declining at historical peaks—trends projected to intensify under ongoing environmental trends. Although these shifts operate concurrently, they affect different aspects of the flowering season: phenological changes primarily alter seasonality—its start, end, and duration—and co-flowering diversity at the edges of the season, while range shifts more strongly influence co-flowering species richness during historical seasonal peaks, and attributes tied to community composition, such as patterns of flowering synchrony among co-occurring species. Together, these results demonstrate that shifts in phenology and species ranges act synergistically to restructure the flowering seasons across North America, revealing wide variation in the pace and magnitude of change among biomes. 

Abstract Understanding the relationship between intraspecific trait variability (ITV) and its biotic and abiotic drivers is crucial for advancing population and community ecology. Despite its importance, there is a lack of guidance on how to effectively sample ITV and reduce bias in the resulting inferences. In this study, we explored how sample size affects the estimation of population‐level ITV, and how the distribution of sample sizes along an environmental gradient (i.e., sampling design) impacts the probabilities of committing Type I and II errors. We investigated Type I and II error probabilities using four simulated scenarios which varied sampling design and the strength of the ITV‐environment relationships. We also applied simulation scenarios to empirical data on populations of the small mammal,Peromyscus maniculatusacross gradients of latitude and temperature at sites in the National Ecological Observatory Network (NEON) in the continental United States. We found that larger sample sizes reduce error rates in the estimation of population‐level ITV for both in silico andPeromyscus maniculatuspopulations. Furthermore, the influence of sample size on detecting ITV‐environment relationships depends on how sample sizes and population‐level ITV are distributed along environmental gradients. High correlations between sample size and the environment result in greater Type I error, while weak ITV–environmental gradient relationships showed high Type II error probabilities. Therefore, having large sample sizes that are even across populations is the most robust sampling design for studying ITV‐environment relationships. These findings shed light on the complex interplay among sample size, sampling design, ITV, and environmental gradients. 

Abstract The National Ecological Observatory Network (NEON) provides over 180 distinct data products from 81 sites (47 terrestrial and 34 freshwater aquatic sites) within the United States and Puerto Rico. These data products include both field and remote sensing data collected using standardized protocols and sampling schema, with centralized quality assurance and quality control (QA/QC) provided by NEON staff. Such breadth of data creates opportunities for the research community to extend basic and applied research while also extending the impact and reach of NEON data through the creation of derived data products—higher level data products derived by the user community from NEON data. Derived data products are curated, documented, reproducibly‐generated datasets created by applying various processing steps to one or more lower level data products—including interpolation, extrapolation, integration, statistical analysis, modeling, or transformations. Derived data products directly benefit the research community and increase the impact of NEON data by broadening the size and diversity of the user base, decreasing the time and effort needed for working with NEON data, providing primary research foci through the development via the derivation process, and helping users address multidisciplinary questions. Creating derived data products also promotes personal career advancement to those involved through publications, citations, and future grant proposals. However, the creation of derived data products is a nontrivial task. Here we provide an overview of the process of creating derived data products while outlining the advantages, challenges, and major considerations. 

Forecasting the impacts of changing climate on the phenology of plant populations is essential for anticipating and managing potential ecological disruptions to biotic communities. Herbarium specimens enable assessments of plant phenology across broad spatiotemporal scales. However, specimens are collected opportunistically, and it is unclear whether their collection dates – used as proxies of phenological stages – are closest to the onset, peak, or termination of a phenophase, or whether sampled individuals represent early, average, or late occurrences in their populations. Despite this, no studies have assessed whether these uncertainties limit the utility of herbarium specimens for estimating the onset and termination of a phenophase. Using simulated data mimicking such uncertainties, we evaluated the accuracy with which the onset and termination of population‐level phenological displays (in this case, of flowering) can be predicted from natural‐history collections data (controlling for biases in collector behavior), and how the duration, variability, and responsiveness to climate of the flowering period of a species and temporal collection biases influence model accuracy. Estimates of population‐level onset and termination were highly accurate for a wide range of simulated species' attributes, but accuracy declined among species with longer individual‐level flowering duration and when there were temporal biases in sample collection, as is common among the earliest and latest‐flowering species. The amount of data required to model population‐level phenological displays is not impractical to obtain; model accuracy declined by less than 1 day as sample sizes rose from 300 to 1000 specimens. Our analyses of simulated data indicate that, absent pervasive biases in collection and if the climate conditions that affect phenological timing are correctly identified, specimen data can predict the onset, termination, and duration of a population's flowering period with similar accuracy to estimates of median flowering time that are commonplace in the literature. 

Phenology varies widely over space and time because of its sensitivity to climate. However, whether phenological variation is primarily generated by rapid organismal responses (plasticity) or local adaptation remains unresolved. Here we used 1,038,027 herbarium specimens representing 1,605 species from the continental United States to measure flowering-time sensitivity to temperature over time (Stime) and space (Sspace). By comparing these estimates, we inferred how adaptation and plasticity historically influenced phenology along temperature gradients and how their contributions vary among species with different phenology and native climates and among ecoregions differing in species composition. Parameters Sspace and Stime were positively correlated (r = 0.87), of similar magnitude and more frequently consistent with plasticity than adaptation. Apparent plasticity and adaptation generated earlier flowering in spring, limited responsiveness in late summer and delayed flowering in autumn in response to temperature increases. Nonetheless, ecoregions differed in the relative contributions of adaptation and plasticity, from consistently greater importance of plasticity (for example, southeastern United States plains) to their nearly equal importance throughout the season (for example, Western Sierra Madre Piedmont). Our results support the hypothesis that plasticity is the primary driver of flowering-time variation along temperature gradients, with local adaptation having a widespread but comparatively limited role. 

Abstract Global warming has caused widespread shifts in plant phenology among species in the temperate zone, but it is unclear how population‐level responses will scale to alter the structure of the flowering season at the community level. This knowledge gap exists largely because—while the climatic sensitivity of first flowering within populations has been studied extensively—little is known about the responsiveness of the duration of a population's flowering period. This limits our ability to anticipate how the entire flowering periods of co‐occurring species may continue to change under warming. Nonetheless, flowering sensitivity to temperature often varies predictably among species between and within communities, which may help forecast temperature‐related changes to a community's flowering season. However, no studies—empirical or theoretical—have assessed how patterns of variation in flowering sensitivity among species could scale to alter community‐level flowering changes under warming. Here, we provide a conceptual overview of how variation in the sensitivity of flowering onset and duration among species can mediate changes to a community's flowering season due to warming trends. Specifically, we focus on the effects of differences in (1) the mean sensitivity of flowering onset and duration among communities and (2) the sensitivity of flowering onsets and durations among species flowering sequentially through the season within a community. We evaluated the manner and degree in which these forms of between‐species variation in sensitivity might affect the structure of the flowering season—both independently and interactively—using simulations, which covered a wide but empirically informed range of parameter values and combinations representing distinct community‐level patterns. Our findings predict that communities across the temperate zone will exhibit varied and often contrasting flowering responses to warming across biomes, underscoring that accounting for the temperature sensitivity of both phenological onset and duration among species is essential for understanding community‐level flowering dynamics in a warming world. 

Soil microbiomes are heterogeneous, complex microbial communities. Metagenomic analysis is generating vast amounts of data, creating immense challenges in sequence assembly and analysis. Although advances in technology have resulted in the ability to easily collect large amounts of sequence data, soil samples containing thousands of unique taxa are often poorly characterized. These challenges reduce the usefulness of genome-resolved metagenomic (GRM) analysis seen in other fields of microbiology, such as the creation of high quality metagenomic assembled genomes and the adoption of genome scale modeling approaches. The absence of these resources restricts the scale of future research, limiting hypothesis generation and the predictive modeling of microbial communities. Creating publicly available databases of soil MAGs, similar to databases produced for other microbiomes, has the potential to transform scientific insights about soil microbiomes without requiring the computational resources and domain expertise for assembly and binning.