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Information on soils' composition and physical, chemical and biological properties is paramount to elucidate agroecosystem functioning in space and over time. For this purpose, we developed a national Swiss soil spectral library (SSL; n=4374) in the mid-infrared (mid-IR), calibrating 16 properties from legacy measurements on soils from the Swiss Biodiversity Monitoring program (BDM; n=3778; 1094 sites) and the Swiss long-term Soil Monitoring Network (NABO; n=596; 71 sites). General models were trained with the interpretable rule-based learner CUBIST, testing combinations of {5, 10, 20, 50, and 100} ensembles of rules (committees) and {2, 5, 7, and 9} nearest neighbors used for local averaging with repeated 10-fold cross-validation grouped by location. To evaluate the information in spectra to facilitate long-term soil monitoring at a plot level, we conducted 71 model transfers for the NABO sites to induce locally relevant information from the SSL, using the data-driven sample selection method RS-LOCAL. In total, 10 soil properties were estimated with discrimination capacity suitable for screening (R2≥0.72; ratio of performance to interquartile distance (RPIQ) ≥ 2.0), out of which total carbon (C), organic C (OC), total nitrogen (N), pH and clay showed accuracy eligible for accurate diagnostics (R2>0.8; RPIQ ≥ 3.0). CUBIST and the spectra estimated total C accurately with the root mean square error (RMSE) = 8.4 g kg−1 and the RPIQ = 4.3, while the measured range was 1–583 g kg−1 and OC with RMSE = 9.3 g kg−1 and RPIQ = 3.4 (measured range 0–583 g kg−1). Compared to the general statistical learning approach, the local transfer approach – using two respective training samples – on average reduced the RMSE of total C per site fourfold. We found that the selected SSL subsets were highly dissimilar compared to validation samples, in terms of both their spectral input space and the measured values. This suggests that data-driven selection with RS-LOCAL leverages chemical diversity in composition rather than similarity. Our results suggest that mid-IR soil estimates were sufficiently accurate to support many soil applications that require a large volume of input data, such as precision agriculture, soil C accounting and monitoring and digital soil mapping. This SSL can be updated continuously, for example, with samples from deeper profiles and organic soils, so that the measurement of key soil properties becomes even more accurate and efficient in the near future.
Baumann, P., Helfenstein, A., Gubler, A., Keller, A., Meuli, R. G., Wächter, D., Lee, J., Viscarra Rossel, R., & Six, J. (2021). Developing the Swiss mid-infrared soil spectral library for local estimation and monitoring. SOIL, 7(2), 525–546. https://doi.org/10.5194/soil-7-525-2021
Freshwater biodiversity loss is a major concern, and global warming is already playing a significant role in species extinctions. Our main goal was to predict climate change impacts on aquatic insect species distribution and richness in Swiss running waters according to two climate change scenarios (RCP2.6 and RCP8.5), using different modeling approaches, that is, species distribution models (SDMs), stacked-SDMs (S-SDMs) and a macroecological model (MEM). We analyzed 10,808 reaches, used as spatial units for model predictions, for a total river network length of 20,610 km. Results were assessed at both the countrywide and the biogeographic regional scales. We used incidence data of 41 species of Ephemeroptera, Plecoptera and Trichoptera (EPT) from 259 sites distributed across Switzerland. We integrated a coupled model for hydrology and glacier retreat to simulate monthly time-step discharge from which we derived hydrological variables. These, along with thermal, land-cover, topographic and spatially explicit data, served as predictors for our ecological models. Predictions of occurrence probabilities and EPT richness were compared among the different regions, periods and scenarios. A Shiny web application was developed to interactively explore all the models’ details, to ensure transparency and promote the sharing of information. MEM and S-SDMs approaches consistently showed that overall, climate change is likely to reduce EPT richness. Decrease could be around 10% in the least conservative scenario, depending on the region. Global warming was shown to represent a threat to species from high elevation, but in terms of species richness, running waters from lowlands and medium elevation seemed more vulnerable. Finally, our results suggested that the effects of anthropogenic activities could overweight natural factors in shaping the future of river biodiversity.
Timoner, P., Fasel, M., Ashraf Vaghefi, S. S., Marle, P., Castella, E., Moser, F., & Lehmann, A. (2021). Impacts of climate change on aquatic insects in temperate alpine regions: Complementary modeling approaches applied to Swiss rivers. Global Change Biology, 27(15), 3565–3581. https://doi.org/10.1111/gcb.15637
A wide knowledge base regarding the ecological preferences of benthic macroinvertebrates is synthesized in public databases. This knowledge can assist in disentangling the influence of multiple environmental factors on the probability of occurrence of macroinvertebrates and in identifying anthropogenic impacts on the macroinvertebrate assemblage. We aimed to examine and extend current knowledge on ecological preferences by confronting it with independent biomonitoring datasets and to assess how the taxonomic resolution of datasets and the prevalence of taxa affects our ability to do so. We used a habitat suitability-based multi-species distribution model (HS-MSDM) and applied Bayesian inference to confront current knowledge (formalized as prior probability distributions) against independent biomonitoring data across rivers in Switzerland. Shifts in the resulting posterior probability distributions relative to the priors indicate a disagreement with the current knowledge of ecological preferences. Ecological preferences for temperature and organic matter had the highest influence on the predicted occurrence of macroinvertebrates in the model, followed by flow velocity, insecticide pollution, and substratum. Three-fold cross-validation tests demonstrated that the HS-MSDM predicted the distribution of taxa with a relative frequency of occurrence between 0.2 and 0.8 considerably better than a model without consideration of environmental factors. However, it was less able to predict the distribution of taxa with a frequency of occurrence <0.1 or >0.9. Nine taxa with a frequency of occurrence between 0.4 and 0.8 were identified as potentially useful bioindicators, given their strong association with the environmental factors in the model. We also identified 29 taxa for which part of the ecological preference data, particularly temperature and flow-velocity preferences, should be re-examined. For river morphology, 18 sensitive and 10 insensitive taxa were identified, although direct and uniquely linked prior knowledge regarding morphology was lacking for all taxa. Phylogenetically derived information on ecological preferences could be integrated and updated to fill gaps in ecological preference databases. However, the taxonomic resolution of the biomonitoring and ecological preference data plays an important role, as we show by identifying families comprising species that respond differently to environmental factors. These results demonstrate the value of conducting biomonitoring at the most detailed taxonomic level possible.
Vermeiren, P., Reichert, P., Graf, W., Leitner, P., Schmidt-Kloiber, A., & Schuwirth, N. (2021). Confronting existing knowledge on ecological preferences of stream macroinvertebrates with independent biomonitoring data using a Bayesian multi-species distribution model. Freshwater Science, 40(1), 202–220. https://doi.org/10.1086/713175
Mountain areas harbor large climatic and geographic gradients and form numerous habitats that promote high overall biodiversity. Compared to macroorganisms, knowledge about drivers of biodiversity and distribution of soil bacteria in mountain regions is still scarce but a prerequisite for conservation of bacterial functions in soils. An important question is, whether soil bacterial communities with similar structures share environmental preferences. Using metabarcoding of the 16S rRNA gene marker, we assessed soil bacterial communities at 255 sites of a regular grid covering the mountainous landscape of Switzerland, which is characterized by close location of biogeographic regions that harbor different land-use types. Distribution of bacterial communities was mainly shaped by environmental selection, as revealed by 47.9% variance explained by environmental factors, with pH (29%) being most important. Little additional variance was explained by biogeographic regions (2.8%) and land-use types (3.3%). Cluster analysis of bacterial community structures revealed six bacterial community types (BCTs), which were associated to several biogeographic regions and land-use types but overall differed mainly in their preference for soil pH. BCT I and II occurred at neutral pH, showed distinct preferences for biogeographic regions mainly differing in elevation and nutrient availability. BCT III and IV differed only in their preferred soil pH. BCT VI occurred in most acidic soils (pH 3.6) and almost exclusively at forest sites. BCT V occurred in soils with a mean pH of 4 and differed from BCT VI in preference for lower values of organic C, total nitrogen and their ratio. Indicator species and bipartite network analyses revealed 3,998 OTUs associating to different levels of environmental factors and BCTs. Taxonomic classification revealed opposing associations of taxa deriving from the same phyla. The results revealed that pH, land-use type, biogeographic region, and nutrient availability were the main factors shaping bacterial communities across Switzerland. Indicator species and bipartite network analyses revealed environmental preferences of bacterial taxa. Combining information of environmental factors and BCTs yielded increased resolution of the factors shaping soil bacterial communities and provided an improved biodiversity framework. OTUs exclusively associated to BCTs provide a novel resource to identify unassessed environmental drivers.
Mayerhofer, J., Wächter, D., Calanca, P., Kohli, L., Roth, T., Meuli, R. G., & Widmer, F. (2021). Environmental and Anthropogenic Factors Shape Major Bacterial Community Types Across the Complex Mountain Landscape of Switzerland. Frontiers in Microbiology, 12, 581430. https://doi.org/10.3389/fmicb.2021.581430
Nitrogen (N) deposition from agriculture and combustion of fossil fuels is a major threat to plant diversity, but its effects on organisms at higher trophic levels are unclear. We investigated how N deposition may affect species richness and abundance (number of individuals per species) in butterflies. We reviewed the peer-reviewed literature on variables used to explain spatial variation in butterfly species richness and found that vegetation variables appeared to be as important as climate and habitat variables in explaining butterfly species richness. It thus seemed likely that increased N deposition could indirectly affect butterfly communities via its influence on plant communities. To test this prediction, we analyzed data from the Swiss biodiversity monitoring program for vascular plants and butterflies in 383 study sites of 1 km2 that are evenly distributed throughout Switzerland. The area has a modeled N deposition gradient of 2–44 kg N ha−1year−1. We used traditional linear models and structural equation models to infer the drivers of the spatial variation in butterfly species richness across Switzerland. High N deposition was consistently linked to low butterfly diversity, suggesting a net loss of butterfly diversity through increased N deposition. We hypothesize that at low elevations, N deposition may contribute to a reduction in butterfly species richness via microclimatic cooling due to increased plant biomass. At higher elevations, negative effects of N deposition on butterfly species richness may also be mediated by reduced plant species richness. In most butterfly species, abundance was negatively related to N deposition, but the strongest negative effects were found for species of conservation concern. We conclude that in addition to factors such as intensified agriculture, habitat fragmentation, and climate change, N deposition is likely to play a key role in negatively affecting butterfly diversity and abundance.
Roth, T., Kohli, L., Rihm, B., Meier, R., & Amrhein, V. (2021). Negative effects of nitrogen deposition on Swiss butterflies. Conservation Biology, 35(6), 1766–1776. https://doi.org/10.1111/cobi.13744
- Hängt die Häufigkeit der Singdrossel Turdus philomelos zur Brutzeit mit der Häufigkeit grosser Gehäuseschnecken zusammen?
- Recent trends in stream macroinvertebrates: Warm-adapted and pesticide-tolerant taxa increase in richness
- Blue and green food webs respond differently to elevation and land use
- Decreasing nitrogen deposition rates: Good news for oligotrophic grassland species?
Sonderheft Hotspot
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