en: water-filled-tree-holes metacommunity beta-diversity functional-diversity community-assembly spatial-factors environmental-factors taxonomic-diversity

en: This dataset contains trait information used to characterize the macroinvertebrates in our study, for the Indian forest plot. The dataset includes seven trait groups: aquatic developmental stage, maximum body size, locomotion, dispersal mode, respiration mode, feeding group, and cohort production interval. These trait groups are further divided into 32 distinct categories.

en: This dataset contains trait information used to characterize the macroinvertebrates in our study, for the French forest plot. The dataset includes seven trait groups: aquatic developmental stage, maximum body size, locomotion, dispersal mode, respiration mode, feeding group, and cohort production interval. These trait groups are further divided into 32 distinct categories.

en: This dataset includes physical and environmental characteristics of water-filled tree holes (WTHs), such as water depth, height, opening size, hole origin and orientation, circumference at breast height, WTH type, and water volume. It also contains physico-chemical parameters, nutrient concentrations (ammonium, nitrogen, phosphate, sulfate, chloride), CDOM, Chlorophyll-A, turbidity, and dry organic matter (FPOM, CPOM, total).

en: This dataset provides the geographic coordinates (latitude and longitude) of each sampled water-filled tree hole (WTH) for the French forest plot.

en: This dataset includes results from variation partitioning analysis used to assess the relative contributions of environmental and spatial factors to taxonomic and functional β-diversity and their components across biogeographic regions. It contains site-level values for pure and shared effects of predictors. Used to generate Fig_2.

en: This dataset describes the animal community composition sampled from 35 water-filled tree holes (WTHs) per site. It includes abundance and taxonomic identification (to morphospecies level) of aquatic macroinvertebrates and Chordata.

en: This dataset contains trait information used to characterize the macroinvertebrates in our study, for the Brazilian forest plot. The dataset includes seven trait groups: aquatic developmental stage, maximum body size, locomotion, dispersal mode, respiration mode, feeding group, and cohort production interval. These trait groups are further divided into 32 distinct categories.

en: This dataset provides the geographic coordinates (latitude and longitude) of each sampled water-filled tree hole (WTH) for the Indian forest plot.

en: This dataset contains values of taxonomic and functional β-diversity for each study site, along with their respective components: species richness difference vs. turnover (taxonomic), and functional richness difference vs. functional turnover (functional). Used to generate Fig. 1.

en: This dataset provides the geographic coordinates (latitude and longitude) of each sampled water-filled tree hole (WTH) for the Brazilian forest plot.

en: Code to do the analysis and figures of the paper.

en: This Excel file contains metadata that provides detailed information about all other files included here. It describes the ten accompanying datasets, outlining the type of data each contains, the variables used, their descriptions, and the units of measurement (where applicable).

en: These datasets and code support research on the community assemblage of aquatic macroinvertebrates in ephemeral microhabitats, specifically water-filled tree holes (WTH), in three biogeographically and climatically distinct old-growth forests: Temperate-Mediterranean (France), Neotropical (Brazil) and Palaeotropical (India). By integrating standardised biological sampling, detailed environmental measurements and spatial analysis, the dataset allows for an in-depth examination of how local habitat conditions and spatial configuration influence taxonomic and functional beta-diversity patterns. The data capture the variation in species composition and ecological traits in 35 WTH per forest site and are particularly important for understanding how environmental filtering and spatial processes shape beta-diversity in natural forest ecosystems.

beta-diversity

display_name: beta-diversity

community-assembly

display_name: community-assembly

environmental-factors

display_name: environmental-factors

functional-diversity

display_name: functional-diversity

metacommunity

display_name: metacommunity

spatial-factors

display_name: spatial-factors

taxonomic-diversity

display_name: taxonomic-diversity

water-filled-tree-holes

display_name: water-filled-tree-holes

educ

en: Education, culture and sport

envidat

en: EnviDat: the Environmental Data Portal

en: EnviDat is the WSL data portal providing unified and managed access to environmental monitoring and research data. The portal has the capability to host and publish data sets. Through the sharing of unique and high-value data sets worldwide, EnviDat fosters research and contributes to advancing environmental science.

en: Spatial factors shape taxonomic and functional beta-diversity in water-filled tree holes in different biogeographical regions


maintainer: Yaquan Chang

en: climate-history plant-biodiversity tectonic-faults relief endemism

state: active

type: dataset

media_type: application/zip

format: ZIP

en:
This dataset includes geomorphic predictors and plant biodiversity patterns in the Hengduan Mountains, published in the Geological Society of London special volume: Asian Geodynamics, Climate and Biodiversity (https://doi.org/10.1144/SP549-2024-17).
The geomorphic predictors include catchment-restricted relief and chi maps, while the climate predictors comprise site water balance, growing degree days, and climate change velocity from the Last Glacial Maximum (LGM) to the present.
The plant biodiversity patterns are represented by a plant richness map for 13,321 species in the Hengduan Mountains. Species-level plant range maps are available in the dataset, previously published under DOI: 10.16904/envidat.424.

climate-history

display_name: climate-history

endemism

display_name: endemism

plant-biodiversity

display_name: plant-biodiversity

relief

display_name: relief

tectonic-faults

display_name: tectonic-faults

educ

fr: Éducation, culture et sport

de: Bildung, Kultur und Sport

it: Istruzione, cultura e sport

fr: EnviDat: le portail de données environnementales

de: EnviDat: das Umwelt-Datenportal

it: EnviDat: il portale dei dati ambientali

fr: EnviDat est le portail de données du WSL; il offre un accès uniformisé et réglementé aux données de surveillance et de recherche en matière d’environnement. Ce portail est capable d’héberger et de publier des ensembles de données précieuses et uniques, qui sont partagées aux quatre coins de la planète. Ce faisant, EnviDat favorise la recherche et contribue à l’avancement des sciences environnementales.

de: EnviDat ist das Datenportal der WSL für einen einheitlichen und verwalteten Zugang zu Umweltdaten aus Monitoring- und Forschungsprojekten. Auf dem Portal können Datensätze gehostet und veröffentlicht werden. Durch die weltweite Bereitstellung einzigartiger und wertvoller Datensätze leistet EnviDat einen Beitrag zur Forschung im Bereich der Umweltwissenschaften.

it: EnviDat è il portale dati del WSL che fornisce un accesso unificato e gestito ai dati di monitoraggio ambientale e di ricerca. Il portale ha la capacità di ospitare e pubblicare serie di dati preziosi e unici che vengono condivisi in tutto il mondo. Così facendo, EnviDat promuove la ricerca e contribuisce al progresso della scienza ambientale.

political_level: other

wsl

capacity: public

type: organization

approval_status: approved

key: guid

key: uri

value: Envidat Harvester

en: Tectonic and climatic controls on plant biodiversity in the Hengduan Mountains China


maintainer: Brandon Vanschaik

en: atmospheric-dynamics atmospheric-turbulence remote-sensing wind lidar wind-energy

format: SERVICE

en:
This data include wind speeds, wind directions, turbulence, temperature, pressure and humidity data of 10 LiDAR locations along a transect in the Gotthard wind park taken in during the summer of 2023.
The data is quality controlled and annotated according to CF-1.8 data principles. The methods behind this data collection are explained in an article under review called "Resolving three-dimensional wind velocity fields with sequential wind-Doppler LiDAR for wind energy in the complex terrain - Gotthard Pass, Switzerland".

atmospheric-dynamics

display_name: atmospheric-dynamics

atmospheric-turbulence

display_name: atmospheric-turbulence

lidar

display_name: lidar

remote-sensing

display_name: remote-sensing

wind

display_name: wind

wind-energy

display_name: wind-energy

en: Sequential Wind-Doppler LiDAR wind profile measurements on the Gotthard pass in Switzerland - Summer 2023


maintainer: Lyu

en: species-distribution-model fagales pinales species-richness species-occurrence species-range-map

en: Species range maps of species in Fagales and Pinales (with enough occurrences)

en: species_map.zip includes species 1690 range maps generated based on the integrated method described in Lyu et al., (2022). File names with (polygon) indicate that this map is only generated by polygon mapping, as there are not enough occurrences for SDMs.

en: Occurrence maps for species of Fagales and Pinales with few records

en: Point_buffer.zip includes 267 occurrence maps of species that do not have enough occurrence data for polygon mapping.

en:
This database contains 1957 distribution maps of species from Fagales and Pinales constructed based on a method integrating polygon mapping and SDMs (Lyu et al., 2022).
To construct the maps, we first collected occurrence data from 48 different sources. According to the number of occurrences after data cleaning, three kinds of maps are constructed: (1) For species with more than 20 occurrences, we performed SDM and polygon mapping described in Lyu et al. (2022) and select the integration of the two layers as the distribution range; (2) For species with more than 4 but less than 20 occurrences, we only use polygon mapping to draw the distribution range; (3) For species with less than 4 occurrences, a 20-km buffer was generated around the occurrences as the distribution range. The maps were manually checked and evaluated (see Note S3 and Table S9 in Lyu et al., 2022 for details).

fagales

display_name: fagales

pinales

display_name: pinales

species-distribution-model

display_name: species-distribution-model

species-occurrence

display_name: species-occurrence

species-range-map

display_name: species-range-map

species-richness

display_name: species-richness

en: Species distribution maps of Fagales and Pinales (GDPlants)


en: sads anthophila dominance honeybees urban-ecosystems cities urban-beekeeping wildbees

en: Dataset coordinates study cities

media_type: text/csv

en:
The data contains the latitude and longitude of the studied cities / urban aggregations. It contains the following columns:
- Continent
-Country
- City
- Lat: Latitude
- Lon: Longitude

format: CSV

en: Dataset species abundance

en:
This data resource provides the individual species abundance per city / urban aggregation. It contains data from 41 datasets from 37 studies collected in 33 cities / urban aggregations. It contains the following columns:
 - Article_ID
- DOI
- Authors
- Year
- Continent
- Country
- City
- Bee genus
- Bee species
- Bee merged
- Bee full
- Abundance
- Bee_ID_per_study: ID for the study

en: Dataset proportion honeybees and wild bees

en:
The dataset provide the main features for each included dataset from published and unpublished research works. Each row represents a dataset, which provides bee community data in one city / urban aggregation. Overall, it contains 68 datasets from 46 cities in 15 countries and five continents. The data is organised in the following columns:
- Article_ID: id used in the study
- DOI: doi of the publication, when available
- Authors
- Year: of publication
- Duration sampling (years)
- Start_sampling: month of the year
- End_sampling: month of the year
- Continent
- Country
- N. cities: number of cities included in the publication
- City
- Sampling type: active, passive or both
- Sampling methodology: within each sampling type.
- Habitats: list of sampling habitats
- N_habitats: number of sampling habitats
- Parks_similar: binnary (1 = yes; 0 = no)
- Agriculture: binnary (1 = yes; 0 = no)
- Private_gardens: binnary (1 = yes; 0 = no)
- Green_roofs: binnary (1 = yes; 0 = no)
- seminatural_natural_wasteland: binnary (1 = yes; 0 = no)
- other_unspecified: binnary (1 = yes; 0 = no)
- Number sites
- Abundance honeybees
- Abundance wild bees
- Total bees
- Proportion honeybees
- Proportion wildbees
- Area:. of the studied city/urban aggregation

en: R script for analyses and plots

format: OCTET

en:
The following repository contains the data and code to reproduce the figures analyses of the paper "Examining honeybee (Apis mellifera) dominance patterns within urban bee communities worldwide". It contains three datasets and one .R file

---

The data results from a literature review on abundance distribution of urban bee communities worldwide, aiming at obtaining studies reporting total abundances of honeybees and wildbees in a given city, and species abundances of wildbees and honeybees in a given city.

---

1. **Data**:
- *20240308_cities_coords.csv*: the data contains the latitude and longitude of the included cities in the study. It is used for making the world map with the cities.
- *20241201_proportion_HB_WB.csv*: the data contains the total wild bee and honeybee abundances per city/urban aggregation, and the proportions.
- *20241201_rad_bees.csv*: the data contains the species abundances per city/urban aggregation

2. **Script**:
- *HoneybeeDominance_Analyses_Figures.R*: the script to run the analyses and make the plots. Analyses were done in R version 4.2.1, using the packages ggplot2, glmmTMB, multcomp, wesanderson, terra.

anthophila

display_name: anthophila

cities

display_name: cities

dominance

display_name: dominance

honeybees

display_name: honeybees

sads

display_name: sads

urban-beekeeping

display_name: urban-beekeeping

urban-ecosystems

display_name: urban-ecosystems

wildbees

display_name: wildbees

educ

en: Education, culture and sport

en: Data supporting ‘Examining honeybee (Apis mellifera) dominance patterns within urban bee communities worldwide’


vegetation-height-model-sentinel-nfi

title_for_slug: vegetation-height-model-sentinel-nfi

en: remote-sensing cnn nfi vegetation-height sentinel-2 forest switzerland

media_type: image/tiff

format: TIFF

en: Countrywide vegetation height models (VHM) were generated for Switzerland based on Copernicus Sentinel-2 imagery and the digital terrain model (DTM) swissALTI3D from the Swiss Federal Office of Topography swisstopo. A Convolutional Neural Network (CNN) model was trained to estimate the maximum vegetation height at the spatial resolution of the Sentinel-2 pixel of 10 m. Vegetation heights from the spatially higher-resolved VHM Lidar NFI were used as reference data for the CNN training. Within the framework of the Swiss National Forest Inventory (NFI), the VHMs were modelled annually based on available Sentinel-2 imagery from May – September of the respective year. Further details on the creation of the VHM Sentinel NFI can be found in the paper Jiang et al. (2023, https://doi.org/10.1016/j.srs.2023.100099). Contains modified Copernicus Sentinel data.

cnn

display_name: cnn

forest

display_name: forest

nfi

display_name: nfi

remote-sensing

display_name: remote-sensing

switzerland

display_name: switzerland

vegetation-height

display_name: vegetation-height

envidat

en: EnviDat: the Environmental Data Portal

en: EnviDat is the WSL data portal providing unified and managed access to environmental monitoring and research data. The portal has the capability to host and publish data sets. Through the sharing of unique and high-value data sets worldwide, EnviDat fosters research and contributes to advancing environmental science.

en: Vegetation Height Model Sentinel NFI


maintainer: Merin Reji Chacko

en: dna-metabarcoding biomonitoring environmental-dna spatial-ecology biodiversity-assessment

en: Field Metadata

en: Information concerning the locations and times of sampling, as well as the identity of the samplers and relevant comments.

en: Genomic data

en: Fastq files, primer descriptions and the final output dataset.

en: Analysis and Figures

en: This zipped file includes R scripts and the datasets required to run the analyses. A README describes the columns in each dataset.

en: This dataset contains the results of a five-day field excursion which the extent to which eDNA sampling can capture the diversity of a region with highly heterogeneous habitat patches across a wide elevation gradient through multiple hydrological catchments of the Swiss Alps. Using peristaltic pumps, we filtered 60 L of water at five sites per catchment for a total volume of 1 800 L. Using an eDNA metabarcoding approach focusing on vertebrates and plants, we detected 86 vertebrate taxa spanning 41 families and 263 plant taxa spanning 79 families across ten catchments. This dataset includes two sets of data. The first (Genomic data) includes all the necessary data for the bioinformatic pipeline, whereas the second (Analysis Figures) contains tidied data and scripts for the reproduction of all figures/analyses in the article describing this study.

biodiversity-assessment

display_name: biodiversity-assessment

biomonitoring

display_name: biomonitoring

dna-metabarcoding

display_name: dna-metabarcoding

environmental-dna

display_name: environmental-dna

spatial-ecology

display_name: spatial-ecology

en: Vertebrate and plant taxa recovered from 10 catchments in Vaud using an eDNA-metabarcoding approach


maintainer: EnviDat Support

en: water-isotopes soil-solution water-budget forest-ecosystems xylem-water

media_type: image/png

en: Overview of most soil solution water isotopic signatures.

format: PNG

en: Overview of most bulk soil water isotopic signatures.

en: Column descriptions for soil solution, deposition, xylem and bulk soil samples.

format: XLS

en: Water isotope signatures and gravimetric water content of xylem samples.

en: Water isotopic signature of deposition samples.

en: Overview of most xylem water isotopic signatures.

en: Overview of most deposition water isotopic signatures.

en: Water isotope signatures and gravimetric water content of bulk soil samples.

en: Water isotope signatures of soil solution samples.

en:
The isotope composition of different forest water pools was analyzed at 10 sites of the Long-term Forest Ecosystem Research programme in 2021 and 2022. The sampling was done during the vegetation season and included fortnightly xylem water samples taken by stem increment cores and each year 3 bulk soil water sampling campaigns (in April, June, September of 2021 and 2022). Both sample types were cryogenically extracted at WSL and analyzed on a Picarro 2140 with Micro-Combustion-Module. Gravimetric water content in both sample types was computed based on pre-and post-extraction weights. In addition to xylem and bulk soil waters, we analyzed the isotope composition of soil solution from a suction cup lysimeters in three soil depths 0, 15, 50, 80 cm and precipitation from samplers below the canopy and outside of the forest, all collected fortnightly from collection periods of varying length (longest from 2017-2022).
Precipitation samples are further described [here](https://www.doi.org/10.16904/envidat.lwf.15). Lysimeter samples are described further [here](https://www.doi.org/10.16904/envidat.lwf.28).

forest-ecosystems

display_name: forest-ecosystems

soil-solution

display_name: soil-solution

water-budget

display_name: water-budget

water-isotopes

display_name: water-isotopes

xylem-water

display_name: xylem-water

en: Water isotope signatures in Swiss forest ecosystems in 2021 and 2022


maintainer: Armin Sigmund

en: meteorological-measurements drifting-snow blowing-snow atmospheric-turbulence antarctica

en: (k) Wind speed profiles

en: Average vertical profiles of horizontal wind speed based on the ultrasonic anemometer data.

en: (e) Sonic data 2

en: Ultrasonic anemometer data in the period from 11 to 21 October 2000.

en: (d) Sonic data 1

en: Ultrasonic anemometer data in the period from 30 September to 11 October 2000.

en: (c) SPC average profiles

en: Average vertical profiles of the horizontal snow mass flux, particle number size distribution, and mean and standard deviation of the particle diameter.

en: (a) Metadata

en: General and specific metadata for all files.

en: (m) Weather observations

en: Weather elements and phenomena observed by the Japanese Meteorological Agency.

en: (l) AWS data

en: Automatic weather station data with 10-min intervals.

en: (g) Sonic data 4

en: Ultrasonic anemometer data in the period from 30 October to 6 November 2000.

en: (b) SPC time series

en: Data from the snow particle counters with 1-s intervals.

en: (j) Spike percentage

en: Percentage of spikes removed from the ultrasonic anemometer data per 5-min interval.

en: (f) Sonic data 3

en: Ultrasonic anemometer data in the period from 21 to 30 October 2000.

en: (i) Sonic data 6

en: Ultrasonic anemometer data in the period from 13 to 18 November 2000.

en: (h) Sonic data 5

en: Ultrasonic anemometer data in the period from 6 to 13 November 2000.

en:
This data was collected at Mizuho Station (44.315°E, 70.71°S, 2230 m a.s.l.), East Antarctica, from **30 September to 22 November 2000** during the 41st Japanese Antarctic research expedition. Vertical profiles of the horizontal mass flux and particle number size distribution of drifting and blowing snow were measured in the lowest 10 m of the atmosphere using four **snow particle counters** (SPCs). Three 3-dimensional **ultrasonic anemometers** were deployed in the lowest 25 m of the atmosphere to record the wind velocity components and sonic temperature at a high frequency of 100 Hz. Additionally, an **automatic weather station** provided air temperature, relative humidity, air pressure, shortwave and longwave downward and upward radiation fluxes, surface temperature, snow temperatures at depths of 0.1 and 0.4 m below the surface, wind speed, and wind direction. The data is complemented by **weather observations** performed twice to eleven times per day by the Japanese Meteorological Agency.
Most of the time, the lowest SPC was situated at a height of 0.05 or 0.1 m above the snow surface. During certain periods called profile runs, the height of the lowest SPC was systematically varied between 0.02 and 0.2 m to increase the vertical resolution of the measured profiles. The other SPC's were installed at fixed heights of 1.1, 3.1, and 9.6 m. During each profile run, the lowest SPC was kept at a specific height for approximately 10 min before changing the height. If the wind speed remained approximately constant throughout a profile run, the data was used to compute the average snow-transport profile in that period. In total, 24 of such average profiles were obtained. A part of these SPC measurements are discussed in Nishimura and Nemoto (2005).
The ultrasonic anemometers were placed at heights of 0.3, 1, and 25 m. However, the height of the lowest ultrasonic anemometer was changed several times in the measurement period and ranged from 0.05 to 0.32 m. On top of that, 19 short periods (each lasting 15 to 160 min) were used to systematically vary the height of the lowest ultrasonic anemometer and thus increase the vertical resolution of the measured wind speed profile. Occasionally, drifting and blowing snow particles perturbed the ultrasonic measurement signal and electrically-charged particles caused an electric charge of the anemometers, leading to artifacts such as spikes and dropouts in the measured time series. These artifacts were largely removed and replaced by NaN, using the statistical spike removal algorithm of Mauder et al. (2013). However, the artifact removal was sometimes incomplete for the lowest anemometer because of very intense snow transport close to the surface. While temporal averages are barely affected by the artifacts, the high-frequency data of the lowest anemometer should be used carefully when computing turbulent fluxes using the eddy-covariance method. Further important explanations are provided in the file Readme.pdf in data resource '(a) Metadata'.
References
- Mauder, M., Cuntz, M., Drüe, C., Graf, A., Rebmann, C., Schmid, H.P., Schmidt, M., Steinbrecher, R. (2013). A strategy for quality and uncertainty assessment of long-term eddy-covariance measurements. Agric For Meteorol 169:122–135. https://doi.org/10.1016/j.agrformet.2012.09.006
- Nishimura, K., Nemoto M. (2005). Blowing snow at Mizuho station, Antarctica. Phil. Trans. R. Soc. A. 363: 1647–1662. https://doi.org/10.1098/rsta.2005.1599

antarctica

display_name: antarctica

atmospheric-turbulence

display_name: atmospheric-turbulence

blowing-snow

display_name: blowing-snow

drifting-snow

display_name: drifting-snow

meteorological-measurements

display_name: meteorological-measurements

educ

en: Education, culture and sport

envidat

en: EnviDat is the WSL data portal providing unified and managed access to environmental monitoring and research data. The portal has the capability to host and publish data sets. Through the sharing of unique and high-value data sets worldwide, EnviDat fosters research and contributes to advancing environmental science.

en: Profile measurements of snow transport and micrometeorology at Mizuho Station in Antarctica


maintainer: Henning Löwe

en: spherical-model-snow discrete-element-modelling microstructure unconfined-compression-experiments 3d-ct-images snow-mechanics

media_type: text/plain

format: TXT

mimetype: text/plain

en: Data Structure (Python Notebook)

en: Data Access

en:
For the investigation of microstructural and mechanical properties of snow unconfined compression experiments and 3D computed tomography (CT) imaging were performed on sintered rounded grain snow and spherical model snow. The spherical model snow was generated to create geometrically simplified, well-defined microstructures for calibration of numerical models, such as discrete element models (DEM) in which the microstructure is represented by spherical particles.
In the experiments, microstructural variation was created by varying the sintering time (contact size) and the density of the ice sphere samples (number of contacts). The 3D CT images allow for a complete reconstruction of the entire experimental sample (cylindrical sample dimension: diameter = 33.6 mm; height = 14 mm).

discrete-element-modelling

display_name: discrete-element-modelling

microstructure

display_name: microstructure

snow-mechanics

display_name: snow-mechanics

spherical-model-snow

display_name: spherical-model-snow

unconfined-compression-experiments

display_name: unconfined-compression-experiments

en: EnviDat: the Environmental Data Portal

en: Unconfined compression experiments and 3D CT images of spherical model snow and RG snow samples


maintainer: Yohann Chauvier

en: survey-effort independent-dataset plant-species environmental-stratification target-group random-stratified-sampling covariate-correction background-data point-process-model cluster

en: Non-copyright data, scripts, diversity outputs

en:
Aim: While species distribution models (SDMs) are standard tools to predict species distributions, they can suffer from observation and sampling biases, particularly presence-only SDMs that often rely on species observations from non-standardized sampling efforts. To address this issue, sampling background points with a target-group strategy is commonly used, although more robust strategies and refinements could be implemented. Here, we exploited a dataset of plant species from the European Alps to propose and demonstrate efficient ways to correct for observer and sampling bias in presence-only models.

Innovation: Recent methods correct for observer bias by using covariates related to accessibility in model calibrations (classic bias covariate correction, Classic-BCC). However, depending on how species are sampled, accessibility covariates may not sufficiently capture observer bias. Here, we introduced BCCs more directly related to sampling effort, as well as a novel corrective method based on stratified resampling of the observational dataset before model calibration (environmental bias correction, EBC). We compared, individually and jointly, the effect of EBC and different BCC strategies, when modelling the distributions of 1’900 plant species. We evaluated model performance with spatial block split-sampling and independent test data, and assessed the accuracy of plant diversity predictions across the European Alps.

Main conclusions: Implementing EBC with BCC showed best results for every evaluation method. Particularly, adding the observation density of a target group as bias covariate (Target-BCC) displayed most realistic modelled species distributions, with a clear positive correlation (r≃0.5) found between predicted and expert-based species richness. Although EBC must be carefully implemented in a species-specific manner, such limitations may be addressed via automated diagnostics included in a provided R function. Implementing EBC and bias covariate correction together may allow future studies to address efficiently observer bias in presence-only models, and overcome the standard need of an independent test dataset for model evaluation.

background-data

display_name: background-data

cluster

display_name: cluster

covariate-correction

display_name: covariate-correction

environmental-stratification

display_name: environmental-stratification

independent-dataset

display_name: independent-dataset

plant-species

display_name: plant-species

point-process-model

display_name: point-process-model

random-stratified-sampling

display_name: random-stratified-sampling

survey-effort

display_name: survey-effort

target-group

display_name: target-group

en: Novel methods to correct for observer and sampling bias in presence-only species distribution models


maintainer: Gesa von Hirschheydt

en: sessile-species swisslichens inter-observer-difference detectability detection-probability bayesian-inference observer-error biodiversity monitoring lichens occupancy-model cryptogams

en: Repository containing the full data, code, README and workflow files.

en:
The available lichen data consists of detection/nondetection data (1/0) of 373 tree-inhabiting (*corticolous*) lichen species from 416 plots surveyed 1-2 times. The lichen data were originally collected for the purpose of the Red List of epiphytic lichen species in Switzerland ([Scheidegger *et al.* 2002](https://www.bafu.admin.ch/bafu/de/home/themen/biodiversitaet/publikationen-studien/publikationen/rote-liste-gefaehrdete-arten-baum-erdbewohnende-flechten.html)), but updated to recent nomenclature for the purpose of this study.
This repository contains all the supporting data and R code for the paper:
von Hirschheydt, G., Kéry, M., Ekman, S., Stofer, S., Dietrich, M., Keller, C., Scheidegger, C. (2024) **Occupancy model reveals limited detectability of lichens in a standardised large-scale monitoring**. *Journal of Vegetation Science*.
Results and figures presented in the manuscript should be reproducible (with small differences in the latter digits due to stochasticity of the MCMC sampler) with the provided data and code.
The downloadable `.zip` folder has the following structure:
* `0_data/`
* `1_code/`
* `2_output/`
* `lichen_detectability.Rproj`
* `README.txt`
* `workflow.html`
- `workflow.Rmd`

The main folder and the three subordinate folders each have their own `README*.txt` file. These describe each available file in detail and should be consulted prior to using the data or running any code. The file `lichen_detectability.Rproj` stores the information about the R project. The user can open the project by clicking/double-clicking on this file which will automatically define the repository as working directory for the R session. If the user does not use RStudio/Posit, they may have to set the working directory manually to the stored location in the R files. The files `workflow.*` guide the user through the analysis (`1_code/*.R`) in the correct order so that they can:
- bundle the cleaned data into a data list readable for JAGS
- fit the multi-species occupancy model to the data and store the output
- assess the goodness-of-fit of the model to the data
- conduct a prior sensitivity analysis with 2 additional sets of priors
- extract the summary statistics reported in the manuscript and supplementary materials
- generate the figures shown in the manuscript and supplementary materials

bayesian-inference

display_name: bayesian-inference

biodiversity

display_name: biodiversity

cryptogams

display_name: cryptogams

detectability

display_name: detectability

detection-probability

display_name: detection-probability

inter-observer-difference

display_name: inter-observer-difference

lichens

display_name: lichens

monitoring

display_name: monitoring

observer-error

display_name: observer-error

occupancy-model

display_name: occupancy-model

sessile-species

display_name: sessile-species

swisslichens

display_name: swisslichens

en: Repeated detection-nondetection data of corticolous lichens from a standardised monitoring across Switzerland


en: fish magdalena edna metabarcoding teleo colombia vert01

en: Data access

en: Please cyberduck to download for the moment

en:
Monitoring of vertebrates of the lower Magdalena river through eDNA metabarcoding

The Magdalena River basin harbors a large biodiversity of vertebrates, with numerous endemic species, many of which are threatened. Here, we used environmental DNA (eDNA) metabarcoding, with two primer sets targeting different regions of the mitochondrial DNA 12S ribosomal RNA gene, to detect vertebrate diversity in the Magdalena River. We detected a total of 159 vertebrate taxa, not only aquatic but also terrestrial, arboreal, and aerial. The diversity of these vertebrates increases in relation to the proximity to the river mouth with a change in the composition of the assemblage of aquatic vertebrates detected. We conclude that eDNA metabarcoding allows characterizing vertebrate assemblages in large rivers, assessing conservation status, and elucidating biodiversity patterns with minimal ecosystem disturbance. Samples were taken at the sides of the river or in the center using a boat. At each station, we performed two filtration replicates using a peristaltic pump to conduct environmental DNA (eDNA) sampling. Each filtration targeted a maximum duration of 1 hours, during which a maximum of 30 liters of water were filtered through each capsule. After filtration, the water inside the capsules was removed, and the capsules were filled with 50 ml of conservation buffer for preservation at room temperature. We followed strict contamination control protocols throughout both the fieldwork and laboratory processes, adhering to the guidelines of Valentini et al. (2016). To prevent contamination, each sample was processed using disposable gloves and single-use filtration equipment. The MiSeq Reagent Kit v3 (2x75 bp) (Illumina, San Diego, CA, USA) was used for paired-end sequencing at a theoretical sequencing depth of 200,000 reads per sample.

Data content:
	* rawdata/: contains the raw reads for each individual sample. One archive contains the paired-end reads specified by the _R1 or _R2 suffix as well as individually tagged PCR replicates (if available) together with an archive containing all extraction and PCR blank samples of the library. Reads have been demultiplexed using cutadapt but not trimmed, individual demultiplexing tags and primers remain present in the sequences.
	* taxadata/: contains the table with all detected taxonomy for each sample after bioinformatic processing (see Polanco et al. 2020 for details; https://doi.org/10.1002/edn3.140) and associated field metadata.
	* metadata/: contains two metadata files, one related to the data collected in the field for each filter, and the second related to the sequencing process in the lab (including the tag sequence, library name, and marker information for each sample)

colombia

display_name: colombia

edna

display_name: edna

fish

display_name: fish

magdalena

display_name: magdalena

metabarcoding

display_name: metabarcoding

teleo

display_name: teleo

educ

en: Education, culture and sport

en: Environmental DNA Freshwater Colombia Magdalena 2022


maintainer: Mathias Bavay

en: relative-humidity wind-direction stillberg snow-depth air-temperature dew-point-temperature soil-temperature wind-speed air-pressure shortwave-radiation precipitation-sum treeline

en: The Davos Stillberg meteorological data (Stillberg_meteo_v1.zip) consists of timeseries from five meteorological stations operated at the Stillberg treeline ecological research site. Metadata are provided in the folder 'Stillberg_meteo_metadata' and the data in the folder 'Stillberg_meteo_data' with subfolders for the three quality levels 'raw_standardized', ‘raw_edited’, and ‘filtered’.

en: The Davos Stillberg meteorological data (Stillberg_meteo_v2.0.zip) consists of timeseries from five meteorological stations operated at the Stillberg treeline ecological resea...

en: The Davos Stillberg meteorological data (Stillberg_meteo_v1.1.zip) consists of timeseries from five meteorological stations operated at the Stillberg treeline ecological research site. Metadata are provided in the folder 'Stillberg_meteo_metadata' and the data in the folder 'Stillberg_meteo_data' with subfolders for the three quality levels 'raw_standardized', ‘raw_edited’, and ‘filtered’.

en:
 Background information
The Stillberg ecological treeline research site is located in the transition zone between the relatively humid climate of the Northern Alps and the continental climate of the Central Alps. In 1975, 92,000 seedlings of the high-elevation conifer species *Larix decidua* Mill. (European larch), *Pinus cembra* L. (Cembran pine), and *Pinus mugo* ssp. *uncinata* (DC.) Domin (mountain pine) were systematically planted across an area of 5 hectares along an elevation gradient of about 150 metres, with the aim to develop ecologically, technically, and economically sustainable afforestation techniques at the treeline to reduce the risk of snow avalanches. In the course of time, additional research aspects gained importance, such as the ecology of the treeline ecotone under global change. Alongside the ecological long-term monitoring of the afforestation, several meteorological stations have recorded local meteorological conditions at the Stillberg research site. Here, we provide the Davos Stillberg meteorological timeseries of five stations from 1975 (01-01-1975), the year of the afforestation establishment, until the end of the year 2022 (31-12-2022).

 Station description
The five meteorological stations were all installed at the same location (46°46′25.015″N 9°52′01.792″E) at 2090 m a.s.l., in the lower part of the afforestation area. In general, the five stations were operated sequentially (Stillberg_meteo_metadata_stations_v1.csv). However, there are some overlapping time periods when more than one station was operated in parallel. The stations have recorded environmental parameters, such as air and soil temperature, dew point temperature, air pressure, relative humidity, wind direction and velocity, radiation, precipitation, and snow depth (Stillberg_meteo_metadata_parameters_v1.csv). The meteorological measurements were recorded hourly from 1975 until 1996 and have been recorded in 10-minute intervals since 1997.

 Data description
We processed the Davos Stillberg meteorological timeseries with the MeteoIO meteorological data pre-processing library (Bavay & Egger, 2014). Data files are provided for each station and quality level separately and named according to the station (see ‘Stillberg_meteo_metadata_stations_v1.csv’). From the raw data in their original formats, we generated three data quality levels: raw standardized (folder ‘raw_standardized’), edited (folder ‘raw_edited’) and filtered (folder ‘filtered’). The processing level is indicated in the headers of the data files. The whole processing protocol is described in a set of human-readable configuration files that are used by MeteoIO to generate the required data quality levels. This improves long-term reproducibility (Bavay et al., 2022), as the data could be regenerated in the future, even using a completely different software, to account for additional data points or to introduce new data corrections. The first quality level (raw standardized) is generated by parsing the original data files and interpreting them in order to convert all data points to a common format and meteorological parameter naming scheme, while excluding unreadable or duplicated data lines. The generated data files are derivatives of CSV files, with a standardised header that contains the metadata that are necessary to interpret and use the data (use metadata) and to populate a data index (search metadata). The latter is a textual implementation of the Attribute Convention for Data Discovery (ACDD) metadata standard (Attribute Convention for Data Discovery 1-3, 2022). The second quality level (edited) builds on the raw data by performing low-level data editing, such as removing some data periods that are known to be unusable (often based on maintenance records or anecdotal evidence) or applying undocumented calibration factors (for example, when there seems to be an obvious offset on a measured parameter for a period between two documented maintenance operations). The third quality level is generated by applying statistical filters on the data (per station and per meteorological parameter) to exclude presumably wrong values. We did not perform gap filling, as no single strategy could be relied upon that would work best for all possible data usage scenarios.

air-pressure

display_name: air-pressure

air-temperature

display_name: air-temperature

dew-point-temperature

display_name: dew-point-temperature

precipitation-sum

display_name: precipitation-sum

relative-humidity

display_name: relative-humidity

shortwave-radiation

display_name: shortwave-radiation

snow-depth

display_name: snow-depth

soil-temperature

display_name: soil-temperature

stillberg

display_name: stillberg

treeline

display_name: treeline

wind-direction

display_name: wind-direction

wind-speed

display_name: wind-speed

envidat

en: EnviDat is the WSL data portal providing unified and managed access to environmental monitoring and research data. The portal has the capability to host and publish data sets. Through the sharing of unique and high-value data sets worldwide, EnviDat fosters research and contributes to advancing environmental science.

en: Long-term meteorological station Stillberg, Davos, Switzerland at 2090 m a.s.l.


en: snow-density snow-water-equivalent snow-ice-temperature weisfluhjoch snow-stratigraphy

en: README

en: README file giving use metadata.

en: WFJ Snow Profiles 1999-2014

en:
Biweekly manual snow profiles from Weissfluhjoch, Davos, Switzerland.
Version: 2015-09-14T16:25

mimetype: application/zip

en: Dataset of manual bi-weekly snow profiles from Weissfluhjoch, Davos, Switzerland. Typical snow profile measurements and observations are included (temperature, density, grain size, grain type, hardness, wetness), following the guidelines of the The International Classification for Seasonal Snow on the Ground (ICSSG) [Fierz, C., Armstrong, R.L., Durand, Y., Etchevers, P., Greene, E., McClung, D.M., Nishimura, K., Satyawali, P.K. and Sokratov, S.A. 2009. The International Classification for Seasonal Snow on the Ground. IHP-VII Technical Documents in Hydrology N°83, IACS Contribution N°1, UNESCO-IHP, Paris].

snow-density

display_name: snow-density

snow-ice-temperature

display_name: snow-ice-temperature

snow-stratigraphy

display_name: snow-stratigraphy

snow-water-equivalent

display_name: snow-water-equivalent

weisfluhjoch

display_name: weisfluhjoch

en: EnviDat: the Environmental Data Portal

en: Manual bi-weekly snow profiles from Weissfluhjoch, Davos, Switzerland


en: species-distribution synonyms large-scale gbif r-package hard-limit species-observations taxonomy occurrence-records landsca range-maps accepted-name filtering conservation ecoregions flags

en: GitHub URL

en: gbif.range R package version 1.1 (current)

en: wsl.gbif R package version 0.1 (deprecated)

en: Test version, not to be used.

en: gbif.range R package version 0.2 (deprecated)

en: Although species range may be obtained using expert maps or modeling methods, expert data is often species-limited and statistical models need more technical expertise as well as many species observations. When unavailable, such information may be extracted from the Global Biodiversity Information facility (GBIF), the largest public data repository inventorying georeferenced species observations worldwide. However, retrieving GBIF records at large scale may be tedious if users are unaware of specific tools and functions that need to be employed. Here we present *gbif.range*, an R library that contains automated methods to generate species range maps from scratch using in-house ecoregions shapefiles and an easy-to-use GBIF download wrapper. Finally, this library also offers a set of additional very useful parameters and functions for large GBIF datasets (generate doi, extract GBIF taxonomy, records filtering...). [gbif.range R project](https://github.com/8Ginette8/gbif.range)

accepted-name

display_name: accepted-name

conservation

display_name: conservation

ecoregions

display_name: ecoregions

filtering

display_name: filtering

flags

display_name: flags

gbif

display_name: gbif

hard-limit

display_name: hard-limit

landsca

display_name: landsca

large-scale

display_name: large-scale

occurrence-records

display_name: occurrence-records

r-package

display_name: r-package

range-maps

display_name: range-maps

species-distribution

display_name: species-distribution

species-observations

display_name: species-observations

synonyms

display_name: synonyms

taxonomy

display_name: taxonomy

educ

en: Education, culture and sport

en: gbif.range - An R package to generate species range maps based on ecoregions and a user-friendly GBIF wrapper


maintainer: Matthias Haeni

en: precipitation meteo swiss-forest-lab wind-speed relative-humidity par temperature meteorology climate-change long-term

en: Site aerial photo (Beatenberg)

en: Site aerial photo from both Beatenberg stations. Source: Google. 2016. Site aerial photo from both Beatenberg stations. Retrieved November 11, 2016, from https://www.google.ch/maps

mimetype: image/jpeg

en: Data plot of the forest station (BAB)

media_type: application/pdf

en: Data overview for air temperature, relative humidity, precipitation, PAR, wind speed.

format: PDF

mimetype: application/pdf

en: Data plot of the field station (BAF)

en: Site photo of the forest station (BAB)

en: Site photo of the forest station from below (viewing upwards the slope).

en: Site photo of the field station (BAF)

en: Site photo of the field station from below (viewing upwards the slope).

en: Forest station data (BAB)

en: Data file.

mimetype: text/csv

en: Field station data (BAF)

en:
High quality meteorological data are needed for long-term forest ecosystem research, particularly in the light of global change. The long-term data series published here comprises almost 20 years of measurements for two meteorological stations in Beatenberg in Switzerland where one station is located within a natural coniferous forest (BAB) with Norway spruce (_Picea abies_; 190-210 yrs) as dominant tree species. A second station is situated in the very vicinity outside of the forest (field station, BAF). The meteorological time series are presented in hourly time resolution of air temperature, relative humidity, precipitation, photosynthetically active radiation (PAR) and wind speed. Beatenberg is part of the Long-term Forest Ecosystem Research Programme (LWF) established and maintained by the
Swiss Federal Research Institute WSL.

climate-change

display_name: climate-change

long-term

display_name: long-term

meteo

display_name: meteo

meteorology

display_name: meteorology

par

display_name: par

precipitation

display_name: precipitation

relative-humidity

display_name: relative-humidity

swiss-forest-lab

display_name: swiss-forest-lab

temperature

display_name: temperature

wind-speed

display_name: wind-speed

envidat

en: EnviDat is the WSL data portal providing unified and managed access to environmental monitoring and research data. The portal has the capability to host and publish data sets. Through the sharing of unique and high-value data sets worldwide, EnviDat fosters research and contributes to advancing environmental science.

en: Beatenberg, Switzerland: Long-term forest meteorological data from the Long-term Forest Ecosystem Research Programme (LWF), from 1997 onwards


en: 3d-point-cloud mobile-laser-scanning unmanned-aerial-vehicle-laser-scanning terrestrial-laser-scanning terrestrial-photogrammetry forest-inventory lidar structure-from-motion

en:
Close Range Remote Sensing Benchmark for different LiDAR and photogrammetric Sensors in a mixed temperate forest.
Benchmarks are needed to evaluate the performance of different close-range remote sensing devices and approaches, both in terms of efficiency as well as accuracy. In this study we evaluate the performance of two terrestrial (TLS), one handheld mobile (PLS) and two drone based (UAVLS) laser scanning systems to detect trees and extract the diameter at breast height (DBH) in three plots with a steep gradient in tree and understorey vegetation density. As a novelty, we also tested the acquisition of 3D point-clouds using a low-cost action camera (GoPro) in conjunction with the Structure from Motion (SfM) technique and compared its performance with those of the more costly LiDAR devices.

forest-inventory

display_name: forest-inventory

lidar

display_name: lidar

mobile-laser-scanning

display_name: mobile-laser-scanning

structure-from-motion

display_name: structure-from-motion

terrestrial-laser-scanning

display_name: terrestrial-laser-scanning

terrestrial-photogrammetry

display_name: terrestrial-photogrammetry

unmanned-aerial-vehicle-laser-scanning

display_name: unmanned-aerial-vehicle-laser-scanning

educ

en: Education, culture and sport

en: EnviDat: the Environmental Data Portal

en: Ramerenwald Close Range Remote Sensing Benchmark


en: treemig forest climate-change bioclimatic-variables forest-management example-applications species-migration spatial-modelling r-package forest-dynamics land-use

en: R-script to install the TreeMig framework and start the graphical user interface

en: A condensed instruction for running the presented simulations.

en: Where the environmental and land use input data come from and how they were processed

en:
1) Simulation environment TMEnvironmentExampleApplications for the simulation of the case study applications. It contains a) simulation settings (folder C), b) species parameters (folder P), c) folders S, R and P for the state files and results and plots to be produced, and the binaries of the TreeMig model.
2) Input data for Switzerland in TMInputData (Climate, soil, land cover, DEM)
3) Several R scripts (folder Scripts) to run and plot the simulations directly from R without having to use the graphical user interface.
For learning how to use TreeMig we recommend the starter kit https://www.doi.org/10.16904/envidat.533.

en:
The TreeMig framework allows for an easy application of the forest landscape model TreeMig for simulating forest dynamics in space under changing environmental and land use conditions.
Here, case study examples in Switzerland are given that simulate the dynamics and spatial spread of competing tree species in a region in Switzerland, the invasion of a hypothetical invasive tree species, and the control of this species via a management model coupled to TreeMig. The datasets consist of the installation- and GUI starting-script, example environmental input data for Switzerland, the simulation environment, and further R-scripts for running the simulations and plotting the simulation results directly from R and for coupling TreeMig to the forest management model.

bioclimatic-variables

display_name: bioclimatic-variables

climate-change

display_name: climate-change

example-applications

display_name: example-applications

forest

display_name: forest

forest-dynamics

display_name: forest-dynamics

forest-management

display_name: forest-management

land-use

display_name: land-use

r-package

display_name: r-package

spatial-modelling

display_name: spatial-modelling

species-migration

display_name: species-migration

treemig

display_name: treemig

en: Case study applications demonstrating the use and potential of the TreeMig framework v1


en: cmip5 air-temperature orographic-precipitation precipitation-amount climate-change

en: Data Access

en:
Predicting future climatic conditions at high spatial resolution is essential for many applications in science. Here we present data for monthly time series of precipitation and minimum and maximum temperature for four downscaled global circulation models. We used model output statistics in combination with mechanistic downscaling (the CHELSA algorithm) to calculate mean monthly maximum and minimum temperatures, as well as monthly precipitation sums at ~5km spatial resolution globally for the years 1850-2100. We validated the performance of the downscaling algorithm by comparing model output with observed climates for the years 1950-2069.

CHELSA_cmip5_ts is licensed under a Creative Commons Attribution 2.0 Generic (CC BY 2.0) license.

air-temperature

display_name: air-temperature

orographic-precipitation

display_name: orographic-precipitation

precipitation-amount

display_name: precipitation-amount

en: High resolution monthly precipitation and temperature timeseries for the period 2006-2100


data-broedlin-cnp

title_for_slug: data-broedlin-cnp

en: drying-rewetting carbon mineralization soil phosphorus forest dissolved-organic-matter nitrogen stoichiometry

en: Data Broedlin-CNP

en: Data Broedlin-CNP-Release

en: Raw data of C-N-P mobilization experiment from Oi, Oe/Oa, and A horizons of beech forest soils along a nutrient availability gradient.

en: Mircocosm experiment to identify the individual patterns and controls of C, N, and P mobilization in soils under beech forests. Organic and mineral horizons sampled along a nutrient availability gradient in Germany were exposed to either permanent moist conditions or to dry spells in microcosms and quantified the release of inorganic and organic C, N, and P.

carbon

display_name: carbon

dissolved-organic-matter

display_name: dissolved-organic-matter

drying-rewetting

display_name: drying-rewetting

mineralization

display_name: mineralization

nitrogen

display_name: nitrogen

phosphorus

display_name: phosphorus

soil

display_name: soil

stoichiometry

display_name: stoichiometry

envidat

en: EnviDat is the WSL data portal providing unified and managed access to environmental monitoring and research data. The portal has the capability to host and publish data sets. Through the sharing of unique and high-value data sets worldwide, EnviDat fosters research and contributes to advancing environmental science.

en: Data Broedlin CNP


maintainer: Ionuț Iosifescu Enescu

en: Bulk Data Access

en: Link to the S3 bucket where all the data resources can be downloaded in bulk

format: GeoTIFF

en: map preview 0.5MB

en:
The attached data are some large GIS raster files (GeoTIFFs) made with Natural Earth data. Natural Earth is a free vector and raster map data @ naturalearthdata.com. The data used for creating these large files was the "Cross Blended Hypso with Shaded Relief and Water". Data was concatenated to achieve larger and larger files. Internal pyramids were created, in order that the files can be opened easily in a GIS software such as QGIS or by a (future) GIS data visualisation module integrated in EnviDat.

Made with Natural Earth. Free vector and raster map data @ naturalearthdata.com

gis

display_name: gis

large-files

display_name: large-files

natural-earth

display_name: natural-earth

qgis

display_name: qgis

educ

en: Education, culture and sport

envidat

en: EnviDat: the Environmental Data Portal

en: Large GIS raster data derived from Natural Earth Data (Cross Blended Hypso with Shaded Relief and Water)


maintainer: Frank Techel

en: rutschblock-test extended-column-test switzerland avalanche-danger avalanche-observations norway

en: ECT data (Norway, Switzerland)

en: Rutschblock data (Switzerland)

en: avalanche occurrence data (Norway, Sitzerland) - largest avalanche size per day and warning region

en: avalanche occurrence data (Norway, Sitzerland) - avalanche sizes per day and warning region

en:
Observational data used to quantitatively describe the key elements describing avalanche danger: snowpack stability, the frequency distribution of snowpack stability, and avalanche size.
The data set consists of
- Rutschblock test results (Switzerland)
- Extended Column Test results (Switzerland, Norway)
- Avalanche occurrence data (Switzerland, Norway).
The data were extracted from the respective operational databases of the national avalanche warning services in Switzerland (WSL Institute for Snow and Avalanche Research SLF Davos, Switzerland) and Norway (The Norwegian Water Resources and Energy Directorate NVE).
For further information regarding the data, please refer to the publication or contact the author.

avalanche-danger

display_name: avalanche-danger

avalanche-observations

display_name: avalanche-observations

extended-column-test

display_name: extended-column-test

norway

display_name: norway

rutschblock-test

display_name: rutschblock-test

switzerland

display_name: switzerland

en: Stability tests, avalanche observations, Switzerland, Norway


en: bacteria restoration soil soil-biodiversity soil-biology soil-chemistry fungi plants grassland biodiversity topsoil-removal nematodes

en: Soil properties

en:
Plot.ID	consecutive numbers for plots (in total 36 plots)
Treatment	One restoration treatment and two reference treatments. Topsoil+Propagules= Topsoil removal (upper 10-30 cm) combined with introduction of target plant species; Initial=intensively managed grasslands; Target= species-rich semi-wet to semi-dry grasslands
treat.yr	Treatment abbreviation. For restored grasslands: Treatment abbreviation + time since restoration; Initial + Target = NA
yr.trt	year when topsoil was removed; Initial + Target = NA
Age	time since restoration (sampling year 2018 - yr.trt); Initial + Target = NA
Age.class	restored sites of similar age grouped into four age classes. Y.4 = Year 3+4 (recently restored); Y.18 = Year 17+19 (mid-term); Y.24 = Year 23+25 (long-term); Y.30 = Year 27+32 (long-term); Initial + Target = NA
Cluster	clustered spatial arrangment of sites in the field (see Supporting Information Fig. S1)
Site	clustered spatial arrangment (replicates) of plots per site (see Supporting Information Fig. S1)
N.pool	Soil nitrogen pool (June 2017); corrected for bulk density and 12 cm sampling depth [kg ha-1 12cm-1]
Corg.pool	Soil organic carbon pool (June 2017); corrected for bulk density and 12 cm sampling depth [kg ha-1 12cm-1]
pH	soil pH [CaCl2]
BD	Bulk density [g cm-3]
FC	Field capacity [%]
Veg.1	principle coordinate axis 1 (vegetation)
Veg.1	principle coordinate axis 2 (vegetation)
Nem.1	principle coordinate axis 1 (nematoda)
Nem.2	principle coordinate axis 2 (nematoda)
Fun.1	principle coordinate axis 1 (fungi)
Fun.2	principle coordinate axis 2 (fungi)
Prok.1	principle coordinate axis 1 (prokaryota)
Prok.2	principle coordinate axis 2 (prokaryota)
Veg.H	Shannon diversity (vegetation)
Nem.H	Shannon diversity (nematoda)
Fun.H	Shannon diversity (fungi)
Prok.H	Shannon diversity (prokaryota)

en: Networks

en:
Treatment	Treatment groups; Y.4-18 = restored grasslands; Initial = intensively managed grasslands; Target = species-rich semi-wet to semi-dry grasslands
Correlation	non-parametric Spearman rank correlations
Vertex.1+2	Comparison between network components; N.pool = total soil nitrogen pool [kg ha-1 12 cm-1]; Corg.pool = soil organic carbon pool [kg ha-1 12 cm-1], pH = soil pH [CaCl2]; BD = bulk density [g cm-3]; FC = field capacity [%]
	PCoA 1 + 2 biotic communities [Veg = vegetation; Nem = nematoda; Fun = fungi; Prok = prokaryota]
Type	Interactions type; A.A = abiotic.abiotic; A.B = abiotic.biotic; B.B = biotic.biotic

en: Nematode data

en:
Sample.data
Plot.ID	consecutive numbers for plots (in total 36 plots)
Treatment	One restoration treatment and two reference treatments. Topsoil+Propagules= Topsoil removal (upper 10-30 cm) combined with introduction of target plant species; Initial=intensively managed grasslands; Target= species-rich semi-wet to semi-dry grasslands
treat.yr	Treatment abbreviation. For restored grasslands: Treatment abbreviation + time since restoration; Initial + Target = NA
yr.trt	year when topsoil was removed; Initial + Target = NA
Age	time since restoration (sampling year 2018 - yr.trt); Initial + Target = NA
Age.class	restored sites of similar age grouped into four age classes. Y.4 = Year 3+4 (recently restored); Y.18 = Year 17+19 (mid-term); Y.24 = Year 23+25 (long-term); Y.30 = Year 27+32 (long-term); Initial + Target = NA
Cluster	clustered spatial arrangment of sites in the field (see Supporting Information Fig. S1)
Site	clustered spatial arrangment (replicates) of plots per site (see Supporting Information Fig. S1)

Taxonomy
ASV.ID	unit number.letter code per amplicon sequence variant (in total 904)
Taxonomic rank	Phylum, Class, Order, Family, Genus, Species

Abundance
columns	Plot.ID (see Sample.data)
rows	ASV.ID (see Taxonomy)

en: Vegetation data

en:
Plot.ID	consecutive numbers for plots (in total 36 plots)
Treatment	One restoration treatment and two reference treatments. Topsoil+Propagules= Topsoil removal (upper 10-30 cm) combined with introduction of target plant species; Initial=intensively managed grasslands; Target= species-rich semi-wet to semi-dry grasslands
treat.yr	Treatment abbreviation. For restored grasslands: Treatment abbreviation + time since restoration; Initial + Target = NA
yr.trt	year when topsoil was removed; Initial + Target = NA
Age	time since restoration (sampling year 2018 - yr.trt); Initial + Target = NA
Age.class	restored sites of similar age grouped into four age classes. Y.4 = Year 3+4 (recently restored); Y.18 = Year 17+19 (mid-term); Y.24 = Year 23+25 (long-term); Y.30 = Year 27+32 (long-term); Initial + Target = NA
Cluster	clustered spatial arrangment of sites in the field (see Supporting Information Fig. S1)
Site	clustered spatial arrangment (replicates) of plots per site (see Supporting Information Fig. S1)
column I-LW	Plant abundance per species (in total 327 plant species) expressed as cover percentage estimation according to van der Maarel (vdM 1979; 7 classes: 1-7); nomenclature according to Lauber & Wagner (1996)

en: Distance to target results

en:
Community	biotic community (vegetation, nematoda, fungi, prokaryota)
Treatment	Treatment groups; Y.4-30= restored grasslands (time since restoration); Initial=intensively managed grasslands (I)
Comparison	within- or between-community Bray-Curtis dissimilarity distance comparison
Label	within-community distances of initial/restored grasslands: treatment abbreviation; between-communities distances of initial/restored-to-target grasslands: treatment abbreviation plus Target (T; species-rich grasslands)
mean	Mean distance to Target (6 plots per treatment group)
sd	Standard deviation of distances to Target (6 plots per treatment group)

en: Fungi data

en:
Sample.data
Plot.ID	consecutive numbers for plots (in total 36 plots)
Treatment	One restoration treatment and two reference treatments. Topsoil+Propagules= Topsoil removal (upper 10-30 cm) combined with introduction of target plant species; Initial=intensively managed grasslands; Target= species-rich semi-wet to semi-dry grasslands
treat.yr	Treatment abbreviation. For restored grasslands: Treatment abbreviation + time since restoration; Initial + Target = NA
yr.trt	year when topsoil was removed; Initial + Target = NA
Age	time since restoration (sampling year 2018 - yr.trt); Initial + Target = NA
Age.class	restored sites of similar age grouped into four age classes. Y.4 = Year 3+4 (recently restored); Y.18 = Year 17+19 (mid-term); Y.24 = Year 23+25 (long-term); Y.30 = Year 27+32 (long-term); Initial + Target = NA
Cluster	clustered spatial arrangment of sites in the field (see Supporting Information Fig. S1)
Site	clustered spatial arrangment (replicates) of plots per site (see Supporting Information Fig. S1)

Taxonomy
OTU.ID	consecutive numbers for operational taxonomic units (OTUe 1-7794)
Taxonomic rank	Domain, Phylum, Class, Order, Family, Genus, Species

Abundance
columns	Plot.ID (see Sample.data)
rows	OTU.ID (see Taxonomy)

en: Ecosystem coupling_interactions

en:
Treatment	Treatment groups; Y.4-18 = restored grasslands; Initial = intensively managed grasslands; Target = species-rich semi-wet to semi-dry grasslands
Type	Interactions type; A.A = abiotic.abiotic; A.B = abiotic.biotic; B.B = biotic.biotic
Correlation	non-parametric Spearman rank correlations between biotic and abiotic parameters (ecological interactions)

en:
This dataset contains all data, on which the following publication below is based.

Paper Citation:

_Resch, M.C., Schütz, M., Ochoa-Hueso, R., Buchmann, N., Frey, B., Graf, U., van der Putten, W.H., Zimmermann, S., Risch, A.C. (in review). Long-term recovery of above- and belowground interactions in restored grassland after topsoil removal and seed addition. Journal of Applied Ecology_

Please cite this paper together with the citation for the datafile.

Study area and experimental design
The study was conducted in and around two nature reserves, Eigental and Altläufe der Glatt, which were located approximately 5 km apart (47°27´ to 47°29´ N, 8°37´ to 8°32´ E, 417 to 572 m a.s.l., Canton of Zurich, Switzerland; Figure S1 and S2, Table S1). Mean annual temperature and precipitation are 9.8 ± 0.6 °C and 990 ± 168 mm (Kloten climate station 1988-2018; MeteoSchweiz, 2019). TFor this study, we used a space-for-time approach based on eight restoration sites that were between 3 and 32 years old. We measured recovery and restoration success by comparing the restored grasslands with intensively managed and semi-natural grasslands. Using a space-for-time approach requires high similarities in historical properties of the site, such as soil conditions and management regimes, to assure that temporal processes are appropriately represented by spatial patterns (Walker et al., 2010). This was the case in our study. The restored sites had similar soil conditions (i.e., soil type, structure, water availability) as the targeted semi-natural grasslands, while they shared the same agricultural legacy with intensively managed grasslands, i.e., biomass harvest and fertilization (manure and/or slurry) three to five times a year as well as tillage. We randomly established three 5 m x 5 m (25-m2) plots for plant identification and three 2 m x 2 m (4-m2) subplots for soil biotic and abiotic data collection at least 2 m away from the 25-m2 plots in each restoration site. Sites of similar age were grouped into four age classes: Y.4 (3 & 4 years after restoration), Y.18 (17 & 19 years), Y.24 (23 & 25 years), and Y.30 (27 & 32 years). Six intensively managed (Initial) and six semi-natural grassland (Target) sites complemented the experimental set-up, for a total of 36 plots. All plots were sampled under similar conditions, i.e., day of the year, air temperature, soil moisture, and time since last rain event, in June/July 2017 (intensively managed and semi-natural plots) and 2018 (restored plots).

Collection of plants and selected soil biota data
Plant species cover (in %) was visually estimated in each 25-m2 plot in mid-June (Braun-Blanquet, 1964; nomenclature: Lauber & Wagner, 1996). We calculated Shannon diversity and assessed plant community structure. We included soil microbial (fungi, procaryotes) and nematodes in our study as they represent the majority of soil biotic diversity and abundance (Bardgett & van der Putten, 2014), cover various trophic levels of the soil food web (Bongers & Ferris, 1999), and play key roles in soil functioning and ecosystem processes (Bardgett & van der Putten, 2014). In particular, soil nematodes were found to be well suited belowground indicators to evaluate recovery/development after restoration (e.g. Frouz, et al. 2008; Kardol et al., 2009; Resch et al., 2019). We randomly collected ten soil cores (2.2 cm diameter x 12 cm depths; sampler from Giddings Machine Company, Windsor, USA) in the 4-m2 subplots to assess soil nematode and microbial (fungal, prokaryotic) diversities and community structures. For soil nematodes, eight of the soil cores were combined and gently homogenized, placed in coolers and stored at 4 °C and transported to the laboratory (Netherlands Institute of Ecology, NIOO, Wageningen, Netherlands) within three days after collection. Free-living nematodes were extracted from 200 g of fresh soil using Oostenbrink elutriators (Oostenbrink, 1960). After extraction, each sample was divided into three subsamples, two for molecular identification and one to determine nematode abundance (see Resch et al., 2019). For the molecular work, two subsamples were stored in 70% ethanol (final volume 10 mL each) and transported to the laboratory at the Swiss Federal Research Institute WSL (Birmensdorf, Switzerland). Each subsample was reduced to roughly 200 μL by centrifugation and removal of the supernatant. The remaining ethanol was vaporized (65 °C for 3 h). Thereafter, 180 μL ATL buffer solution (Qiagen, Hilden, Germany) was immediately added and samples were stored at 4 °C until further processing. From these samples, nematode metagenomic DNA was extracted using the DNeasy Blood & Tissue Kit (Qiagen, Hilden, Germany) according to the manufacturer`s protocol, except for the incubation step which was run at 56 °C for 4 h. PCR amplification of the V6-V8 region of the eukaryotic small-subunit (18S) was performed with 7.5 μL of genomic DNA template (ca. 1 ng/μL) in 25 μL reactions containing 5 μL PCR reaction buffer, 2.5 mM MgCL2, 0.2 mM dNTPs, 0.8 μM of each primer (NemF: Sapkota & Nicolaisen, 2015; 18Sr2b: Porazinska et al., 2009), 0.5 μL BSA, and 0.25 μL GoTaq G2 Hot Start Polymerase (Promega Corporation, Madison, USA). Amplification was using an initial DNA denaturation step of 95 °C for 2 min, followed by 35 cycles at 94 °C for 40 sec, 58 °C for 40 sec, 72 °C for 1 min, and a final elongation step at 72 °C for 10 min. Filtering, dereplication, sample inference, chimera identification, and merging of paired-end reads was implemented using the DADA2 pipeline (v.1.12; Callahan et al., 2016) to finally assign amplicon sequence variants (ASVs) as taxonomic units.
We combined and homogenized the remaining two soil cores to assess soil microbes, placed them in coolers (4 °C) and transported them to the laboratory at WSL. Metagenomic DNA was extracted from 8 g sieved soil (2 mm) using the DNAeasy PowerMax Soil Kit (Qiagen, Hilden, Germany) according to the manufacturer´s protocol. PCR amplification of the V3-V4 region of the small-subunit (16S) of prokaryotes (i.e., bacteria and archaea) and the ribosomal internal transcribed spacer region (ITS2) of fungi was performed with 1 ng of template DNA using PCR primers and conditions as previously described (Frey et al., 2016). PCRs were run in triplicates, pooled and sent to the Genome Quebec Innovation Centre (Montreal, QC, Canada) for barcoding using the Fluidigm Access Array technology (Fluidigm) and paired-end sequencing on the Illumina MiSeq v3 platform (Illumina Inc., San Diego, USA). Quality filtering, clustering into operational taxonomic units (OTUs, 97% similarity cutoffs) and taxonomic assignment were performed as previously described (Resch et al., 2021).Taxonomic classification of nematode, prokaryotic and fungal sequences was conducted querying against the most recent versions of PR2 (v.4.11.1; Guillou et al., 2013), SILVA (v.132; Quast et al., 2013), and UNITE (v.8; Nilsson et al., 2019) reference sequence databases. Taxonomic assignment cutoffs were set to confidence rankings ≥ 0.8 (below ranked as unclassified). Prokaryotic OTUs assigned to mitochondria or chloroplasts as well as OTUs or ASVs assigned to other than Fungi or Nematoda were manually removed prior to data analysis. The three datasets were filtered to discard singletons and doubletons. Taxonomic abundance matrices were rarefied to the lowest number of sequences per community to achieve parity of the total number of reads between samples (Prokaryotes: 10,929 reads; Fungi: 18,337 reads; Nematodes: 6,662 reads). We calculated Shannon diversity and assessed community structures for soil nematodes, prokaryotes and fungi based on their relative abundances of ASV or OTU at the taxon level.

Collection of soil physical and chemical properties
We randomly collected one undisturbed soil core (5 cm diameter, 12 cm depth) per 4-m2 subplot using a steel cylinder that fit into the soil corer. The cylinders were capped to avoid disturbance during transport and used to measure field capacity, rock content and fine earth density as previously described (Resch et al., 2021). We randomly collected another three soil cores (5 cm diameter, 12 cm depths) in each 4-m2 subplot to determine soil chemical properties. The cores were pooled, dried at 60 °C for 48 h and passed through a 2 mm sieve. We measured soil pH (CaCl2) on dried samples, total nitrogen (N) and organic carbon (C) concentration on dried and fine-ground samples (≤ 0.5 mm; for details see Resch et al., 2021). We calculated total N and organic C pools after correcting its concentration for soil depth, rock content and fine earth density.

bacteria

display_name: bacteria

biodiversity

display_name: biodiversity

fungi

display_name: fungi

grassland

display_name: grassland

nematodes

display_name: nematodes

plants

display_name: plants

restoration

display_name: restoration

soil-biodiversity

display_name: soil-biodiversity

soil-biology

display_name: soil-biology

soil-chemistry

display_name: soil-chemistry

topsoil-removal

display_name: topsoil-removal

en: Long-term recovery of above-and belowground interactions in restored grasslands


radiosondes

maintainer: Jörg Wieder

title_for_slug: radiosondes

en: relative-humidity temperature radiosonde pressure holoballoon raclets wind wind-direction

en: Radiosond Template Files

en:
The "template" files contain standard parameters, i.e. ambient pressure (mbar and Pa), temperature (°C), relative humidity (%), wind speed (m s‾ ¹) and wind direction (true deg), as well as additional information, e.g. time (UTC and local time), dew point (°C), mixing ration (g/kg), density (kg m³), altitude (m MSL), height above ground (ft and m AGL), and geographic coordinates (longitude, latitude). If the wind speed was zero, no wind direction is given.
The zip files contain ascents on the following days:
February 10 (morning and afternoon),
February 11 (morning),
February 16 (afternoon),
February 22 (morning),
March 1 (morning),
March 5 (morning),
March 11 (morning),
March 12 (morning),
March 13 (morning),
March 14 (morning),
March 17 (afternoon), and
March 18.
The data was managed with Windsond Receiver Application Demo Version 2.92, (C) Sparv Embedded AB 2016.

en: Radiosond Sounding Files

en:
The "soundings" radiosond data contains information on ambient pressure (mbar), temperature (C), relative humidity (%), wind speed (m s‾ ¹) and wind direction (true deg), and are ordered with respect to the height above ground (m AGL) with a step size of 20 m. The first line of each file idicates the geographic location and the start time (in UTC) of the ascent. If the wind speed was zero, no wind direction is given.
The zip files contain ascents on the following days:
February 10 (morning and afternoon),
February 11 (morning),
February 16 (afternoon),
February 22 (morning),
March 1 (morning),
March 5 (morning),
March 11 (morning),
March 12 (morning),
March 13 (morning),
March 14 (morning),
March 17 (afternoon), and
March 18.
The data was managed with Windsond Receiver Application Demo Version 2.92, (C) Sparv Embedded AB 2016.

en: Radiosondes (Windsond, Sparv Embedded AB) were started in Davos Wolfgang (LON: 9.853594, LAT: 46.835577) to report height profiles of pressure, relative humidity and temperature at specific days. In addition to regular launches of radiosondes, sondes were attached to [HoloBalloon](https://www.envidat.ch/group/clouds-in-situ-raclets) to report the ambient conditions of the in-situ measurements. Further profiles of meteorological measures were recorded at [HoloGondel](https://www.envidat.ch/group/clouds-in-situ-raclets) which was installed at the gondola moving between Gotschnaboden and Gotschnagrat at 2285 m a.s.l.

holoballoon

display_name: holoballoon

pressure

display_name: pressure

raclets

display_name: raclets

radiosonde

display_name: radiosonde

relative-humidity

display_name: relative-humidity

temperature

display_name: temperature

wind

display_name: wind

wind-direction

display_name: wind-direction

educ

en: Education, culture and sport

envidat

en: EnviDat: the Environmental Data Portal

en: EnviDat is the WSL data portal providing unified and managed access to environmental monitoring and research data. The portal has the capability to host and publish data sets. Through the sharing of unique and high-value data sets worldwide, EnviDat fosters research and contributes to advancing environmental science.

en: Radiosondes


en: crack-propagation weak-layer snow dry-snow-avalanche crack-speed

en: manual profile taken next to the PSTs. Open the caaml-file using niviz.org

en: netCDF file of dispalcement and strain measurement of PST3 in full view perspective.

en: Emodul parametrizations for snow. Some functions from this script are imported from the plotting scripts.

en: netCDF file of dispalcement and strain measurement of PST1 in full view perspective.

en: pdf Version of the manual profile taken next to the PSTs

en: netCDF file of displacement and strain measurement of PST3 in closeup view.

en: pickled version of the manual profile. read into python with pickle. E.g. given the density is used in plotting scripts.

en: Jupyter script to load the netcdf files and reproduce Figure 4 from the related publication.

en: netCDF file of dispalcement and strain measurement of PST2 in closeup view.

en: reference frame used for Digital image correlation of the video of PST1

en: netCDF file of dispalcement and strain measurement of PST2 in full view perspective.

en: Jupyter script to load the netcdf files and reproduce Figure 2 from the related publication.

en: Jupyter script to load the netcdf files and reproduce Figure 3 from the related publication.

en:
This dataset contains the experimental results described in Bergfeld et al. (2025). It includes three Propagation Saw Test (PST) experiments, each approximately 9 m long, performed side-by-side on a 37° slope. For each PST, we provide the full field of view along the crack-propagation direction. For the second and third PSTs, we additionally provide close-up recordings focused on the weak layer where cracking occurred.
All data are supplied as netCDF files containing displacement and strain measurements derived from Digital Image Correlation (DIC) analysis. Metadata describing dimensions and units are stored directly within the netCDF files. We recommend using the xarray package in Python to read and work with these datasets.
All figures presented in Bergfeld et al. (2025) can be reproduced using the included Python scripts.
Information about the snowpack is provided in PDF, pickle, and CAAML file formats.

crack-propagation

display_name: crack-propagation

crack-speed

display_name: crack-speed

dry-snow-avalanche

display_name: dry-snow-avalanche

snow

display_name: snow

weak-layer

display_name: weak-layer

en: Sub-Rayleigh to supershear fracture transition in long Propagation Saw Tests


en: long-term-experiment mountain-forest stillberg afforestation treeline

en: Documentation

en: This data documentation is outdated and has been replaced with an updated version (see description).

mimetype: application/msword

en: Site photo

en: This site photo is outdated and has been replaced with an updated version (see description).

en: Dataset V1

en: This dataset is outdated and has been replaced with an updated version (see description).

format: GDB

en:
 Important
This EnviDat entry is outdated. The most recent, usable version of the data can be found under the new EnviDat entry "Long-term afforestation experiment at the Alpine treeline site Stillberg, Switzerland." The entry can be found under this link <https://www.envidat.ch/dataset/afforestation-stillberg> and with this DOI 10.16904/envidat.397.

afforestation

display_name: afforestation

long-term-experiment

display_name: long-term-experiment

mountain-forest

display_name: mountain-forest

stillberg

display_name: stillberg

treeline

display_name: treeline

educ

en: Education, culture and sport

envidat

en: EnviDat: the Environmental Data Portal

en: EnviDat is the WSL data portal providing unified and managed access to environmental monitoring and research data. The portal has the capability to host and publish data sets. Through the sharing of unique and high-value data sets worldwide, EnviDat fosters research and contributes to advancing environmental science.

en: Long-term treeline research dataset at Stillberg, Davos


en: network-analysis metaweb food-webs habitat-fragmentation trophic-networks robustness trophich

en:
This resource is broken down into two sections: 01 simulations and 02 analyses
In the 01 simulations section, the program which run the simulations for the paper is provided. It is prepared such that it can be easily run on a cluster. Please note that the results folder is empty, as they would have included 108,000 csv files. Instead, the summarised version is available in the next section.
In the 02 analyses section, all code needed to recreate the analyses and figures from the paper are provided.
Please refer to the separate README.txt files for each section for further information.

en:
This dataset contains all processed data, simulation outputs, and R/Python scripts used to assess the robustness of regional multi-habitat food webs in Switzerland under various non-random species extinction scenarios. It accompanies the manuscript submitted to Communications Biology, and available as a preprint here:
Reji Chacko, M, Albouy, C., Altermatt, F., et al. Decreases in the robustness of regional food webs to sequential species extinctions following habitat loss, 04 December 2024, PREPRINT (Version 1) available at Research Square [https://doi.org/10.21203/rs.3.rs-5225132/v1]
Please note that the most up-to-date version of the simulations code is available here: https://github.com/mrejichacko/casCHades

food-webs

display_name: food-webs

habitat-fragmentation

display_name: habitat-fragmentation

metaweb

display_name: metaweb

network-analysis

display_name: network-analysis

robustness

display_name: robustness

trophic-networks

display_name: trophic-networks

trophich

display_name: trophich

en: Simulation data and analyses of regional food web robustness under habitat loss


maintainer: Matthias Bürgi

en: land-use-modelling land-change pathways agriculture scenarios

en: This dataset contains the spatial layers showing future land change pathways in Europe between 2015 and 2050, as simulated by the CLUMondo model according to the Agricultural Futures Framework (AFF) scenarios.

en:
This dataset contains the spatial layers showing future land change pathways in Europe between 2015 and 2050, as simulated by the CLUMondo model and according to the Agricultural Futures Framework (AFF) scenarios.

Three scenarios are included:
- Land for Food and Land for Nature (LFLN)
- Land as Culture (LaC)
- Land for Society (LfS)

agriculture

display_name: agriculture

land-change

display_name: land-change

land-use-modelling

display_name: land-use-modelling

pathways

display_name: pathways

scenarios

display_name: scenarios

en: AFF agricultural land change scenarios in Europe 2015-2050


maintainer: Sofia Pagliarin

en: copernicus barcelona soil-sealing imperviousness milan urban-atlas

en: Information on data sources

en: Shareable project in Esri ArcGIS format including the HRL IMD data in raster format for each of the territorial boundaries as specified in letter a)-h), see Dataset description

en:
Dataset description

This dataset is a recalculation of the Copernicus 2015 high resolution layer (HRL) of imperviousness density data (IMD) at different spatial/territorial scales for the case studies of Barcelona and Milan. The selected spatial/territorial scales are the following:

 * a)	Barcelona city boundaries
 * b)	Barcelona metropolitan area, Àrea Metropolitana de Barcelona (AMB)
 * c)	Barcelona greater city (Urban Atlas)
 * d)	Barcelona functional urban area (Urban Atlas)
 * e)	Milan city boundaries
 * f)	Milan metropolitan area, Piano Intercomunale Milanese (PIM)
 * g)	Milan greater city (Urban Atlas)
 * h)	Milan functional urban area (Urban Atlas)

In each of the spatial/territorial scales listed above, the number of 20x20mt cells corresponding to each of the 101 values of imperviousness (0-100% soil sealing: 0% means fully non-sealed area; 100% means fully sealed area) is provided, as well as the converted measure into squared kilometres (km2).

 Dataset composition

The dataset is provided in .csv format and is composed of:

_IMD15_BCN_MI_Sources.csv_: Information on data sources

 _IMD15_BCN.csv_: This file refers to the 2015 high resolution layer of imperviousness density (IMD) for the selected territorial/spatial scales in Barcelona:
 * a)	Barcelona city boundaries (label: bcn_city)
 * b)	Barcelona metropolitan area, Àrea metropolitana de Barcelona (AMB) (label: bcn_amb)
 * c)	Barcelona greater city (Urban Atlas) (label: bcn_grc)
 * d)	Barcelona functional urban area (Urban Atlas) (label: bcn_fua)

 _IMD15_MI.csv_: This file refers to the 2015 high resolution layer of imperviousness density (IMD) for the selected territorial/spatial scales in Milan:
 * e)	Milan city boundaries (label: mi_city)
 * f)	Milan metropolitan area, Piano intercomunale milanese (PIM) (label: mi_pim)
 * g)	Milan greater city (Urban Atlas) (label: mi_grc)
 * h)	Milan functional urban area (Urban Atlas) (label: mi_fua)

_IMD15_BCN_MI.mpk_: the shareable project in Esri ArcGIS format including the HRL IMD data in raster format for each of the territorial boundaries as specified in letter a)-h).

Regarding the territorial scale as per letter f), the list of municipalities included in the Milan metropolitan area in 2016 was provided to me in 2016 from a person working at the PIM.

In the IMD15_BCN.csv and IMD15_MI.csv, the following columns are included:

 * Level: the territorial level as defined above (a)-d) for Barcelona and e)-h) for Milan);
 * Value: the 101 values of imperviousness density expressed as a percentage of soil sealing (0-100%: 0% means fully non-sealed area; 100% means fully sealed area);
 * Count: the number of 20x20mt cells corresponding to a certain percentage of soil sealing or imperviousness;
 * Km2: the conversion of the 20x20mt cells into squared kilometres (km2) to facilitate the use of the dataset.

 Further information on the Dataset

This dataset is the result of a combination between different databases of different types and that have been downloaded from different sources. Below, I describe the main steps in data management that resulted in the production of the dataset in an Esri ArcGIS (ArcMap, Version 10.7) project.

 1. The high resolution layer (HRL) of the imperviousness density data (IMD) for 2015 has been downloaded from the official website of Copernicus. At the time of producing the dataset (April/May 2021), the 2018 version of the IMD HRL database was not yet validated, so the 2015 version was chosen instead. The type of this dataset is raster.

 2. For both Barcelona and Milan, shapefiles of their administrative boundaries have been downloaded from official sources, i.e. the ISTAT (Italian National Statistical Institute) and the ICGC (Catalan Institute for Cartography and Geology). These files have been reprojected to match the IMD HRL projection, i.e. ETRS 1989 LAEA.

 3. Urban Atlas (UA) boundaries for the Greater Cities (GRC) and Functional Urban Areas (FUA) of Barcelona and Milan have been checked and reconstructed in Esri ArcGIS from the administrative boundaries files by using a Eurostat correspondence table. This is because at the time of the dataset creation (April/May 2021), the 2018 Urban Atlas shapefiles for these two cities were not fully updated or validated on the Copernicus Urban Atlas website. Therefore, I had to re-create the GRC and FUA boundaries by using the Eurostat correspondence table as an alternative (but still official) data source. The use of the Eurostat correspondence table with the codes and names of municipalities was also useful to detect discrepancies, basically stemming from changes in municipality names and codes and that created inconsistent spatial features. When detected, these discrepancies have been checked with the ISTAT and ICGC offices in charge of producing Urban Atlas data before the final GRC and FUA boundaries were defined.

Steps 2) and 3) were the most time consuming, because they required other tools to be used in Esri ArcGIS, like spatial joins and geoprocessing tools for shapefiles (in particular dissolve and area re-calculator in editing sessions) for each of the spatial/territorial scales as indicated in letters a)-h).

Once the databases for both Barcelona and Milan as described in points 2) and 3) were ready (uploaded in Esri ArcGIS, reprojected and their correctness checked), they have been ‘crossed’ (i.e. clipped) with the IMD HRL as described in point 1) and a specific raster for each territorial level has been calculated. The procedure in Esri ArcGIS was the following:

 * Clipping: Arctoolbox > Data management tools > Raster > Raster Processing > Clip. The ‘input’ file is the HRL IMD raster file as described in point 1) and the ‘output’ file is each of the spatial/territorial files. The option "Use Input Features for Clipping Geometry (optional)” was selected for each of the clipping.
 * Delete and create raster attribute table: Once the clipping has been done, the raster has to be recalculated first through Arctoolbox > Data management tools > Raster > Raster properties > Delete Raster Attribute Table and then through Arctoolbox > Data management tools > Raster > Raster properties > Build Raster Attribute Table; the "overwrite" option has been selected.

 Other tools used for the raster files in Esri ArcGIS have been the spatial analyst tools (in particular, Zonal > Zonal Statistics). As an additional check, the colour scheme of each of the newly created raster for each of the spatial/territorial attributes as per letters a)-h) above has been changed to check the consistency of its overlay with the original HRL IMD file. However, a perfect match between the shapefiles as per letters a)-h) and the raster files could not be achieved since the raster files are composed of 20x20mt cells.

The newly created attribute tables of each of the raster files have been exported and saved as .txt files. These .txt files have then been copied in the excel corresponding to the final published dataset.

barcelona

display_name: barcelona

copernicus

display_name: copernicus

imperviousness

display_name: imperviousness

milan

display_name: milan

soil-sealing

display_name: soil-sealing

urban-atlas

display_name: urban-atlas

en: Soil sealing Barcelona and Milan different territorial levels


en: forest-restoration public-perceptions household-surveys spain sweden socio-demographic-factors

en:
This metadata file provides detailed documentation for the survey dataset titled "Survey data on public support for forest restoration in Europe based on evidence from Sweden and Spain." It includes:
Variable Map (Variable names and descriptions): Each survey item is listed alongside a clear explanation of its content and purpose.
Labels Map: For categorical variables, response options are defined numerically and labelled (e.g., Likert scale options, age groups, gender).
Derived variables: Several composite indicators have been created from survey responses, including support for restoration, perceived forest benefits, and perceived restoration impacts.
The metadata enables accurate interpretation, reuse, and analysis of the dataset and is formatted in two Excel sheets:
Variable Map – detailing survey question codes and content.
Labels Map – providing categorical response scales for select questions.

en: This file contains anonymised survey responses from 241 individuals in Västerbotten County (Sweden) and Castilla y León (Spain), collected between March and September 2024. It includes variables on forest visitation, restoration awareness, perceptions of forest benefits and impacts, and socio-demographic characteristics. The responses are coded numerically and correspond to categories defined in the metadata file. The dataset supports analysis of public support for forest restoration as presented in the associated article.

en:
This dataset accompanies the article Factors influencing public support for forest restoration in Europe: Evidence from Sweden and Spain, published in the journal Ecosystems and People. It presents results from a multi-country survey exploring public perceptions of forests and support for forest restoration in Västerbotten County (Sweden) and the Castilla y León autonomous community (Spain).

Between March and September 2024, structured questionnaires were distributed to 3,000 randomly selected households, yielding 241 valid responses after data cleaning (171 from Sweden and 70 from Spain). The dataset includes anonymised survey responses measured on 5-point Likert scales, covering composite indicators for support for forest restoration, perceived forest benefits, and perceived impacts of restoration activities. It also contains socio-demographic information such as age, education level, and years of residence.

Sampling adhered to the EU General Data Protection Regulation (GDPR) and the Swiss Federal Act on Data Protection. Principal Components Analysis (PCA) was used to construct composite indicators, and Generalised Linear Modelling (GLM) was applied to assess how socio-demographic and perceptual factors influence support for restoration.

The dataset provides insights into behavioural, perceptual, and demographic factors that shape public support for forest restoration, contributing to policy discussions, such as the EU Nature Restoration Regulation (2023). A full codebook is included to facilitate reuse.

forest-restoration

display_name: forest-restoration

household-surveys

display_name: household-surveys

public-perceptions

display_name: public-perceptions

socio-demographic-factors

display_name: socio-demographic-factors

spain

display_name: spain

sweden

display_name: sweden

educ

en: Education, culture and sport


en: frost-change-velocity aridity sdms precipitation ground-temperature soil

en: Mean annual temperature modified from CHELSA

en: Precipitation seasonality from CHELSA

en: Mean diurnal range modified from CHELSA

en: Soil pH modified from SoilGrids

en: Precipitation of driest quarter modified from CHELSA

en: Soil organic carbon content modified from SoilGrids

en: Soil clay content modified from SoilGrids

en: Frost change frequency modified from CHELSA

en: The dataset contains seven environmental layers (average annual temperature, aridity [annual precipitation divided by annual potential evapotranspiration], frost change frequency, precipitation in the driest quarter, mean diurnal temperature range, and precipitation seasonality) modified from CHELSA (https://chelsa-climate.org/) and three soil layers (soil organic matter content, pH water, and clay content) modified from SoilGrids (https://soilgrids.org/).

aridity

display_name: aridity

frost-change-velocity

display_name: frost-change-velocity

ground-temperature

display_name: ground-temperature

precipitation

display_name: precipitation

sdms

display_name: sdms

soil

display_name: soil

envidat

en: EnviDat: the Environmental Data Portal

en: EnviDat is the WSL data portal providing unified and managed access to environmental monitoring and research data. The portal has the capability to host and publish data sets. Through the sharing of unique and high-value data sets worldwide, EnviDat fosters research and contributes to advancing environmental science.

en: Environmental layers for SDM simulations (GDPlants)


en: shortwave-radiation air-temperature climate-change meteo-station time-series relative-humidity wind-speed speed2zero precipitation

en: Data link

en:
This dataset provides 50 years of seasonal synthetic hourly time series for five meteorological variables: incoming shortwave radiation, total precipitation, relative humidity, 2-meter air temperature and wind speed.

The data are generated from observational records (1990–present) from nine MeteoSwiss stations (ABO, BAS, BER, LUG, PUY, SCU, SIO, STG, WFJ). We use a sampling approach that preserves both the temporal structure and inter-variable dependencies. Specifically, the time series are constructed by drawing 7-day blocks from historical observations, ensuring realistic short-term variability and maintaining the physical coherence between variables.

The synthetic sequences are constrained to follow daily temperature change trajectories corresponding to three future climate scenarios for the period 2040–2070: RCP2.6, RCP8.5 and RCP0: a counterfactual scenario with no long-term warming trend, but with temperature variability consistent with the RCP2.6 one.
The temperature constraints are derived from projections downscaled at the staiton level, available at: https://www.envidat.ch/#/metadata/climate-change-scenarios-at-hourly-resolution

air-temperature

display_name: air-temperature

climate-change

display_name: climate-change

meteo-station

display_name: meteo-station

relative-humidity

display_name: relative-humidity

shortwave-radiation

display_name: shortwave-radiation

time-series

display_name: time-series

wind-speed

display_name: wind-speed

en: Meteorological Time Series Aligned with Projected Temperature Changes