maintainer: M. Carol Resch

en: topsoil-removal nematodes grassland vegetation restoration long-term-experiment diversity

en: Nematode colonizer-persister classes

en:
Plot: Plot ID combining treatment code and plot number (in total 55 plots)

Treatment: Three restoration treatments and two reference treatments. Initial=intensively managed grasslands; Harvest only= multiple hay harvest (2-3 times) per years; Topsoil= Topsoil removal (upper 10-30 cm); Topsoil+Propagules= Topsoil removal (upper 10-30 cm) combined with introduction of target plant species; Target= species-rich ancient grasslands

CP1.a: C-P (colonizer-persister) class 1 nematode abundance (individuals per 100g dry soil); C-P classification according to Bongers 1990; equivalent to enrichment indicators according to Ferris, Bongers, & de Goede 2001
CP2.a: C-P (colonizer-persister) class 2 nematode abundance (individuals per 100g dry soil); C-P classification according to Bongers 1990; equivalent to stress indicators according to Ferris, Bongers, & de Goede 2001
CP3.a: C-P (colonizer-persister) class 3 nematode abundance (individuals per 100g dry soil); C-P classification according to Bongers 1990
CP4.a: C-P (colonizer-persister) class 4 nematode abundance (individuals per 100g dry soil); C-P classification according to Bongers 1990
CP5.a: C-P (colonizer-persister) class 5 nematode abundance (individuals per 100g dry soil); C-P classification according to Bongers 1990

en: Nematode families

en:
Plot: Plot ID combining treatment code and plot number (in total 55 plots)

Treatment: Three restoration treatments and two reference treatments. Initial=intensively managed grasslands; Harvest only= multiple hay harvest (2-3 times) per years; Topsoil= Topsoil removal (upper 10-30 cm); Topsoil+Propagules= Topsoil removal (upper 10-30 cm) combined with introduction of target plant species; Target= species-rich ancient grasslands

column 3-41: Nematode abundance (individuals per 100g dry soil) per family; nomenclature according to Bongers 1988

en: Nematode feeding types

en:
Plot: Plot ID combining treatment code and plot number (in total 55 plots)

Treatment: Three restoration treatments and two reference treatments. Initial=intensively managed grasslands; Harvest only= multiple hay harvest (2-3 times) per years; Topsoil= Topsoil removal (upper 10-30 cm); Topsoil+Propagules= Topsoil removal (upper 10-30 cm) combined with introduction of target plant species; Target= species-rich ancient grasslands

He.ecto.a: Herbivorous ectoparasite nematode abundance (individuals per 100g dry soil); classification according to Sieriebriennikov, Ferris, & de Goede, 2014

He.endo.a: Herbivorous endoparasite nematode abundance (individuals per 100g dry soil); classification according to Sieriebriennikov, Ferris, & de Goede, 2014

Ba.a: Bacterivorous nematode abundance (individuals per 100g dry soil); classification according to Sieriebriennikov, Ferris, & de Goede, 2014

Fu.a: Fungivorous nematode abundance (individuals per 100g dry soil); classification according to Sieriebriennikov, Ferris, & de Goede, 2014

Om.a: Omnivorous nematode abundance (individuals per 100g dry soil); classification according to Sieriebriennikov, Ferris, & de Goede, 2014

Ca.a: Carnivorous nematode abundance (individuals per 100g dry soil); classification according to Sieriebriennikov, Ferris, & de Goede, 2014

en: Coordinates of one research plot were wrong. This was corrected in the current version of the file.

en: Plant community composition (plant species)

en:
Plot: Plot ID combining treatment code and plot number (in total 55 plots)

Treatment: Three restoration treatments and two reference treatments. Initial=intensively managed grasslands; Harvest only= multiple hay harvest (2-3 times) per years; Topsoil= Topsoil removal (upper 10-30 cm); Topsoil+Propagules= Topsoil removal (upper 10-30 cm) combined with introduction of target plant species; Target= species-rich ancient grasslands

column 3-252: Plant abundance per species (in total 252 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: Nemadotes and vegetation

en:
Plot: Plot ID combining treatment code and plot number (in total 55 plots)

Treatment: Three restoration treatments and two reference treatments. Initial=intensively managed grasslands; Harvest only= multiple hay harvest (2-3 times) per years; Topsoil= Topsoil removal (upper 10-30 cm); Topsoil+Propagules= Topsoil removal (upper 10-30 cm) combined with introduction of target plant species; Target= species-rich ancient grasslands

X: X-Coordinate

Y: Y-Coordinate

Ri.veg: Total number of plant species

Div.veg: Shannon diversity of plant species

Ri.nem: Total number of nematode families

Div.nem: Shannon diversity of nematode families

abund: Total nematode abundance (individuals per 100g dry soil)

MI: Maturity index according to Bongers 1990; calculations done in online tool NINJA (Sieriebriennikov, Ferris, & de Goede, 2014)

PPI: Plant parasite index according to Bongers 1990; calculations done in online tool NINJA (Sieriebriennikov, Ferris, & de Goede, 2014)

PPI.MI: Plant parasite to Maturity index according to Bongers, van der Meulen, & Korthals 1997; calculations done in online tool NINJA (Sieriebriennikov, Ferris, & de Goede, 2014)

CI: Channel index according to Ferris, Bongers, & de Goede 2001 (%); calculations done in online tool NINJA (Sieriebriennikov, Ferris, & de Goede, 2014)

EI: Enrichment index according to Ferris, Bongers, & de Goede 2001 (%); calculations done in online tool NINJA (Sieriebriennikov, Ferris, & de Goede, 2014)

SI: Structure index according to Ferris, Bongers, & de Goede 2001 (%); calculations done in online tool NINJA (Sieriebriennikov, Ferris, & de Goede, 2014)

He.a: Herbivorous nematode abundance (individuals per 100g dry soil); classification according to Sieriebriennikov, Ferris, & de Goede, 2014

He.ecto.a: Herbivorous ectoparasite nematode abundance (individuals per 100g dry soil); classification according to Sieriebriennikov, Ferris, & de Goede, 2014

He.endo.a: Herbivorous endoparasite nematode abundance (individuals per 100g dry soil); classification according to Sieriebriennikov, Ferris, & de Goede, 2014

Ba.a: Bacterivorous nematode abundance (individuals per 100g dry soil); classification according to Sieriebriennikov, Ferris, & de Goede, 2014

Fu.a: Fungivorous nematode abundance (individuals per 100g dry soil); classification according to Sieriebriennikov, Ferris, & de Goede, 2014

Om.a: Omnivorous nematode abundance (individuals per 100g dry soil); classification according to Sieriebriennikov, Ferris, & de Goede, 2014

Ca.a: Carnivorous nematode abundance (individuals per 100g dry soil); classification according to Sieriebriennikov, Ferris, & de Goede, 2014

Om.Ca.a	Sum of omnivorous and carnivorous nematode abundance (individuals per 100g dry soil); classification according to Sieriebriennikov, Ferris, & de Goede, 2014
CP1.a: C-P (colonizer-persister) class 1 nematode abundance (individuals per 100g dry soil); C-P classification according to Bongers 1990; equivalent to enrichment indicators according to Ferris, Bongers, & de Goede 2001

CP2.a: C-P (colonizer-persister) class 2 nematode abundance (individuals per 100g dry soil); C-P classification according to Bongers 1990; equivalent to stress indicators according to Ferris, Bongers, & de Goede 2001

CP3.a: C-P (colonizer-persister) class 3 nematode abundance (individuals per 100g dry soil); C-P classification according to Bongers 1990

CP4.a: C-P (colonizer-persister) class 4 nematode abundance (individuals per 100g dry soil); C-P classification according to Bongers 1990

CP5.a: C-P (colonizer-persister) class 5 nematode abundance (individuals per 100g dry soil); C-P classification according to Bongers 1990

CP3-5.a: Sum of C-P3, C-P4 and C-P5 nematode abundance (individuals per 100g dry soil) equivalent to structure indicators according to Ferris, Bongers, & de Goede 2001

protect.sp.pro: plant species categorized into species of concern based on their red list status in Switzerland as well as their protection status in Switzerland and the Canton Zurich (Moser, Gygax, Bäumler, Wyler, & Palese, 2002)

tar.sp: Number of target species (all species recorded in the eleven target plots plus propagules of species applied by hand, resulting in a total of 143 species)

Indi.moist: Plant indicator values for soil moisture according to Landolt et al. 2010

Indi.nutri: Plant indicator values for soil nutrients according to Landolt et al. 2010

Management: level of mowing and manuring frequency (35-40 kg N ha-1 application-1); intensity1 = mowing once and no manure; intensity2 = 2-3 times mowing and no manure; intensity3 = 2-3 times mowing and manuring; intensity4 = 4-5 times mowing and manuring

Tillage: last time of tillage

Land.use.history: for Initial plots = recent agricultural use; for all restored sites = agricultural use before restoration
Mowing	earliest date of biomass harvesting (excluding “Initial”) based on contracts between farmers and the Nature Protection Agency of Zurich

Soil.type: based on soil mapping survey 1991 (before restoration)

Soil.texture: determined by the sediment method (Gee & Bauder 1986) and classified into soil textural classes according to FAO (1990)

pH: soil pH (CaCl2)

Slope: slope gradient classes according to FAO (1990; %)

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

Paper Citation:
 > Resch, M.C., Schütz, M., Graf, U., Wagenaar, R., van der Putten, W.H., Risch, A.C. 2019. Does topsoil removal in grassland restoration benefit both soil nematode and plant communities? Journal of Applied Ecology 56: 1782-1793.

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

 Methods
 Study area and experimental settings
The study was conducted in a nature reserve (Eigental: 47° 27’ to 47° 29’ N, 8° 37’ E, 461 to 507 m a.s.l.) that is located on the Swiss Central plateau close to Zurich airport (Canton Zurich, Switzerland). The mean annual temperature in this area ranges from 8.9 to 10.6 °C, mean annual precipitation from 910 to 1260 mm [10-year average (2007-2017); MeteoSchweiz, 2018]. The main soil types are calcaric to gleyic Cambisol and Gleysols. The reserve was established in 1967 to protect small remnants of oligotrophic semi-natural grasslands (roughly 12 ha). The plant community can be characterized as Molinion and Mesobromion (semi-wet to semi-dry), depending on the site-specific groundwater level and slope inclination (Delarze, Gonseth, Eggenberg, & Vust, 2015). These remnants represent species-rich islands in an otherwise intensively managed agricultural landscape. Semi-natural grasslands covered an area of 60,000 ha in the Canton Zurich in 1939, however, by 2005 only roughly 600 ha remained (Baudirektion Kanton Zürich, 2007). In 1990, the government of Canton Zurich decided to enlarge the nature reserve Eigental. The goal was to incorporate eleven patches of 20 ha adjacent intensively farmed land and transform these patches into semi-natural grasslands. The patches had a different agricultural history, ranging from permanent (no tillage for >50 years) to temporary grassland (as part of crop rotation; last tillage <5 years). On all freshly integrated patches fertilization was stopped in 1992 and from then on biomass was harvested three times a year and removed. After 5 years without noticeable effects on vegetation composition, the Nature Conservation Agency of Canton Zurich decided to increase the restoration efforts. In 1995, a large-scale experiment was initialized to evaluate if certain treatments can facilitate restoration within a reasonable timeframe of 5 to 10 years after treatment implementation.
The three restoration treatments used were:
i. “Harvest only”: Plots are being mowed two to three times a year and the biomass is removed.
ii. “Topsoil”: Topsoil was removed to a depth of 10 to 20 cm, depending on the depth of the O and A horizon, in four randomly selected areas within each of the eleven patches in late autumn 1995. The size of each topsoil removal area depended on individual patch size and was between 2700 and 7000 m2.
iii. “Topsoil+Propagules”: Propagules from target vegetation were added on half of the area where topsoil was removed, using fresh, seed-containing hay originating from a mixture of semi-dry to semi-wet species-rich grasslands of local provenance (within a radius of 7 km). Hay applications were conducted twice in 1995 and 1996. Repeated applications were chosen to account for the low quantity of available plant material per transfer, since area ratio between receptor and donor sites was roughly 1:1. In addition, hand-collected propagules from 15 selected target species of regional provenance (within a radius of 30 km) were equally applied in 1996 and 1997.
“Topsoil” and “Topsoil+Propagules” plots are mowed once a year, and the biomass is removed. Mowing on these plots started five years after the treatment was implemented.
Eleven permanent plots of 5 m x 5 m were randomly established in each treatment to monitor the vegetation development. The experiment was complemented with 11 control plots that represent the initial state of intensively managed grasslands, further referred to as “Initial”, and 11 control plots that represent the targeted state of donor sites for “Topsoil+Propagules”, further referred to as “Target”. Consequently, the experiment consists of 55 plots (5 treatments x 11 replicates). Management of intensively used grasslands includes mowing and fertilizing (manure) between two to five times a year, as well as different tillage regimes (no tillage for >50 years; last time of tillage <5 years).

 Nematode and plant sampling
Soil nematodes were sampled in 2 m x 2 m plots, randomly established at least 2 m away from the vegetation plots. We collected eight soil cores with a 2.2 cm diameter soil core sampler (Giddings Machine Company, Windsor, CO, USA) to a depth of 12 cm (representing the majority of the plant rooting system) in each plot at the beginning of July 2017. The eight cores within each replicate plot were combined, gently homogenized, placed in coolers and transported to the laboratory of NIOO in Wageningen, the Netherlands, within one week. Free-living nematodes were extracted from 200 g of fresh soil using Oostenbrink elutriator (Oostenbrink, 1960) and concentrated, resulting in 6 mL nematode solution. The nematode solution was subdivided into three subsamples, two for morphological identification and quantification, and one for molecular work (not used in this study). For morphological identification and quantification, nematodes were heat-killed at 90 °C and fixed in 4 % formaldehyde solution (final volume 10 mL per subsample). All nematodes in 1 mL of formaldehyde solution were counted, and a minimum of 150 individuals per 1 mL sample (or all if less nematodes were present) were identified to family level using Bongers (1988). We then extrapolated the numbers of each nematode taxa identified to the entire sample and expressed them per 100 g dry soil for further analyses.
We calculated number of nematode taxa and Shannon diversity and assessed nematode community composition. In addition, we classified the nematode taxa into feeding types (herbivores, bacterivores, fungivores, omni-carnivores), structural and functional guilds (Table S4). Structural guilds assign nematode taxa according to life-history traits into five colonizer-persister (C-P) classes, ranging from one (early colonizers of new resources) to five (persisters in undisturbed habitats; Bongers 1990). C-P classes can be categorized as indicators for nutrient-enriched (C-P1), stressed (C-P2) and structured (C-P3 + C-P4 + C-P5) soil conditions (Ferris, Bongers, & de Goede, 2001). Functional guilds assign nematode taxa according to their C-P classification combined with their feeding habits (Ferris, Bongers, & de Goede, 2001). Based on the structural and functional guild classification we calculated five additional indices to assess soil nutrient status, disturbance and food web characteristics using NINJA (Sieriebriennikov, Ferris, & de Goede, 2014). 1) The Maturity index indicates the degree of different environmental perturbations (e.g., tillage, nutrient enrichment, pollution) and is used to monitor colonization and subsequent succession after disturbances (Bongers, 1990). 2) The ratio between the Plant Parasite (C-P of herbivorous nematodes only) to Maturity index is used to monitor the recovery of disturbed habitats incorporating information of life-history traits for all feeding types (Bongers, van der Meulen, & Korthals, 1997). 3) The Enrichment index indicates nutrient-enriched soils and agricultural management practices (Ferris, Bongers, & de Goede, 2001). 4) The Structure index provides information about the succession stage of the soil food web and therefore correlates with the degree of maturity of an ecosystem (Ferris, Bongers, & de Goede, 2001). 5) The Channel index provides information about the predominant decomposition pathways, where higher values stand for a higher proportion of energy transformed through the slow fungal decomposition channel (Ferris, Bongers, & de Goede, 2001). In addition, the Structure and Enrichment indices can be displayed in a biplot where nematode assemblages are plotted along a structure (x-axis) and enrichment (y-axis) trajectory (increasing index values). Each biplot quadrat reflects different levels of disturbance, soil nutrient pools and decomposition pathways (Ferris, Bongers, & de Goede, 2001).
The plant surveys were conducted on the 25 m2 permanent plots in June 2017. Plant species cover was visually assessed according to the semi-quantitative cover-abundance scale of Braun-Blanquet (1964; nomenclature: Lauber & Wagner, 1996). We calculated number of species and Shannon diversity, and assessed plant community composition. We also counted the number of target species (all species recorded in the eleven target plots plus propagules of species applied by hand, resulting in a total of 143 species) and categorized plant species into species of concern based on their red list status in Switzerland as well as their protection status in Switzerland and the Canton Zurich (Moser, Gygax, Bäumler, Wyler, & Palese, 2002). Furthermore, we calculated indicator values for soil moisture and soil nutrients for each species according to Landolt et al. (2010).

 References
Baudirektion Kanton Zürich (2007). 10 Jahre Naturschutz-Gesamtkonzept für den Kanton Zürich 1995-2005 – Stand der Umsetzung. Zürich: Baudirektion Kanton Zürich.
Bongers, T. (1988). De nematoden van Nederland. Utrecht: Stichting Uitgeverij Koninklijke Nederlandse Natuurhistorische Vereniging.
Bongers, T. (1990). The maturity index: an ecological measure of environmental disturbance based on nematode species composition. Oecologia, 83, 14-19. doi:10.1007/BF00324627
Bongers, T., van der Meulen, H., & Korthals, G. (1997). Inverse relationship between the nematode maturity index and plant parasite index under enriched nutrient conditions. Applied Soil Ecology, 6, 195-199. doi:10.1016/S0929-1393(96)00136-9
Braun-Blanquet, J. (1964). Pflanzensoziologie, Grundzüge der Vegetationskunde (3rd ed.). Wien: Springer.
Delarze, R., Gonseth, Y., Eggenberg, S., & Vust, M. (2015). Lebensräume der Schweiz: Ökologie - Gefährdung - Kennarten (3rd ed.). Bern: Ott.
Ferris, H., Bongers, T., & de Goede, R.G.M. (2001). A framework for soil food web diagnostics: extension of the nematode faunal analysis concept. Applied Soil Ecology, 18, 13-29. doi:10.1016/S0929-1393(01)00152-4
Landolt, E., Bäumler, B., Erhardt, A., Hegg, O., Klötzli, F., Lämmler, W., … Wohlgemuth, T. (2010). Flora indicativa. Ecological indicator values and biological attributes of the Flora of Switzerland and the Alps (2nd ed.). Bern: Haupt.
Lauber, K., & Wagner, G. (1996). Flora Helvetica. Flora der Schweiz. Bern: Haupt.
MeteoSchweiz (2018). Klimabulletin Jahr 2017, Zürich: MeteoSchweiz.
Moser, D., Gygax, A., Bäumler, B., Wyler, N., & Palese, R. (2002) Rote Liste der gefährteten Farn- und Blütenpflanzen der Schweiz. Bern: BUWAL.
Oostenbrink, M. (1960). Estimating nematode populations by some selected methods. In N.J. Sasser & W.R. Jenkins (Eds.), Nematology (pp. 85-101). Chapel Hill: University of North Carolina Press.
Sieriebriennikov, B., Ferris, H., & de Goede, R.G.M (2014). NINJA: An automated calculation system for nematode-based biological monitoring. European Journal of Soil Biology, 61, 90-93. doi:10.1016/j.ejsobi.2014.02.004

diversity

display_name: diversity

grassland

display_name: grassland

long-term-experiment

display_name: long-term-experiment

nematodes

display_name: nematodes

restoration

display_name: restoration

topsoil-removal

display_name: topsoil-removal

vegetation

display_name: vegetation

en: Grassland restoration: nematodes and plant communities


en: atlantic-ocean actinopterygii barcoding mitochondrial-dna teleo-primers 12s environmental-dna

state: active

type: dataset

media_type: text/csv

en: This file contains the metadata associated with each 12 s mitochondrial sequence.

format: CSV

en: This file contains the 12s mitochondrial sequences for the Atlantic fishes collected on a French scientific survey (Evhoe) for stock assessment.

format: OCTET

media_type: application/zip

format: ZIP

en: This file contains the Teleo Barcode for the Atlantic fishes collected during a French scientific survey (Evhoe) for stock assessment.

en: This file contains the metadata associated with each scientific survey

en:
The global biodiversity crisis driven by anthropogenic pressures significantly threatens marine ecosystems functioning. The rate of climate change and the impacts of anthropogenic pressures outpacing the capabilities of our observation tools, stresses the need to develop new methods to assess these rapid modifications. Environmental DNA (eDNA; DNA traces released by organisms) metabarcoding has emerged as a non-invasive method that has been widely developed over the last decade. Thanks to a large spatio-temporal coverage, high detection of rare species and its time and cost effectiveness, eDNA metabarcoding represents a promising biomonitoring tool. However, capturing fish diversity using eDNA requires a high-quality genetic reference database, which we are currently still lacking. For the South European Atlantic shelf area, we estimated that only 41% of the fish species present were recorded in the available eDNA reference databases. Improving reference databases can notably rely on opportunistic sampling enabling the reporting of sequences for new species. Therefore, the data provided here consists of barcoding 95 species of ray-finned and cartilaginous fishes over the 12S mitochondrial DNA gene. We generated 168 12S barcodes from fishes that were sampled in the Bay of Biscay (Northeast Atlantic, France) between 2017 and 2019. We also provided the “Teleo” barcode associated with a specific 12S region for each individual. In addition to the sequences, we provided for each individual the taxonomy, the details associated with the barcode (Genbank accession number, chromatograms), a photograph, as well as 5 ecomorphological measures and 11 life-history traits. These traits document several functions such as dispersion, diet, habitat use, and position in the food web. Furthermore, we provided the metadata of each sampling site (date, station, sampling hour, gear, latitude, longitude, depth) and environmental variables measured in situ (conductivity, salinity, water temperature, water density, air temperature).
This data set is highly valuable to improve the Northeast Atlantic eDNA genetic database, thus helping to better understand the effects of environmental forcing in the Bay of Biscay, a transition zone housing mixed assemblages of boreal, temperate and subtropical fish species susceptible to display variability in functional traits to adapt to changing conditions.

actinopterygii

display_name: actinopterygii

atlantic-ocean

display_name: atlantic-ocean

barcoding

display_name: barcoding

environmental-dna

display_name: environmental-dna

mitochondrial-dna

display_name: mitochondrial-dna

teleo-primers

display_name: teleo-primers

educ

fr: Éducation, culture et sport

de: Bildung, Kultur und Sport

en: Education, culture and sport

it: Istruzione, cultura e sport

envidat

fr: EnviDat: le portail de données environnementales

de: EnviDat: das Umwelt-Datenportal

en: EnviDat: the Environmental Data Portal

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.

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.

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: ATLFISHREF A 12S mitochondrial reference dataset for metabarcoding Atlantic Fishes frequently caught during scientific surveys in the Bay of Biscay


maintainer: Jana von Freyberg

en: review stable-water-isotopes plant-water-uptake endmember-mixing-models root-zone ecohydrology uncertainties

en: Data set of MEE-20-04-264 (CSV)

en: Data set of MEE-20-04-264

media_type: application/pdf

en: The following two tables contain information about the data sources of the values reported in Table 1 and 2 in the paper “Plant and root-zone water isotopes are difficult to measure, explain, and predict: some practical recommendations for determining plant water sources” published in the journal ‘Methods in Ecology and Evolution’.

format: PDF

mimetype: application/pdf

en: The following two tables contain information about the data sources of the values reported in Table 1 and 2 in the paper “Plant and root-zone water isotopes are difficult to measure, explain, and predict: some practical recommendations for determining plant water sources” published in the journal 'Methods in Ecology and Evolution'.

ecohydrology

display_name: ecohydrology

endmember-mixing-models

display_name: endmember-mixing-models

plant-water-uptake

display_name: plant-water-uptake

review

display_name: review

root-zone

display_name: root-zone

stable-water-isotopes

display_name: stable-water-isotopes

uncertainties

display_name: uncertainties

en: Data set of: Plant and root-zone water isotopes are difficult to measure, explain, and predict: some practical recommendations for determining plant water sources


maintainer: Franziska Gerber

en: cryowrf static-data wrf landuse cosmo-wrf topography

en: Static data for WRF - Landuse

format: SERVICE

en:
Example GEOGRID.TBL to use with the 1s static data;
Note about naming:
* 121 -> 1-2-1 topography smoothing applied to dataset
* 1 -> one smoothing cycle applied to the data (needs to be changed depending on the chosen resolution to avoid too steep slope angles)

en: Documentation

en: Documentation of the dataset

en: Static data for WRF - Topography

en: Static data for WRF - Soiltype bottom

en: Static data for WRF - Soiltype top

en: Example namelist.wps to use with the 1s static data

en: Static input data (topography, landuse and soiltype) for the WRF preprocessing system WPS is provided for Switzerland and its neighboring countries between 45-49 N and 4-12 E. The data is provided at a resolution of 1 s. Topography is based on the Aster dataset, while landuse is extracted from the Corine landuse dataset. Soil type is set to silty clay loam for the entire domain. This static input data is valid for WRF and CRYOWRF.

cosmo-wrf

display_name: cosmo-wrf

cryowrf

display_name: cryowrf

landuse

display_name: landuse

static-data

display_name: static-data

topography

display_name: topography

wrf

display_name: wrf

en: High resolution static data for WRF over Switzerland


maintainer: EnviDat Support

en: climate-change precipitation snowmelt hydrology discharge soil-moisture

en: Shapefile of 307 catchments in Switzerland

en: Shapefile of the 307 medium-sized catchments in Switzerland. The "gridcode" provides the ID of the catchment used in the datafiles.

mimetype: application/zip

en: Daily simulated data for the future period

en: Daily simulated discharge, precipitation, snowmelt, and soil moisture for the period 1981-2100 in mm for the 307 catchments.

en: Daily simulated data for the reference period

en: Daily simulated discharge, precipitation, snowmelt, and soil moisture for the reference period 1981-2017 in mm.

en:
Daily discharge and the related hydro-meteorological variables precipitation, snowmelt, and soil moisture are provided for current (1981-2017) and for future climate conditions (1981-2100) for 307 medium-sized catchments in Switzerland. The catchments have a median catchment area of 117 km². The 307 catchments together form a set representative of the climatological conditions and runoff characteristics in Switzerland. The four variables were simulated at a daily resolution using the hydrological model PREVAH. PREVAH is a conceptual process-based model that was run in this study in its fully distributed version on a 500 m grid (Viviroli et al. 2009a). For the calibration, runoff time series from 140 mesoscale catchments covering the different runoff regimes were used. The model calibration was conducted over the period 1993-1997. Verification was performed on the period 1983-2005 using (i) volumetric deviation (Viviroli et al. 2007) and (ii) benchmark efficiency (Schäfli et al 2007) as objective functions. The calibration and validation procedures are described in detail in Köplin et al. (2010). The parameters for each model grid cell were derived by regionalizing the parameters obtained for the 140 catchments with a procedure based on ordinary kriging (Viviroli et al. 2009b, Köplin et al. 2010).
The calibrated and validated model was then driven with transient meteorological data (precipitation, temperature, radiation, and wind) representing both reference (1981-2017) and future climate conditions (2018-2099). The data were derived from the CH2018 climate scenarios (NCCS 2018) provided by the Swiss National Centre for Climate Services (NCCS). They were obtained from climate experiments produced with different climate modeling chains, consisting of a global and a regional circulation model each, within EUROCORDEX for three representative concentration pathways (RCP) emission scenarios. Downscaled output of ten climate model chains derived by quantile mapping were considered. The focus was on the chains of the EUR-11 domain with a horizontal resolution of 0.11 degrees (roughly 12.5 km). The climate model chains (GCM, RCM, RCP, and grid resolution) used are listed below:

- ICHEC-EC-EARTH	DMI-HIRHAM5	2.6	EUR-11
- ICHEC-EC-EARTH	DMI-HIRHAM5	4.5	EUR-11
- ICHEC-EC-EARTH	DMI-HIRHAM5	8.5	EUR-11
- ICHEC-EC-EARTH	SMHI-RCA4	2.6	EUR-11
- ICHEC-EC-EARTH	SMHI-RCA4	4.5	EUR-11
- ICHEC-EC-EARTH	SMHI-RCA4	8.5	EUR-11
- MOHC-HadGEM2-ES	SMHI-RCA4	4.5	EUR-11
- MOHC-HadGEM2-ES	SMHI-RCA4	8.5	EUR-11
- MPI-M-MPI-ESM-LR	SMHI-RCA4	4.5	EUR-11
- MPI-M-MPI-ESM-LR	SMHI-RCA4	8.5	EUR-11

*References*:

-	Köplin, N., D. Viviroli, B. Schädler, and R. Weingartner (2010), _How does climate change affect mesoscale catchments in Switzerland? - A framework for a comprehensive assessment_, Advances in Geosciences, 27, 111-119, doi:10.5194/adgeo-27-111-2010.
-	National Centre for Climate Services (2018), CH2018 - _Climate Scenarios for Switzerland_, Tech. rep., NCCS, Zurich.
-	Schäfli, B., and H. V. Gupta (2007), _Do Nash values have value?_, Hydrological Processes, 21, 2075-2080, doi:10.1002/hyp.6825.
-	Viviroli, D., J. Gurtz, and M. Zappa (2007), _The hydrological modelling system PREVAH. Part II - Physical model description_, Geographica Bernensia, 40, 1-89.
-	Viviroli, D., M. Zappa, J. Gurtz, and R. Weingartner (2009a), _An introduction to the hydrological modelling system PREVAH and its pre- and post-processing-tools_, Environmental Modelling & Software, 24, 1209-1222, doi:10.1016/j.envsoft.2009.04.001.
-	Viviroli, D., H. Mittelbach, J. Gurtz, and R. Weingartner (2009b), _Continuous simulation for flood estimation in ungauged mesoscale catchments of Switzerland-Part II: Parameter regionalisation and flood estimation results_, Journal of Hydrology, 377 (1), 208-225, doi:10.1016/j.jhydrol.2009.08.022.

climate-change

display_name: climate-change

discharge

display_name: discharge

hydrology

display_name: hydrology

precipitation

display_name: precipitation

snowmelt

display_name: snowmelt

soil-moisture

display_name: soil-moisture

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: Simulated future discharge and climatological variables for medium-sized catchments in Switzerland


envidat-supports-open-science

maintainer: Ionut Iosifescu Enescu

title_for_slug: envidat-supports-open-science

en: research-data-management open-science juypter-notebooks envidat wsl

en: Article as PDF

en:
The article "EnviDat Supports Open Science" originally appeared in WSLintern No. 3 (2020), page 14-15 and it is republished here with permission from the WSLintern editorial team. It contains guidelines for WSL scientists about the main issues behind Open Science and how to pragmatically approach the complexities of doing Open Science with EnviDat’s support.

License: This article is released by WSL and the EnviDat team to the public domain under a Creative Commons 4.0 CC0 "No Rights Reserved" international license. You can reuse the information contained herein in any way you want, for any purposes and without restrictions.

display_name: envidat

juypter-notebooks

display_name: juypter-notebooks

open-science

display_name: open-science

research-data-management

display_name: research-data-management

wsl

display_name: wsl

en: EnviDat Supports Open Science


en: forest-structure canopy-height snow-distribution airborne-laser-scanning snow-depth

en: Canopy height maps

en: Canopy height maps of each of the three field areas Davos, Engadine and Grand Mesa

en: Terrain elevation maps

en: Digital elevation model computed from snow-off flights for each of the field areas Davos, Engadine and Grand Mesa

en: Snow depth maps

en: Snow depth maps from two snow-on flights at each of the three field areas Davos (March 20th and 31st 2017), Engadien (March 20th and 31st, 2017) and Grand Mesa (February 8th and 16th, 2017)

en: Readme

media_type: text/plain

format: TXT

mimetype: text/plain

en:
This dataset includes snow depth, canopy height and terrain elevation maps of forest stands in the Grisons (CH) and at Grand Mesa (CO,USA) derived from airborne lidar. Data were acquired i) within a pilot mission of NASA's Airborne Snow Observatory in the Swiss Alps in March 2017 and ii) during NASA’s SnowEx campaign at Grand Mesa in February 2017. Snow depth maps are available for two dates separated by approx.1 week, and include an area of ca. 0.5km2 for each of the three sites Davos, Engadine and Grand Mesa.
All data were presented and analyzed in the publication 'Revisiting Snow Cover Variability and Canopy Structure within Forest Stands: Insights from Airborne Lidar Data' (Mazzotti et al., 2019, WRR, doi: 10.1029/2019WR024898). This publication must be cited when using this dataset.

Paper Citation:
 > _Giulia Mazzotti; William Ryan Currier; Jeffrey S. Deems; Justin M. Pflug; Jessica D. Lundquist; Tobias Jonas (2019). Revisiting Snow Cover Variability and Canopy Structure Within Forest Stands: Insights From Airborne Lidar Data. Water Resources Research, 55, 6198– 6216, [doi: 10.1029/2019WR024898](https://doi.org/10.1029/2019WR024898)._

airborne-laser-scanning

display_name: airborne-laser-scanning

canopy-height

display_name: canopy-height

forest-structure

display_name: forest-structure

snow-depth

display_name: snow-depth

snow-distribution

display_name: snow-distribution

en: ALS-based snow depth and canopy height maps from flights in 2017 (Grisons, CH and Grand Mesa, CO)


en: gemstock snow-height meteo-station longwave-radiation shortwave-radiation

en: DATA ACCESS

en:
Meteo data at Gemsstock [Level 2 dataset](http://models.slf.ch/p/dataset-processing/).

fields      = timestamp TSS HS VW DW VW_MAX OSWR ISWR ILWR RECORD AUX_VOLTAGE LOGGER_VOLTAGE LW_SENSOR_TEMP VENTILATION_FLAG OLWR

en:
Meteorological station at Gemstock (3021 m asl) in Canton Uri. The station includes in/out LW/SW and a snow height sensor.

Data from this station is managed by the permos.ch project. More information: https://www.permos.ch/permafrost-monitoring/field-sites

gemstock

display_name: gemstock

longwave-radiation

display_name: longwave-radiation

meteo-station

display_name: meteo-station

shortwave-radiation

display_name: shortwave-radiation

snow-height

display_name: snow-height

educ

en: Education, culture and sport

envidat

en: EnviDat: the Environmental Data Portal

en: GEM2: Meteorological and snow station at Gemsstock (3021 m asl), Canton Uri, Switzerland


en: switzerland invertebarates trophic-networks vertebrates metaweb vascular-plants food-webs

en: trophiCH

en: We provide seven datasets: 1) the metaweb, 2) the taxa checklist, 3) the data source meta-dataset, 4) the list of generalist basal and predator families and polylectic species with citations and 5) a dataset with citations for the inferences of missing predators, 6) a dataset with citations for the parallel inference of diets from similar species and 7) a list of other existing metawebs. The empirical dataset is 00_empirical_metaweb.csv. To reproduce the final metaweb (01_final_metaweb.csv), start the R Project file: trophich.Rproj. We provide five scripts, accompanying functions, and the raw data required to run these scripts to reproduce the taxonomic expansion and validation of the datasets. In the first script (01_inferring_interactions.R), we infer interactions using genus and family level interactions and for basal feeding groups (see Methods: Taxonomic expansion). In the second script (02_inferring_interactions_special_cases.R), we infer further interactions for a few special cases with detailed explanations. In the third script (03_metaweb_comparisons.Rmd), we provide the statistical comparisons between our metaweb and other empirical metawebs as an R Markdown document. We additionally provide a a Python Jupyter Notebook document, outlining the error validation of the data extraction process (04_error_validation.ipynb and an accompanying .html file). Finally, we provide a script to reproduce figure 1 from the data paper (05_metaweb_summary_figure_1.R).

en:
Environmental pressures on species can cascade within food webs and even extend beyond individual ecosystems to interconnected systems at large spatial scales. To facilitate the exploration of these dynamics, we construct a data-based national trophic meta-food web (henceforth metaweb), that includes well-documented vertebrates, invertebrates, and vascular plants within Switzerland's national boundaries, and compiles 160 years of ecological knowledge. We additionally use a combination of taxonomic and geographic information to infer further species-level interactions. Our comprehensive dataset catalogues 1,112,073 trophic interactions involving 23,151 species and 125 feeding guilds (e.g. detritivores, fungivores, etc). While explorations of large-scale food webs in space and time have often relied on modelling approaches due to limited data availability, this empirically based metaweb paves the way for data-driven large-scale studies of real-world food webs. By integrating the metaweb with knowledge of local species assemblages, future studies can gain insights into the impact of global change drivers, including climate change and land-use intensification, on food web structures across spatial scales.
**Please note that this dataset is under embargo until publication of the paper.**

food-webs

display_name: food-webs

invertebarates

display_name: invertebarates

metaweb

display_name: metaweb

switzerland

display_name: switzerland

trophic-networks

display_name: trophic-networks

vascular-plants

display_name: vascular-plants

vertebrates

display_name: vertebrates

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: trophiCH v1 - a food web for Switzerland


en: beta-diversity ecosystem-functions microbial-biodiversity microbial-respiration soil-respiration

en: Fungal amplicon sequencing

en: Fungal ASVs and taxonomic tables

format: XLS

en: Bacterial amplicon sequencing

en: Bacterial ASVs and taxonomic tables

en: Microbial functions and metadata

en: Extracellular enzyme activities, respiration and sites metadata

en: Structural and functional changes of microbial communities in ephemeral stream sediments and adjacent soils between was assessed in an artificial newly created catchment at 3 and 13 years after catchment construction. Bacterial and fungal communities, respiration and extracellular enzyme activities were assessed.

beta-diversity

display_name: beta-diversity

ecosystem-functions

display_name: ecosystem-functions

microbial-biodiversity

display_name: microbial-biodiversity

microbial-respiration

display_name: microbial-respiration

soil-respiration

display_name: soil-respiration

en: Chicken Creek 10 years


maintainer: Anita C. Risch

en: mineralization global worldwide grassland nutrient-network soil-biology soil-chemistry soil

en:
site.code: Site code

Continent: Continent

sampleID: Sample ID

nn.latitude: Lattitude

nn.longitude: Longitude

bioclim.T.ann: Mean annual temperature (°C)

bioclim.T.var: Temperature variability (°C)

bioclim.T.q.wet: Temperature of the wettest quarter (°C)

bioclim.T.q.dry: Temperature of the driest quarter (°C)

bioclim.T.q.warm: Temperature of the warmest quarter (°C)

bioclim.P.ann: Mean annual preciptiation (mm)

bioclim.P.q.wet: Precipitation of the wettest quarter (mm)

ch.pH: pH

ch.WSK.vol: Water holding capacity (vol%)

ch.bulkdensity.gcm3: Bulk density (g cm-3)

ch.porespace: Pore space (vol%)

ch.sand.perc: Soil texture: sand (%)

ch.silt.perc: Soil texture: silt (%)

ch.clay.perc: Soil texture: clay (%)

ch.NO3start.mgg: NO3 at the beginning of the incubation (mgkg)

ch.Ntot.perc: Total soil N (%)

ch.Ctot.perc: Total soil C (%)

ch.Corg.perc: Soil organic C (%)

ch.netNminfield.mgkgd: Realised soil net N mineralisation (mg kg-1 d-1)

ch.netNminlab.mgkgd: Potential soil ne N mineralisation (mg kg-1 d-1)

archaea.cpg.log: Ammonia oxidising archaea (archaeal amoA gene copies g-1 soil)

bacteria.cpg.log: Ammonia oxidising bacteria (bacterial amoA gene copies g-1 soil)

micr.biom: Microbial biomass (ug g-1 soil)

ch.CtoN: C to N ratio

ch.netNnitriffield.mgkgd.sqrt: Realised soil net nitrification, transformed (mg kg-1 d-1)

ch.netNammoniffield.mgkgd.sqrt: Realised soil net ammonification, transformed (mg kg-1 d-1)

ch.netNnitriflab.mgkgd.sqrt: Potential soil net nitrification, transformed (mg kg-1 d-1)

ch.netNammoniflab.mgkgd.sqrt: Potential soil net ammonifiation, transformed (mg kg-1 d-1)

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

Paper Citation:

Risch, A. C.; Zimmermann, S.; Ochoa-Hueso, R.; Schütz, M.; Frey, B.; Firn, J. L.; Fay, P. A.; Hagedorn, F.; Borer, E. T.; Seabloom, E. W.; et al. Soil net nitrogen mineralisation across global grasslands. Nat. Commun. 2019, 10 (1), 4981 (10 pp.). doi.org/10.1038/s41467-019-12948-2

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

We conducted coordinated measurements of realised and potential soil net Nmin, and assessed water holding capacity, bulk density, C and N content, texture, pH, pore space, microbial biomass, and archaeal (AOA) and bacterial (AOB) ammonia oxidiser abundance using identical materials and methods across 30 grasslands on six continents. The sites covered a globally relevant range of climatic and edaphic conditions. Climate data was obtained from worldclim - Global climate data https://www.worldclim.org/

global

display_name: global

grassland

display_name: grassland

mineralization

display_name: mineralization

nutrient-network

display_name: nutrient-network

soil

display_name: soil

soil-biology

display_name: soil-biology

soil-chemistry

display_name: soil-chemistry

worldwide

display_name: worldwide

educ

en: Education, culture and sport

envidat

en: EnviDat: the Environmental Data Portal


vegetation-height-model-nfi

maintainer: Christian Ginzler

title_for_slug: vegetation-height-model-nfi

en: vegetation-height-model photogrammety 3d forest point-cloud

en: 2019 Vegetation Height Model NFI (current)

en:
Data 'Vegetation Height Model NFI 2019' available on request (christian.ginzler@wsl.ch).

A national vegetation height model was calculated for Switzerland using digital aerial images. We used the stereo aerial images acquired by the Federal Office of Topography swisstopo using the ADS80 sensor to first calculate a digital surface model (DSM) with a very high spatial resolution (1 × 1 m). The DSM was then normalized to obtain the actual vegetation heights using the digital terrain model (DTM) SwissAlti3D based on airborne laser data. Buildings are masked out using the NDVI information of the aerial images to produce a vegetation height model, and to produce a vegetation height model (VHM). Such a model will be calculated in the framework of the Swiss National Forest Inventory (NFI) with consistent methods and a very high level of detail. For covering the whole of Switzerland, we used summer aerial images from 2013 to 2019.

format: GeoTIFF

en: 2015 Vegetation Height Model NFI

en:
Data 'Vegetation Height Model NFI 2015' available on request (christian.ginzler@wsl.ch).

A national vegetation height model was calculated for Switzerland using digital aerial images. We used the stereo aerial images acquired by the Federal Office of Topography swisstopo using the ADS80 sensor to first calculate a digital surface model (DSM) with a very high spatial resolution (1 × 1 m). The DSM was then normalized to obtain the actual vegetation heights using the digital terrain model (DTM) SwissAlti3D based on airborne laser data. Buildings are masked out using the NDVI information of the aerial images to produce a vegetation height model, and to produce a vegetation height model (VHM). Such a model will be calculated in the framework of the Swiss National Forest Inventory (NFI) with consistent methods and a very high level of detail. For covering the whole of Switzerland, we used summer aerial images from 2010 to 2015.

en: 2012 Vegetation Height Model NFI

en:
Data 'Vegetation Height Model NFI 2012' available on request (christian.ginzler@wsl.ch).

A national vegetation height model was calculated for Switzerland using digital aerial images. We used the stereo aerial images acquired by the Federal Office of Topography swisstopo using the ADS80 sensor to first calculate a digital surface model (DSM) with a very high spatial resolution (1 × 1 m). The DSM was then normalized to obtain the actual vegetation heights using the digital terrain model (DTM) SwissAlti3D based on airborne laser data. Buildings are masked out using the NDVI information of the aerial images to produce a vegetation height model, and to produce a vegetation height model (VHM). Such a model will be calculated in the framework of the Swiss National Forest Inventory (NFI) with consistent methods and a very high level of detail. For covering the whole of Switzerland, we used summer aerial images from 2007 to 2012.

en: 2016 Vegetation Height Model NFI

en:
Data 'Vegetation Height Model NFI 2016' available on request (christian.ginzler@wsl.ch).

A national vegetation height model was calculated for Switzerland using digital aerial images. We used the stereo aerial images acquired by the Federal Office of Topography swisstopo using the ADS80 sensor to first calculate a digital surface model (DSM) with a very high spatial resolution (1 × 1 m). The DSM was then normalized to obtain the actual vegetation heights using the digital terrain model (DTM) SwissAlti3D based on airborne laser data. Buildings are masked out using the NDVI information of the aerial images to produce a vegetation height model, and to produce a vegetation height model (VHM). Such a model will be calculated in the framework of the Swiss National Forest Inventory (NFI) with consistent methods and a very high level of detail. For covering the whole of Switzerland, we used summer aerial images from 2011 to 2016.

en: Countrywide Stereo-Image Matching for Updating Digital Surface Models in the Framework of the Swiss National Forest Inventory

en: Thumbnail

mimetype: image/jpeg

en:
A national vegetation height model was calculated for Switzerland using digital aerial images.
We used the stereo aerial images acquired by the Federal Office of Topography swisstopo using the ADS80 sensor to first calculate a digital surface model (DSM) with a very high spatial resolution
(1 × 1 m and 0.5 x 0.5 m). The DSM was then normalized to obtain the actual
vegetation heights using a digital terrain model (DTM)
based on laser data with the buildings masked out, and to
produce a vegetation height model (VHM). Such a model
will be calculated in the framework of the Swiss National Forest Inventory (NFI) with consistent methods and a very
high level of detail. For covering the whole of Switzerland,
we use summer aerial images from six years.

Latest version is from 2019.

forest

display_name: forest

photogrammety

display_name: photogrammety

point-cloud

display_name: point-cloud

vegetation-height-model

display_name: vegetation-height-model

en: Vegetation Height Model NFI


en: snow-depth remote-sensing snow uas swe

en: HS map Brämabül, 14. April 2015

media_type: image/tiff

en:
10 cm resolution
15 cm accuracy

format: TIFF

mimetype: image/tiff

en: .tfw file

en: coordinates for the .tif raster

en:
This snow depth map was generated 14 January 2015, close to peak of winter accumulation, applying Unmanned Aerial System digital surface models with a spatial resolution of 10 cm. The covered area is 285'000 m2 at the top of Brämabüel, 2490 m a.s.l. covering all expositions. Coordinate system: CH1903LV03.

A detailed description is given here:

Bühler, Y., Adams, M. S., Bösch, R., and Stoffel, A.: Mapping snow depth in alpine terrain with unmanned aerial systems (UASs): potential and limitations, The Cryosphere, 10, 1075-1088, 10.5194/tc-10-1075-2016, 2016.

Abstract:
Detailed information on the spatial and temporal distribution, and variability of snow depth (HS) is a crucial input for numerous applications in hydrology, climatology, ecology and avalanche research. Nowadays, snow depth distribution is usually estimated by combining point measurements from weather stations or observers in the field with spatial interpolation algorithms. However, even a dense measurement network is not able to capture the large spatial variability of snow depth in alpine terrain.
Remote sensing methods, such as laser scanning or digital photogrammetry, have recently been successfully applied to map snow depth variability at local and regional scales. However, such data acquisition is costly, if manned airplanes are involved. The effectiveness of ground-based measurements on the other hand, is often hindered by occlusions, due to the complex terrain or acute viewing angles. In this paper, we investigate the application of unmanned aerial systems (UAS), in combination with structure-from-motion photogrammetry, to map snow depth distribution. Such systems have the advantage that they are comparatively cost-effective and can be applied very flexibly to cover also otherwise inaccessible terrain. In this study we map snow depth at two different locations: a) a sheltered location at the bottom of the Flüela valley (1900 m a.s.l.) and b) an exposed location (2500 m a.s.l.) on a peak in the ski resort Jakobshorn, both in the vicinity of Davos, Switzerland. At the first test site, we monitor the ablation on three different dates. We validate the photogrammetric snow depth maps using simultaneously acquired manual snow depth measurements. The resulting snow depth values have a root mean square error (RMSE) better than 0.07 to 0.15 m on meadows and rocks and a RMSE better than 0.30 m on sections covered by bushes or tall grass. This new measurement technology opens the door for efficient, flexible, repeatable and cost effective snow depth monitoring for various applications, investigating the worlds cryosphere.

remote-sensing

display_name: remote-sensing

snow

display_name: snow

snow-depth

display_name: snow-depth

swe

display_name: swe

uas

display_name: uas

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: UAS based snow depth maps Brämabüel, Davos, CH


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

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: drosophila-suzukii simple-sequence-repeats nuclear-microsatellite-markers switzerland biological-control trichopria-drosophilae multilocus-genotypes population-genetics

en: Multilocus genotypes (biallelic coding for 21 nuclear microsatellites) of Trichopria drosophilae described in Gugerli et al. Agrarforschung Schweiz 2019. Missing data denoted as '999'. Population codes (PopNo) are the following: 1, Vezia; 3, Contone ; 5, Davesco; 6, Corteglia; 7, Mezzana; 8, Stabio; 9, Gordola; 10, Sementina; 12, Brusata di Novazzano; 14, Monteggio; 16, Giubiasco; 17, ComoBP; 18, VD; 19, Weil_D; 20, Dossenheim; 21, BioPlanet_Como. Coordinates (CoordCH_E, CoordCH_N) refer to the Swiss coordinates system CH1903.

mimetype: text/csv

en: Table comprising all pertinent information for multiplex PCRs of species-specific nuclear microsatellite makers for Trichopria drosophilae, comprising all 21 newly developed markers, details on full sequences with GenBank accession numbers, primer sequences (including labeling and pig-tails), and repeat motives. PCRs with respective annealing temperatures (AnnealingTemp) refer to Type-It Multiplex PCR Kit (Qiagen, Hilden, Germany).

en:
 Nuclear microsatellite markers and genotype data for _Trichopria ddrosophilae_

This data set comprises (i) the characteristics of a set of 21 species-specific nuclear microsatellites for PCR amplification in _Trichopria drosophilae_ (ii) and genotype data for samples collected in southern Switzerland (Canton of Ticino), with few reference samples from Canton of Vaud, southern Germany, and northern Italy (lab-reared population).
Markers were developed by Ecogenics GmbH, Balgach (Switzerland), using MiSeq Nano 2x250 v2 format (on a mix of 10 individuals). Multiplex PCR assays for multilocus genotyping were established by Ecological Genetics (WSL Birmensdorf), and population genetic analyses are found in Gugerli et al., Agrarforschung Schweiz 2019.

biological-control

display_name: biological-control

drosophila-suzukii

display_name: drosophila-suzukii

multilocus-genotypes

display_name: multilocus-genotypes

nuclear-microsatellite-markers

display_name: nuclear-microsatellite-markers

population-genetics

display_name: population-genetics

simple-sequence-repeats

display_name: simple-sequence-repeats

switzerland

display_name: switzerland

trichopria-drosophilae

display_name: trichopria-drosophilae

en: Nuclear microsatellite markers for Trichopria drosophilae, parasitoid wasp on Drosophila suzukii


historical-vegetation-height-model-nfi

title_for_slug: historical-vegetation-height-model-nfi

en: nfi dsm historical vhm forest photogrammetry

en: 1985-1991 Vegetation Height Model

en: 1979-1985 Vegetation Height Model

en: 1990-1998 Vegetation Height Model

en: Description of available data

en: 1998-2006 Vegetation Height Model

en:
The main datasets available are 4 nationwide **Digital Surface Models (DSMs)** and corresponding **Vegetation Height Models (VHMs)** with a spatial resolution of 1 m.
The Vegetation Height Models are calculated by subtraction of a Digital Terrain Model (swissAlti3d version 2017, swisstopo) from the generated DSMs. DSMs were derived by image matching of **scanned historical images** (panchromatic 8-bit) acquired with a RC10 frame camera, in the context of the swisswide image acquisition campaigns of swisstopo.
Nationwide products could be generated for the **four epochs**
 1979-1985 / 1985-1991 / 1990-1998 / 1998-2006.
Additional information about successful image matching vs. interpolation of pixels and about the year of image acquisition are available in the corresponding files (**matched_area_xxxx_xxxx_binay.tif** and **meta_acquisition_year_xxxx_xxxx.json**, respectively).
To separate vegetation from non-vegetation areas a mask derived from a combination of information of the Topographic landscape model - TLM (swisstopo) and a NDVI layer was used and is supplied as **"TLM_mask.tif"**
Due to the occurrence of unrealistic vegetation height values caused by the failure of the image matching process (mainly overexposed images and clouds or very steep rocky terrain), pixel values > 60 m were set to NoData and < 0 m to 0.
All datasets are available in the Reference System **LV95 (EPSG: 2056) LN02 (EPSG: 5728)** and share the common **extent definition** (xmin ymin xmax ymax): 2480000 1070000 2840000 1300000

dsm

display_name: dsm

forest

display_name: forest

historical

display_name: historical

nfi

display_name: nfi

photogrammetry

display_name: photogrammetry

vhm

display_name: vhm

en: Historical Vegetation Height Model NFI


en: snow-water-equivalent snow-depth snow-density model-calibration-data model-validation-data

en: swe2hs calibration and validation data

en:
 Contents of this archive

 README.md

 A readme file containing a description of the other files.

 automatic_stations_validation_data.csv

 Daily data from the automatic weather stations used for validation.

 Data sources and providers are listed in the SWE2HS paper, Table 1.

 Columns:

  * date: timestamp of the format YYYY-MM-DD
  * HS_[m]: snow depth in [m]
  * SWE_[m]: snow water equivalent in [m]
  * site_id: code for the measurement site
  - HS_interpolated: boolean flag for interpolated values
  - SWE_interpolated: : boolean flag for interpolated values

 coordinates_swe2hs_paper_stations.csv

 Coordinates of all measurement sites used in the SWE2HS paper.

 Columns:

  * site_id: code for the measurement site
  * location_name: location name of the measurement site
  * lon_[wgs84]: longitude in WGS84
  * lat_[wgs84]: latitude in WGS84
  * elevation_[m]: atitude of the measurement site in [m]
  * dataset: dataset in which the station is included

 manual_station_calibration_data.csv

 Calibration data from the Swiss manual observer stations. Long station records
 trmmed to 15 random water-years.

 Columns:

  * date: timestamp of the format YYYY-MM-DD
  * HS_[m]: snow depth in [m]
  * SWE_[m]: snow water equivalent in [m]
  * SWE_from_profile_[m]: biweekly measurement from the SWE in the measurement
   pit. Corrected with the bulk density in order to match the snow depth from
   the measurement stake. Please refer to the paper for further details.
  * site_id: code for the measurement site

 manual_stations_validation_data.csv

 Validation data from the Swiss manual observer stations. Remaining water-years
 from the long sttaion record not used for the calibration data.

 Columns:

  * date: timestamp of the format YYYY-MM-DD
  * HS_[m]: snow depth in [m]
  * SWE_[m]: snow water equivalent in [m]
  * SWE_from_profile_[m]: biweekly measurement from the SWE in the measurement
   pit. Corrected with the bulk density in order to match the snow depth from
   the measurement stake. Please refer to the paper for further details.
  * site_id: code for the measurement site

 manual_stations_used_deltasnow_parameters.csv

 Site specific DeltaSNOW model parameters used for the calculation of the daily
 SWE series in 'manual_stations_calibration_data.csv' and
 'manual_stations_validation_data.csv'.

 Parameters were optimized by reducing RMSE to the biweekly snow pit SWE measurements.
 Please refer to the paper for further details.

 A python implementation of the DeltaSNOW model was used for the calculation:
 pydeltasnow (https://pypi.org/project/pydeltasnow/)

 For a detailed description of the DeltaSNOW model parameters please see the
 respective publication:

 Winkler, M., Schellander, H., & Gruber, S. (2021). Snow water equivalents
 exclusively from snow depths and their temporal changes: the Δ snow model.
 Hydrology and Earth System Sciences, 25(3), 1165-1187.

 Columns:

  * site_id: code for the measurement site
  * rho_max: Maximum density of an individual snow layer produced by the DeltaSNOW model in [kg/m3]
  * rho_null: Fresh snow density for a newly created layer [kg/m3
  * c_ov: Overburden factor due to fresh snow [-]
  * k_ov: Defines the impact of the individual layer density on the compaction due to overburden [-]
  * k: Exponent of the exponential-law compaction [m3/kg]
  * tau: Uncertainty bound [m]
  * eta_null: Effective compactive viscosity of snow for “zero-density” [Pa s]

en:
The data in this repository was used for the calibration and validation of the
SWE2HS model in the following publication:
Aschauer, J., Michel, A., Jonas, T., & Marty, C. (2023). An empirical model to calculate snow depth from daily snow water equivalent: SWE2HS 1.0. Geoscientific Model Development Discussions, 1-19. https://doi.org/10.5194/gmd-2022-258
Contains daily snow water equivalent and snow depth timeseries from stations in the European Alps.

model-calibration-data

display_name: model-calibration-data

model-validation-data

display_name: model-validation-data

snow-density

display_name: snow-density

snow-depth

display_name: snow-depth

snow-water-equivalent

display_name: snow-water-equivalent

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: SWE2HS model calibration and validation data


maintainer: Yohann Chauvier

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

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

educ

en: Education, culture and sport

en: EnviDat: the Environmental Data Portal

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


root-traits

maintainer: Ivano Brunner

title_for_slug: root-traits

en: fine-root-traits ingrowth-cores belowground-biomass drought soil-coring

en: Root-traits

en:
Fine-root traits of Scots pine in response to enhanced soil water availability deriving from long-term irrigation in the Pfynwald

Data_Fig.1.xlsx
Fine-root biomass of the topsoil (0-10 cm) in the dry and irrigated treatment of the Scots pine forest of the years 2003 to 2016 recorded by soil coring

Data_Tab1+2_2005.xlsx
Fine-root traits from roots of ingrowth cores from 2005 after two years of growth in the dry and irrigated treatment of the Scots pine forest

Data_Tab1+2_2016.xlsx
Fine-root traits from roots of ingrowth cores from 2016 after two years of growth, and from roots of the soil-coring sampling from 2016 in the dry and irrigated treatment of the Scots pine forest

belowground-biomass

display_name: belowground-biomass

drought

display_name: drought

fine-root-traits

display_name: fine-root-traits

ingrowth-cores

display_name: ingrowth-cores

soil-coring

display_name: soil-coring


maintainer: Vanessa Burg

en: bioenergy switzerland biogas manure review

en: Biogas from animal manure in Switzerland: energy potential, technology development and resource mobilization

en: Aim of this white paper is to provide decision-makers, administrations and stakeholders with the most current research findings in order to promote the optimal use of bioenergy from manure in the Swiss energy transition. For this purpose, the results of the Swiss competence center for bioenergy research - SCCER BIOSWEET - are summarized and presented in a broader context. If nothing else is mentioned, the results refer to Switzerland and in case of the feedstock to the domestic biomass potentials.

bioenergy

display_name: bioenergy

biogas

display_name: biogas

manure

display_name: manure

review

display_name: review

switzerland

display_name: switzerland


maintainer: Thorsten Bartels-Rausch

en: snow sea-salt-aerosol antartic laboratory-study polar cryosphere arctic

en: Experimental results of uptake coefficient vs. temperature and ozone concentration

en:
Data to Figure 3: Measured uptake coefficients as a function of temperature at 5E12 molecules per cm3 ozone concentration.

Data to Figure 6: Measured uptake coefficients at different temperatures as a function of gas- phase ozone concentration.

en: Experimental Results: Uptake coefficients vs. temperature and ozone concentration

en:
* Final Data to Figure 3: Uptake coefficients as a function of temperature at 5E12 molecules per cm3 ozone concentration.
* Final Data to Figure 6: Uptake coefficients at different temperatures as a function of gas- phase ozone concentration.

The average ozone uptake coefficients of the three cycles between the bypass and the flow tube per repeat is taken as the mean uptake coefficient for each experiment. Gamma was corrected for gas phase diffusion limitation following the Cooney–Kim– Davis (CKD) method52 (see supporting material of publication for details).

en: The reaction of ozone with bromide in polar regions results in the formation of reactive bromide species with impacts on ozone budget and the oxidative capacity of the lower atmosphere. Here, we present a data investigating the temperature dependence of bromide oxidation by ozone using a coated wall flow tube reactor coated with an aqueous mixture of citric acid and sodium bromide, a proxy for sea salt aerosol in snow or the free troposphere. Thus study shows the effect of of organic species at relatively mild temperatures between the freezing point and eutectic temperature as typical for Earth's cryosphere.

antartic

display_name: antartic

arctic

display_name: arctic

cryosphere

display_name: cryosphere

laboratory-study

display_name: laboratory-study

polar

display_name: polar

sea-salt-aerosol

display_name: sea-salt-aerosol

snow

display_name: snow

en: Kinetic experiments on the oxidation of bromide by ozone from 289-245 K.


en: ecology statistical-interpolation biodiversity forest microclimate climate-change radiation-transfer

en: Predicted microclimate topsoil temperatures at 5 cm below ground. 10 m spatial resolution raster files are provided for mean daily minimum (tmin), mean (tmean) and maximum (tmax) temperatures during each month from April (04) to October (10) over the period between 2012 to 2021.

en: Predicted microclimate air temperatures at 5 cm above ground. 10 m spatial resolution raster files are provided for mean daily minimum (tmin), mean (tmean) and maximum (tmax) temperatures during each month from April (04) to October (10) over the period between 2012 to 2021.

en: Predicted microclimate air temperatures at 100 cm above ground. 10 m spatial resolution raster files are provided for mean daily minimum (tmin), mean (tmean) and maximum (tmax) temperatures during each month from April (04) to October (10) over the period between 2012 to 2021.

en: Climate data matching the scales at which organisms experience climatic conditions are often missing. Yet, such data on microclimatic conditions are required to better understand climate-change impacts on biodiversity and ecosystem functioning. Here we combine a national network of microclimate temperature measurements with a novel radiative transfer model to map monthly minimum, mean and maximum temperatures during the vegetation period at a 10 meter spatial resolution across Switzerland. The temperature measurements took place in 107 sampling plots distributed across different habitat types, with 62 plots in forests, 22 below trees outside forests, and 23 in open grasslands. In each plot we measured temperature in the topsoil (-5cm), as well as in the air at 5cm and 100cm height above ground. Spatial interpolation was achieved by using a hybrid approach based on linear mixed effects models with input from detailed radiation estimates that account for topographic and vegetation shading, as well as other predictor variables related to the macroclimate, topography and vegetation height. Our data reveals strong horizontal and vertical variability in microclimate temperature, particularly for maximum temperatures at 5 cm above the ground and within the topsoil. Compared to macroclimate conditions as measured by weather stations outside forests, diurnal air and topsoil temperature ranges inside forests were reduced by up to 3.0 and 7.8 °C, respectively, while below trees outside forests, e.g. in hedges and below solitary trees, this buffering effect was 1.8 and 7.2 °C. We also found that in open grasslands, maximum temperatures at 5 cm above ground are on average 3.4 °C warmer than that of macroclimate, suggesting that in such habitats heat exposure close to the ground is often underestimated when using macroclimatic data. After accounting for macroclimate effects, microclimate patterns were primarily driven by radiation, with particularly strong effects on maximum temperatures. Results from spatial block cross-validation revealed predictive accuracies as measured by RSME’s ranging from 1.18 to 3.43 °C, with minimum temperatures generally being predicted more accurately than maximum temperatures. The microclimate maps presented here enable a more biologically relevant perspective when analysing climate-species interactions, which is expected to lead to a better understanding of biotic and ecosystem responses to climate and land use change.

biodiversity

display_name: biodiversity

climate-change

display_name: climate-change

ecology

display_name: ecology

forest

display_name: forest

microclimate

display_name: microclimate

radiation-transfer

display_name: radiation-transfer

statistical-interpolation

display_name: statistical-interpolation

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: Monthly topsoil and near surface microclimate temperature data for Switzerland


en: catchment-data meteorological-data snowpack rain-on-snow snow-hydrology

en: The file contains all data needed to run simulations with the snow cover model SNOWPACK.

en: Meteorological data used to run SNOWPACK for 58 catchments in the Swiss Alps. The data consists of a 2 km grid of "virtual meteorological stations" for each catchment. It was used to simulate snow cover processes during rain-on-snow events, therefore meteorological data of each catchment contains at least one rain-on-snow event. Further information can be found in the attached readme.txt and in Würzer & Jonas et al. (2017), currently under review in Hydrological Processes.

catchment-data

display_name: catchment-data

meteorological-data

display_name: meteorological-data

rain-on-snow

display_name: rain-on-snow

snow-hydrology

display_name: snow-hydrology

snowpack

display_name: snowpack

educ

en: Education, culture and sport

en: EnviDat: the Environmental Data Portal

en: Meteorological data for investigation of rain-on-snow events in 58 catchments in Switzerland


maintainer: Marco Moretti

en: biodiversity elevation-gradient climate wild-bee resource-availability anthophila hymenoptera urbanization predictive-modelling switzerland beta-diversity protected-areas functional-diversity community-indices

en: Deprecated-Predictors

en:
The compress file includes the rster files of the predictors used in the analyses, including the climate, resource availability, land-use and beekeeping intensity metrics.

The raster on the climate contains the PCA axes on the CHELSA variables.
The raster on resource availability contains the PCA axes on plant communities
The raster on land-use contains the land-use composition at 2500 m.
The raster on beekeeping intensity contains thedensity of hives within 2500 m

en: Protected areas

en: Protected areas considered, divided in three groups and rasters: protected areas sensu stricto, protected areas sensu lato and all protected areas

en: Elevation and waterbodies

en: Zip file containing two rasters: the digital elevation model of Switzerland and the waterbodies of Switzerland.

en: Taxonomic and functional metrics in the community plots

en:
Response data used for the modeling.
Lat: latitude community plot
Lon: longitude community plot
Richness: species richness
Shannon: Shannon diversity index
FDis: functional dispersion
TOP: Trait Onion Peeling (functional richness)
TED: Trait Even Distribution (functional evenness)
LCBD_taxo: local community contributions to taxonomic beta diversity
LCBD_fun: local community contributions to functional beta diversity
ITD: community weighted means inter-tegula distance
feeding_specialization: community weighted means feeding specialization
tong_length: community weighted means tongue length
phenostart: community weighted means start of the phenology
phenoduration: community weighted means duration of the phenoloy
cleptoparasite: community weighted means cleptoparasites
belowgound: community weighted means proportion belowground
solitary: community weighted means proportion solitary

en: Variable importance, model evaluation, partial dependence plots

en: The compress file containes a set of txt files with the variable importance, the model evaluation metrics and the partial dependence plots of each of the responses used (alpha and beta taxonomic and functional diversity metrics; community weighted means of 8 functional traits)

en: Spatial environmental predictors and responses

en:
The .zip file contains the rasters of the environmental predictors and the predicted responses:
-  **Environmental predictors.**:
  -  The raster on the climate contains the PCA axes on the CHELSA variables.
  -  The raster on resource availability contains the PCA axes on plant communities
  -  The raster on land-use contains the land-use composition at 2500 m.
  -  The raster on beekeeping intensity contains thedensity of hives within 2500 m
-  **Responses**:
- The predicted responses (alpha and beta taxonomic and functional metrics and the traits) without masking the waterbodies, used in the analyses (Diversity_stack_revised_Selected_descriptors.tif). It contains a stack of 20 responses in this order: "belowgound", "cleptoparasite","FDis", "feeding_specialization", "FEve", "FRic", "InvSimpson", "ITD","LCBD_fun" ,"LCBD_taxo","phenoduration", "phenostart", "Rao", "Richness", "Shannon", "Simpson","solitary", "TED", "tong_length", "TOP". "FEve", "FRic", "InvSimpson","Rao", "Simpson" were not included in the linked paper.
- The predicted responses (alpha and beta taxonomic and functional metrics and the traits) masking the waterbodies (masked.stack.all.diversity.tiff). It includes a stack of 15 responses (excludes "FEve", "FRic", "InvSimpson","Rao", "Simpson").

en: Wild bee trait data

en: Text file containing the scores of the 8 used traits. The data originates from the European trait database (compiler: Stuart Roberts; pollinator loss module of the EU- FP6 ALARM project).

en:
Raw data supporting the paper "Countrywide wild bee taxonomic and functional diversity reveal a spatial mismatch between alpha and beta-diversity facets across multiple ecological gradients". It contains taxonomic and functional metrics in 3343 community-plots distributed across Switzerland. The calculated metrics are:
- Alpha taxonomic community metrics: species richness and Shannon diversity
- Alpha functional community metrics: Functional richness (using the Trait Onion Peeling index, TOP), functional eveness (using the Trait Even Distribution index, TED) and the functional dispersion.
- Community weighted means of 8 functional traits
- The local community contributions on the functional and taxonomic beta diversity (LCBD).

The dataset also includes the following:
- The used predictors to model the spatial distribution of the community metrics (climate PCA, vegetation PCA, land-use metrics, beekeeping intensity).
-The three types of protected areas, defined according to the protective measures.
- The model evaluation, variable importance and partial dependece data.

anthophila

display_name: anthophila

beta-diversity

display_name: beta-diversity

climate

display_name: climate

community-indices

display_name: community-indices

elevation-gradient

display_name: elevation-gradient

functional-diversity

display_name: functional-diversity

hymenoptera

display_name: hymenoptera

predictive-modelling

display_name: predictive-modelling

protected-areas

display_name: protected-areas

resource-availability

display_name: resource-availability

switzerland

display_name: switzerland

urbanization

display_name: urbanization

wild-bee

display_name: wild-bee

en: Data on wild bee taxonomic and functional diversity in Switzerland


maintainer: Markus Schlegel

en: monitoring metabarcoding environmental-dna spore-dispersal air-sampling

en: Data files and analysis scripts (Version 1)

en: This ZIP archive contains the data and source code necessary to reproduce the analyses for the manuscript "A case study on the application of spore sampling for the monitoring of fungi". Please refer to README.pdf inside the archive for more information.

en: Data files and analysis scripts (Version 2)

en: This ZIP archive contains the data and source code necessary to reproduce the analyses for the manuscript "A case study on the application of spore sampling for the monitoring of macrofungi". Please refer to README.pdf inside the archive for more information.

en:
Resources associated with the manuscript *A case study on the application of spore sampling for the monitoring of macrofungi* ([Schlegel et al. 2024](https://doi.org/10.1111/1755-0998.13941)).
Airborne environmental DNA (eDNA) monitoring of fungi was evaluated on a species-rich grassland site. Extensive fruiting body surveys yielded 29 waxcap and clavarioid species, 19 of which were also detectable in air eDNA. The analysis indicates that spores of locally occurring fruiting bodies were detected, in addition to a large diversity of common fungal species, while rare and threatened species were under-represented in the air.
*Version 1* of the dataset was submitted during the review phase. *Version 2* contains minor changes and clarifications, and is up to date with the [published supplement](https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1111%2F1755-0998.13941&file=men13941-sup-0001-AppendixS1.pdf) of the study.
The contents of the ZIP archive:
* analysis scripts in [R-Markdown](https://rmarkdown.rstudio.com) format, including the rendered PDF output with figures and tables (*analysis* directory)
* eDNA sample metadata (*amplicon_meta*) and results of the amplicon clustering (*amplicon_data*) and the source code of the pipeline (*amplicon_pipeline*)
* positions of all fruiting body groups found in the surveys (3838 GPS points) (*surveys*)
* positions of the spore traps, taxonomy of studied grassland fungi and red-list species, and many more resources
Please refer to `README.pdf` inside the archive for a complete description of the file structure and information on how to reproduce the analyses.

air-sampling

display_name: air-sampling

environmental-dna

display_name: environmental-dna

metabarcoding

display_name: metabarcoding

monitoring

display_name: monitoring

spore-dispersal

display_name: spore-dispersal

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: Supporting information for case study on the application of spore sampling for the monitoring of macrofungi