en: detritus soil-biodiversity yellowstone bacteria wolf carcass decomposition carrion biogeochemical-cycling fungi

en:
Site	ID for different carcasses across the Yellowstone Landscape
Location	Sampling location, either under carcass or control plot
Species	Indicating whether carcass was from bison or elk
Gender	Gener of carcass; F = female, M = male, ? = unknown
Lat	Latitude
Long	Longitude
DSK	Days since kill; in days
Soil.N	Soil N concentration (%)
Soil.C	Soil C concentration (%)
Veg.C	Vegetation C concentration (%); dominant grasses sampled
Veg.N	Vegetation N concentration (%); dominant grasses sampled
Veg.CtoN	Vegetation C to N ratio; dominant grasses sampled
Soil.resp	Soil respiration (g m-2 h-1)
soil.temp	Soil temperature (°C)
Soil.moist	Soil moisture (volumentric; %)
CRR	Cotton rotting rate
bacteria.richness	Bacteria richness
bacteria.diversity	Bacteria diverstiy
fungi.richness	Fungi richness
fungi.diversity	Fungi diversity
bacteria.abundance	Bacteria abundance
fungi.abundance	Fungi abundance

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

Paper Citation:

Risch, A.C., Frossard, A., Schütz, M., Frey, B., Morris, A.W., Bump, J.K. (accepted) Effects of elk and bison carcasses on soil microbial communities and ecosystem functions in Yellowstone, USA. (accepted). Functional Ecology
doi: ...

Methods
Study area and study sites
This study was conducted in YNP’s Northern Range (NR), located in north-western Wyoming and south-western Montana, USA (~44.9163° N, 110.4169° W). The NR expands over ~1000 km2 and features long cold winters and short dry summers. Grasslands and shrublands dominate the NR that is the home of large migratory herds of bison (winter counts 2017: ~3919 individuals; Geremia, Wallen, & White, 2017) and elk (~5349 individuals) as well as their main predators, approximately five packs of wolves with a total of 33 individuals (Smith et al., 2017). As part of a long-term research program within YNP, wolf predation has been studied since their reintroduction in 1995.
For our study, we received ground-truthed coordinates of bison and elk carcasses from winter 2016/17 (November 2016 through April 2017) from the YNP Wolf Project. Between June 20 and July 1, 2017, we visited 24 carcasses in total. At five sites, we could not sample as the carcasses were no longer found. In total we located remains (hairmats, rumen content, bones, teeth) of 19 adult male and female carcasses (7 bison, 12 elk; Supplementary Table 1). Live body weights of adult bison and elk are approximately 730 kg (male bison), 450 kg (female bison), 330 kg (male elk), and 235 kg (female elk, Meagher, 1973; Quimby & Johnson, 1951).
The kills and subsequent consumption happened between 34 and 173 days prior to our sampling (hereafter “days since kill”, DSK), for which we accounted in our statistics. Note that wolves and other scavengers consumed the soft tissue of the carcasses quickly, hence, there is close to no soft tissue left for decomposition as compared to an intact body left on the soil surface. The 19 carcass sites covered the extent of YNP’s NR, with both bison and elk carcasses showing similar distributions; elevation ranged from 1703 to 2884 m a.s.l. (Supplementary Fig 1 & Supplementary Table 1). The carcasses were all located in grassland or sage-brush shrubland, with or without sparsely scattered trees, and both bison and elk carcasses showed the same distribution of DSK. At each study site, we selected a reference plot (hereafter “control”) that was of comparable size, slope aspect and vegetation to the carcass location (hereafter “carcass”). The control was at least 10 m away (Danell, Berteaux, & Brathen, 2002; Melis et al., 2007) from the carcass itself to ensure the absence of potential direct and indirect carcass effects (paired design; (Bump, Webster, et al., 2009; Bump, Peterson, et al., 2009).

Ecosystem functions and soil properties
We randomly collected 50 g of mineral soil from three locations on both control and carcass plots to a depth of 5 cm with sterile techniques and gently mixed the material to obtain a composite sample. Half the soil sample was immediately bagged in plastic bags (whirl packs), stored in a cooler with ice packs (~5 ºC), sieved (2-mm) and frozen within 4-6 hours of collection to assess soil microbial communities. For this purpose, we extracted total genomic DNA from 0.5 g soil using the PowerSoil DNA Isolation Kit (Qiagen, Hilden, Germany). DNA concentrations were measured using PicoGreen (Molecular Probes, Eugene, OR, USA). PCR amplifications of partial bacterial small-subunit ribosomal RNA genes (region V3–V4 of 16S rRNA) and fungal ribosomal internal transcribed spacers (region ITS2) were performed as described previously (Frey et al., 2016). Each sample consisting of 40 ng DNA was amplified in triplicate and pooled before purification with Agencourt AMPure XP beads (Beckman Colter, Berea, CA, USA) and quantified with the Qubit 2.0 fluorometric system (Life Technologies, Paisley, UK). Amplicons were sent to the Genome Quebec Innovation Center (Montreal, Canada) for barcoding using the Fluidigm Access Array technology and paired-end sequencing on the Illumina MiSeq v3 platform (Illumina Inc., San Diego, CA, USA).
Quality control of bacterial and fungal reads was performed using a customized pipeline (Supplementary Table 2; Frey et al., 2016). Paired-ends reads were matched with USEARCH (Edgar & Flyvbjerg, 2015), substitution errors were corrected using Bayeshammer (Nikolenko, Korobeynikov, & Alekseyev, 2013) and PCR primers were trimmed (allowing for 1 mismatch, read length >300 bp for 16S and >200 bp for ITS primers) using Cutadapt (M. Martin, 2011). Sequences were dereplicated and singleton reads removed prior to clustering into operational taxonomic units (OTUs) at 97% identity using USEARCH (Edgar, 2013). The remaining centroid sequences were tested for the presence of ribosomal signatures using Metaxa2 (Bengtsson-Palme et al., 2015) or ITSx (Bengtsson-Palme et al., 2013). Taxonomic assignments of the OTUs were obtained using Bayesian classifier (Wang, Garrity, Tiedje, & Cole, 2007) with a minimum bootstrap support of 60% implemented in mothur (Schloss et al., 2009) by querying the bacterial and fungal reads against the SILVA Release 128 (Quast et al., 2013) and UNITE 8.0 (Abarenkov et al., 2010) reference databases for 16S and ITS OTUs, respectively.
Abundances of the bacterial 16S rRNA gene and fungal ITS amplicon were determined by quantitative real-time PCR (qPCR) on an ABI7500 Fast Real-Time PCR system (Applied Biosystems, Foster City, CA, USA) as described previously (Frossard et al., 2018). The same primers (without barcodes) and cycling conditions as for the sequencing approach were used for the 16S and ITS qPCR. Three standard curves per target region were obtained using tenfold serial dilutions of plasmids generated from cloned targets (Frey, Niklaus, Kremer, Lüscher, & Zimmermann, 2011). Data were converted to represent mean copy number of targets per gram of soil (dry weight).
The other half of the soil sample was bagged in paper, dried to constant weight at 60°C, passed through a 2 mm sieve and analyzed for total C and N concentration with a CE Instruments NC 2100 soil analyzer (CE Elantech Inc., Lakewood NJ, USA). We also collected 20 mature and undamaged leaves of the dominant grass species growing on control and carcass sites, but taxa were not recorded. The plant material was dried at 60°C, finely ground till homogenized and also analyzed to obtain total C and N concentrations. Soil temperature (10 cm depth) was measured with a waterproof digital thermometer (Barnstead International, Dubuque IA, USA) at three locations each at the control and carcass site. Soil moisture (0 – 10 cm depth) was measured with time domain reflectometry (Field-Scout TDR-100; Spectrum Technologies, Plainfield IL, USA) at five randomly chosen points on control and carcass sites. We measured soil respiration at five randomly chosen points at both control and carcass sites with a PP-Systems SRC-1 soil respiration chamber (closed circuit) attached to a PP-Systems EGM-4 infrared gas analyzer (PP-Systems, Amesbury, MA, USA). For each measurement the soil chamber (15 cm high; 10 cm diameter) was tightly placed on the soil surface, after clipping plants to avoid measuring plant respiration or photosynthesis. Measurements were conducted over 120 s.
In addition, we assessed the decomposition rates of standardized OM using the cotton strip assay (Latter & Howson, 1977; Latter & Walton, 1988). Cotton cloth tensile strength loss (CTSL) is a measure of decomposition, and an index to express the combined effect of soil microclimatic, physical, chemical and biological properties on decomposition while accounting for OM quality (Latter & Walton, 1988; Risch, Jurgensen, & Frank, 2007; Withington & Sanford Jr., 2007). We placed five 20 cm wide x 13 cm long sheets of 100% unbleached cotton cloth (American Type SM 1/18’’, Warp: 34/1, Weft: 20/1, Weave plain, 29.5 picks/cm warp, 22 picks/cm weft, 237 g/m2; Daniel Jenny & Co., Switzerland;) at each carcass and control site vertically into the soil by making slits with a flat spade to a depth of 12 cm. We inserted each cloth with the spade, and then pushed the slit closed to assure tight contact with the soil. The cloths were retrieved after 18 to 27 days. After retrieval, the cloths were air-dried, remaining soil gently removed by hand, and 1.5 cm wide strips were cut at the 3.5-5.0 cm (top) and the 9-10.5 cm (bottom) soil depth. The strips were equilibrated at 50 % relative humidity and 20°C for 48 hours (climate chamber) prior to strength testing (Scanpro Awetron TH-1 tensile strength tester; AB Lorentzen and Wettre, Kista, Sweden). Cotton rotting rate (CRR) = (CTScontrol - CTSfinal/CTSfinal)1/3 * (365/t), where CTScontrol is the cotton tensile strength of a control cloth and CTSfinal the cotton tensile strength of the incubated sample, t is the incubation period in days. Control cloths were inserted into the ground and immediately retrieved to account for tensile strength loss associated with cloth insertion. We averaged the CRR of top and bottom strips for further analyses as no difference was found between the two. All sampling and cloth insertion took place between June 20 and July 1, 2017, cloths were retrieved between July 17 and 20, 2017. Soil respiration, average CRR, vegetation N concentration and vegetation C:N ratio are defined as ecosystem functions, soil C and N concentration, soil temperature and moisture as soil abiotic properties, and bacterial and fungal richness (number of taxa), diversity (Shannon) and abundance as soil biotic properties.

Statistical analyses
Univariate analyses for ecosystem functions, soil biotic and abiotic properties
We tested whether individual ecosystem functions, soil biotic and abiotic properties differed between carcass and control (“Location”), bison and elk (“Species”) and days since kill (“DSK”). For this purpose, we used linear mixed effect models (LMM, “nlme” package v 3.1 – 131.1 in R v 3.4.4; Pinheiro, Bates, DebRoy, & Sarkar, 2018; R Core Team, 2019) with Location, Species, Location x Species and DSK as fixed effects. Site was included as random effect to account for the paired design. We developed a separate model for all dependent variables. All but bacterial richness, fungal richness, fungal diversity and vegetation N concentration were natural-log transformed to meet model assumptions. For each LMM, we calculated contrasts to assess the specific comparisons we were interested in with the “lsmeans” package v 2.27-62 (Lenth & Love, 2018): 1) carcass vs control, 2) carcass bison vs control bison, and 3) carcass elk vs control elk. We also tested whether we had differences between bison and elk carcasses or the sites where bison and elk were killed and included contrasts 4) carcass bison vs carcass elk and 5) control bison vs control elk.
We calculated the log response ratio (LRR = ln[carcass/control]) to obtain carcass effects for all variables for both species separately. LRR < 0 indicates higher value at control compared to carcass, LRR > 0 indicates higher values at carcass compared control. We used LRRs for visualization and to assess spatial patterns in carcass effects across YNP. For this purpose we calculated the Moran’s I statistic for each ecosystem function, soil biotic and abiotic property based on a latitude-longitude matrix with the “moran.test” function in the “spdep” package version 1.1-3 (Bivand et al., 2019).
Multivariate analyses
Rare OTUs, defined as OTUs with a low abundance of reads, were retained in multivariate methods because they only marginally influence these analyses (Gobet, Quince, & Ramette, 2010). Bray–Curtis dissimilarity matrices were generated based on square-root-transformed matrices. We used Principal Coordinate Analyses (PCoA) to assess how soil bacterial and fungal communities differed between control and carcass of bison and elk (“vegan” package v 2.5-4, Oksanen et al., 2019). We then extracted PCoA axes scores 1 and 2 and used LMM (“nlme” package) with Location, Species, Location x Species and DSK as fixed effects. Site was, again, included as random effect. We again calculated the contrasts as described above using the “lsmeans” package. We also assessed how ecosystem functions, and soil abiotic and biotic properties were related to the soil bacteria and fungi community structure associated with bison and elk control and carcasses using the “envfit” function in the “vegan” package (Oksanen et al., 2019).
Indicator species analyses were performed using the multipatt function implemented in the “indicspecies” package version 1.7.6 with 100000 permutations (De Caceres & Jansen, 2016). This step allowed to identify OTUs that led to changes in multivariate patterns between control and carcass of both bison and elk separately (De Cáceres, Legendre, & Moretti, 2010). The multipatt function uses a point biserial correlation coefficient statistical test. Indicator OTUs were defined as bacterial and fungal OTUs with more than 50 sequences, i.e., removing rare taxa and taxa with low abundances containing little indicator information (Rime et al., 2015) and that were significantly correlated with Location (p < 0.05, correlation coefficient > 0.3). A heatmap of these OTUs were generated with the vegan and ggplot2 packages. The indicator analyses were performed in R version 3.3.3 (R Core Team, 2017).

References
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Frossard, A., Donhauser, J., Mestrot, A., Gygax, S., Bååth, E., & Frey, B. (2018). Long- and short-term effects of mercury pollution on the soil microbiome. Soil Biology and Biochemistry, 120, 191–199. doi:https://doi.org/10.1016/j.soilbio.2018.01.028
Geremia, C., Wallen, R., & White, P. J. (2017). Status report of the Yellowstone bison population, September 2017. Yellowstone National Park, Mammoth, WY, USA: National Park Service, Yellowstone Center for Resources.
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Please cite this paper together with the citation for the datafile.

bacteria

display_name: bacteria

biogeochemical-cycling

display_name: biogeochemical-cycling

carcass

display_name: carcass

carrion

display_name: carrion

decomposition

display_name: decomposition

detritus

display_name: detritus

fungi

display_name: fungi

soil-biodiversity

display_name: soil-biodiversity

wolf

display_name: wolf

yellowstone

display_name: yellowstone

en: Elk and bison carcasses in Yellowstone, USA


basal-area

title_for_slug: basal-area

state: active

type: dataset

format: SERVICE

en:
Sum of the stem cross-section areas of all living trees and shrubs starting at 12 cm dbh (standing and lying) at a height of 1.3 m (dbh measurement height).

Citation:
 > _Abegg, M.; Brändli, U.-B.; Cioldi, F.; Fischer, C.; Herold-Bonardi, A.; Huber M.; Keller, M.; Meile, R.; Rösler, E.; Speich, S.; Traub, B.; Vidondo, B. (2014). Fourth national forest inventory - result tables and maps on the Internet for the NFI 2009-2013 (NFI4b). [Published online 06.11.2014] Available from World Wide Web http://www.lfi.ch/resultate/ Birmensdorf, Swiss Federal Research Institute WSL. [doi:10.21258/1057112](https://doi.org/10.21258/1057112)_

accessible-forest-without-shrub-forest

display_name: accessible-forest-without-shrub-forest

altitudinal-vegetation-zone

display_name: altitudinal-vegetation-zone

avalanches-silvaprotect

display_name: avalanches-silvaprotect

basal-area

display_name: basal-area

biogeographical-region

display_name: biogeographical-region

canton

display_name: canton

conifers-broadleaves

display_name: conifers-broadleaves

diameter-classes

display_name: diameter-classes

economic-region

display_name: economic-region

forest-type-and-stage-of-development

display_name: forest-type-and-stage-of-development

giants

display_name: giants

landslide-mudflow-silvaprotect

display_name: landslide-mudflow-silvaprotect

lower-higher-altitudinal-zones

display_name: lower-higher-altitudinal-zones

main-tree-species

display_name: main-tree-species

ownership

display_name: ownership

potential-cost-for-timber-harvesting

display_name: potential-cost-for-timber-harvesting

processes-in-channels-silvaprotect

display_name: processes-in-channels-silvaprotect

production-region

display_name: production-region

protection-forest-region

display_name: protection-forest-region

rockfall-silvaprotect

display_name: rockfall-silvaprotect

site-quality

display_name: site-quality

stage-of-stand-development

display_name: stage-of-stand-development

tree-species-woody-species

display_name: tree-species-woody-species

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


lwf-neunkirch-long-term-research-site

title_for_slug: lwf-neunkirch-long-term-research-site

en: swiss-forest-lab meteorological-measurements plot meteorological-data forest infrastructure lwf

en: LWF plot Neunkirch. Photo: Anne Thimonier Rickenmann, 2011

en: Neunkirch Meteorological Data LWF

en:
![alt text](https://www.envidat.ch/dataset/86603cf3-979c-4b28-a63e-9852bfb969bd/resource/69a58300-d372-4487-8596-5403254d539d/download/lwf_neunkirch.jpg "LWF Neunkirch")

LWF Plot Neunkirch

- Community: Neunkirch / canton SH
- Date of installation: 14 July 1995
- Size of the plot: 2 ha
- Altitude (m): 554-609
- Mean slope: 58%
- Geology (in German): Tafeljura, oberer Malmkalk; Malmhängeschutt
- Soil types (WSL) : Rendzic Leptosols
- Woodland association after EK72: 13: Cardamino-Fagetum tilietosum
- Main tree species: Fagus sylvatica
- Management system: former coppices w. standards
- Silvicultural system: reserve
- Top-height diameter (quadratic average diameter of the 100 thickest trees per ha): 56.5 cm
- Number of trees BHD >= 12 cm (2011): 442
- Maximum tree age: Fagus sylvatica 160 yr - Acer pseudoplatanus 160 yr - Tilia sp. 110 yr

More Information: https://www.wsl.ch/en/forest/forest-development-and-monitoring/long-term-forest-ecosystem-research-lwf/sites/neunkirch.html

forest

display_name: forest

infrastructure

display_name: infrastructure

lwf

display_name: lwf

meteorological-data

display_name: meteorological-data

meteorological-measurements

display_name: meteorological-measurements

plot

display_name: plot

swiss-forest-lab

display_name: swiss-forest-lab

envidat

approval_status: approved

key: guid

key: uri

value: Envidat Harvester

en: LWF Neunkirch long-term research site


maintainer: EnviDat Support

en: wind-direction anemometer wind raclets wind-velocity wind-speed

en: Sonic wind component w

en:
The data contains values for w direction of the wind in a sampling frequency of 20 Hz.
Erroneour spikes were filterd in two steps.

1. Define moving window uₓ = u(i-3:i+3)
2. If u(i)-mean(uₓ) > 2*std(uₓ):u(i) = NaN

Frozen detectors resulted in continuous zero values (not filtered).
The wind speed and direction were calculated as follows:

wind speed = sqrt(u² + v²)
wind direction = 180° + (180° / PI)* arctan2 (-u, -v)

en: Sonic time

en: The data set contains the time in YYYY-mm-dd HH:MM:SS.sss for the anemometer data. The time is given in UTC+1.

en: Sonic wind component v

en:
The data contains values for v direction of the wind in a sampling frequency of 20 Hz.
Erroneour spikes were filterd in two steps.

1. Define moving window uₓ = u(i-3:i+3)
2. If u(i)-mean(uₓ) > 2*std(uₓ):u(i) = NaN

Frozen detectors resulted in continuous zero values (not filtered).
The wind speed and direction were calculated as follows:

wind speed = sqrt(u² + v²)
wind direction = 180° + (180° / PI)* arctan2 (-u, -v)

en: Sonic temperature

en: The data set contains values of temperature (°C) measured with the anemometer at a sampling frequency of 20 Hz.

en: Sonic wind component u

en:
The data contains values for u direction of the wind in a sampling frequency of 20 Hz.
Erroneour spikes were filterd in two steps.

1. Define moving window uₓ = u(i-3:i+3)
2. If u(i)-mean(uₓ) > 2*std(uₓ):u(i) = NaN

Frozen detectors resulted in continuous zero values (not filtered).
The wind speed and direction were calculated as follows:

wind speed = sqrt(u² + v²)
wind direction = 180° + (180° / PI)* arctan2 (-u, -v)

en: A Young 81000 sonic anemomenter was deployed at Gotschnagrat (LON: 46.859 LAT: 9.849) to record three components of the wind velocity (u, v, w in [m s‾ ¹]) and air temperature (Ts in [°C]). The anemomenter was mounted in direction North at a height of 1.5 m above snow surface at the beginning. The time within each data set is given in UTC+1. Instrument specifications can be found [here](http://www.youngusa.com/Manuals/81000-90(I).pdf) .

anemometer

display_name: anemometer

raclets

display_name: raclets

wind

display_name: wind

wind-direction

display_name: wind-direction

wind-speed

display_name: wind-speed

wind-velocity

display_name: wind-velocity

en: Snow Drift Station - 3D Ultrasonic


en: satellite uas photogrammetry airplane snow-water-equivalent terrestrial snow-depth

en: Snow depth map UAS (eBee+), Schürlialp, Davos, Switzerland

media_type: image/tiff

en:
Resolution: 0.9 m
Coordinate system: LV95 LHN95

format: TIFF

en: Manual and snow pole measurements, Schürlialp, Davos, Switzerland

media_type: text/plain

en: This text file contains the average value for each manual snow depth measurements and the measured value of the snow pole measurements. The coordinates are in the horizontal Swiss coordinate system LV95. These values are used as reference measurement for comparison 1 as descriped in the paper.

format: TXT

en: Snow depth map airplane (Ultracam Eagle M3), Dischma valley, Davos, Switzerland

en:
Resolution: 0.5 m
Coordinate system: LV95 LHN95

en: Snow depth map satellite (Pléiades), Schürlialp, Davos, Switzerland

en:
Resolution: 2 m
Coordinate system: LV95 LHN95
© CNES 2018, Distribution Airbus DS

en: Snow depth map satellite (Pléiades), Dischma valley, Davos, Switzerland

en: Snow depth map terrestrial (Canon EOS 750D), Schürlialp, Davos, Switzerland

en:
Resolution 0.11 m
Coordinate system: LV95 LHN95

en: Snow depth map airplane (Ultracam Eagle M3), Schürilalp, Davos, Switzerland

en:
Resolution: 0.11 m
Coordinate system: LV95 LHN95

en:
This data set contains the produced snow depth maps as well as the reference data set (manual and snow pole measurements) from our paper "Intercomparison of photogrammetric platforms for spatially continuous snow depth mapping".

Abstract. Snow depth has traditionally been estimated based on point measurements collected either manually or at automated weather stations. Point measurements, though, do not represent the high spatial variability of snow depths present in alpine terrain. Photogrammetric mapping techniques have progressed in recent years and are capable of accurately mapping snow depth in a spatially continuous manner, over larger areas, and at various spatial resolutions. However, the strengths and weaknesses associated with specific platforms and photogrammetric techniques, as well as the accuracy of the photogrammetric performance on snow surfaces have not yet been sufficiently investigated. Therefore, industry-standard photogrammetric platforms, including high-resolution satellites (Pléiades), airplane (Ultracam Eagle M3), Unmanned Aerial System (eBee+ with S.O.D.A. camera) and terrestrial (single lens reflex camera, Canon EOS 750D), were tested for snow depth mapping in the alpine Dischma valley (Switzerland) in spring 2018. Imagery was acquired with airborne and space-borne platforms over the entire valley, while Unmanned Aerial Systems (UAS) and terrestrial photogrammetric imagery was acquired over a subset of the valley. For independent validation of the photogrammetric products, snow depth was measured by probing, as well as using remote observations of fixed snow poles.

When comparing snow depth maps with manual and snow pole measurements the root mean square error (RMSE) values and the normalized median deviation (NMAD) values were 0.52 m and 0.47 m respectively for the satellite snow depth map, 0.17 m and 0.17 m for the airplane snow depth map, 0.16 m and 0.11 m for the UAS snow depth map. The area covered by the terrestrial snow depth map only intersected with 4 manual measurements and did not generate statistically relevant measurements. When using the UAS snow depth map as a reference surface, the RMSE and NMAD values were 0.44 m and 0.38 m for the satellite snow depth map, 0.12 m and 0.11 m for the airplane snow depth map, 0.21 and 0.19 m for the terrestrial snow depth map. When compared to the airplane dataset over a large part of the Dischma valley (40 km2), the snow depth map from the satellite yielded a RMSE value of 0.92 m and a NMAD value of 0.65 m. This study provides comparative measurements between photogrammetric platforms to evaluate their specific advantages and disadvantages for operational, spatially continuous snow depth mapping in alpine terrain over both small and large geographic areas.

airplane

display_name: airplane

photogrammetry

display_name: photogrammetry

satellite

display_name: satellite

snow-depth

display_name: snow-depth

snow-water-equivalent

display_name: snow-water-equivalent

terrestrial

display_name: terrestrial

uas

display_name: uas

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: Photogrammetric snow depth maps from satellite-, airplane-, UAS and terrestrial platforms from the Davos region (Switzerland)


irkis-soil-moisture-measurements-davos

maintainer: Nander Wever

title_for_slug: irkis-soil-moisture-measurements-davos

en: davos meteorological-measurements dischma-catchment meteo-station soil-moisture

en: IRKIS soil moisture data (zip file)

en: Compressed archive (zip) containing soil moisture measurements, as well as meteorological measurements and interpolated meteorological time series.

en:
Meteorological and soil moisture measurements from soil moisture stations installed from October 2010 - October 2013 in the area surrounding Davos, in particular in the Dischma catchment.

There are in total 7 stations: 1202, 1203, 1204, 1205, 222, 333 and SLF2. For each of the stations, there is a:

* vwc_[stn].smet: containing the soil moisture measurements

* station_[stn].smet: in-situ measured meteorlogical parameters. Note, the quality of these measurements for stations 1202, 1203, 1204 and 1205 is very low, with data gaps. Use this data with care. For stations 222, 333 and SLF2, data quality is high and only the default cautiousness should be applied.

* interpolatedmeteo_[stn].smet contains per stations a dataset derived by interpolating from several stations in the Davos area to the stations location. This dataset was generated from the output of the Alpine3D model, of which simulations are presented in the Wever et al. (2017) manuscript.

At the soil moisture measurement sites, Decagon 10HS sensors were installed, at 10, 30, 50, 80 and 120 cm depth. Per depth 2 sensors were installed, labelled A and B in the datafiles. Note that at stations 1203, 1204 and 1205, sensors were only installed at 10, 30 and 50 cm depth.

The files follow the SMET format: https://models.slf.ch/docserver/meteoio/SMET_specifications.pdf and metadata for the stations can be found in the header of the smet files.

Please cite the Wever et al. (2017) reference when using this data in publications.

For a more detailed description, please refer to: Wever, N., Comola, F., Bavay, M., and Lehning, M.: Simulating the influence of snow surface processes on soil moisture dynamics and streamflow generation in an alpine catchment, Hydrol. Earth Syst. Sci., 21, 4053-4071, https://doi.org/10.5194/hess-21-4053-2017, 2017.

davos

display_name: davos

dischma-catchment

display_name: dischma-catchment

meteo-station

display_name: meteo-station

soil-moisture

display_name: soil-moisture

en: IRKIS Soil moisture measurements Davos


stemflow-lwf

title_for_slug: stemflow-lwf

en: long-term-forest-ecosystem-research stemflow icp-forests chemical-composition swiss-forest-lab

en: Data Request

en:
Stemflow (portion of precipitation running down the branches and the trunk and depositing at the base of the tree) can represent a substantial fraction of the total water and nutrient input in stands of smoothbarked species with upright branches. Stemflow was measured with silicone gutters installed on the trunk of 5 trees at three LWF plots during 1-2 years. High capacity containers were used at Novaggio. An automated tipping bucket system, allowing continuous recording of volumes and sampling of representative proportional fraction, is currentlx used at the LWF sites Laegeren, Lausanne, Othmarsingen and Schänis.

 Purpose:

To quantify the contribution of stemflow to the water and nutrient budget and to the atmospheric deposition in selected forests stands.

 Manual Citation:

 * Thimonier, A., Brang, P., Wenger, K., 1997. Kapitel C4. Atmosphärische Deposition: Freiland- und Bestandesniederschläge, in: Brang, P. (Ed.), Aufnahmeanleitungen aller Forschungsprojekte auf Flächen der Langfristigen Waldökosystem-Forschung (LWF). Eidg. Forschungsanstalt WSL, Birmensdorf, pp. 1-48.

 * Clarke N, Žlindra D, Ulrich E, Mosello R, Derome J, Derome K, König N, Lövblad G, Draaijers GPJ, Hansen K, Thimonier A, Waldner P, 2016: Part XIV: Sampling and Analysis of Deposition. In: UNECE ICP Forests Programme Co-ordinating Centre (ed.): Manual on methods and criteria for harmonized sampling, assessment, monitoring and analysis of the effects of air pollution on forests. Thünen Institute  of  Forest  Ecosystems,  Eberswalde,  Germany,  32  p.  +  Annex  [http://icp-forests.net/page/icp-forests-manual](http://icp-forests.net/page/icp-forests-manual)

chemical-composition

display_name: chemical-composition

icp-forests

display_name: icp-forests

long-term-forest-ecosystem-research

display_name: long-term-forest-ecosystem-research

stemflow

display_name: stemflow

swiss-forest-lab

display_name: swiss-forest-lab

en: Stemflow LWF


maintainer: Stephan Zimmermann

en: calcium biogeochemical-cycling potassium magnesium fagus-orientalis-lipsky

en: Concentrations of Ca, Mg, K, and Na in throughfall, litterflow and soil solution of a Hyrcanian forst in Northern Iran

format: XLS

en:
Throughfall, litterflow and soil solution were sampled during one whole year under five Oriental beech trees in a mixed Hyrcanian beech forest. The amounts of Ca2+, Mg2+, K+ and Na+ in these fluxes were calculated based on their concentrations and the sampled volumes, and subsequently compared with the respective fluxes in the rainfall and soil solution of an adjacent forest gap.
In addition six soil profiles, one close to every single tree and one in the forest gap, were analyzed for pH, CaCO3, organic matter and texture.

biogeochemical-cycling

display_name: biogeochemical-cycling

calcium

display_name: calcium

fagus-orientalis-lipsky

display_name: fagus-orientalis-lipsky

magnesium

display_name: magnesium

potassium

display_name: potassium

en: Base cation dynamics in an Oriental beech forest


en: albedo photovoltaic snow shortwave-radiation winter-energy-production

en: Data Forward Scattering

en: GROUNDEYE model for multiple forward scattering in snow-covered terrain. Meteorological and topographical input data set for the Meierhofertäli near Davos, Switzerland, September 2017 - August 2018. Output data for September 2017 - August 2018 at hourly resolution and every pixel. Post-processing scripts for plotting and analysis.

en:
 Overview
We present GROUNDEYE, a new model of radiative transfer over mountainous terrain, which considers for the first time the forward scattering properties of snow.
Embedded in the surface process model Alpine3D, the new terrain radiation model GROUNDEYE receives interpolated real weather data with diffuse and direct broadband shortwave radiation for each pixel as well as a spatially variable plane albedo from the module SNOWPACK.

 Format
The GROUNDEYE model is written in c++, as is the entire environment of Alpine3d. The input and output data sets are .xlsx or .txt format, pre- and postprocessing including the generation of all figures is in .R format.

 Structure
In Data_Forward_Scattering.zip you will find all necessary data and model details to
reproduce the results of the JGR publication "How forward-scattering snow and terrain change the Alpine radiation balance with application to solar panels"

 - 	Model Input Data contains the meteorological and topographic input data sets, the BRDF, and preprocessing scripts.
 - Model Code contains the full model Alpine3d including the radiative transfer module GROUNDEYE.
 - Model Output Data contains the results of the simulation of terrain irradiance and irradiance of solar panels; hourly resolution, 1. Sptember 2017 - 31. August 2018.
 - Measurements Solar Testsite contains information and measurements of the solar testsite at the Totalp near Davos, Switzerland.
 - Postprocessing contains all R-Scripts used for the analysis and
plotting of the corresponding data.

In each of these folders you will find detailed information in
the file 'About this Folder.txt'.

albedo

display_name: albedo

photovoltaic

display_name: photovoltaic

shortwave-radiation

display_name: shortwave-radiation

snow

display_name: snow

winter-energy-production

display_name: winter-energy-production

educ

en: Education, culture and sport

en: Data, Code Link and Metadata on Forward Scattering of Snow at Totalp


en: cynipidae drought gall-wasps araneae pinus-sylvestris quercus-pubescens carabidae

en: Insect fauna Pfynwald

media_type: application/zip

en: See ReadMe

format: ZIP

en: In the dry Pfynwald forest a long-term experiment of WSL was initiated in 2003 with a set of irrigated and non-irrigated plots. Forest Entomologie WSL made several investigations, one of them on the effect of irrigation (or conversely of drought) on the biodiversity of epigaeic arthropods such as ground beetles and spiders. In addition, its effects were also assessed by counting galls formed by gall wasps on pubescent oak.

araneae

display_name: araneae

carabidae

display_name: carabidae

cynipidae

display_name: cynipidae

drought

display_name: drought

gall-wasps

display_name: gall-wasps

pinus-sylvestris

display_name: pinus-sylvestris

quercus-pubescens

display_name: quercus-pubescens

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: Diversity of ground beetles and spiders as well as cynipid oak gall formation on irrigated and non-irrigated plots in a dry mixed Scots pine forest


en:
Number of species of living trees and shrubs starting at 40 cm plant height that occur within a 200 m2 sample plot.

Citation:
 > _Abegg, M.; Brändli, U.-B.; Cioldi, F.; Fischer, C.; Herold-Bonardi, A.; Huber M.; Keller, M.; Meile, R.; Rösler, E.; Speich, S.; Traub, B.; Vidondo, B. (2014). Fourth national forest inventory - result tables and maps on the Internet for the NFI 2009-2013 (NFI4b). [Published online 06.11.2014] Available from World Wide Web http://www.lfi.ch/resultate/ Birmensdorf, Swiss Federal Research Institute WSL. [doi:10.21258/1057112](https://doi.org/10.21258/1057112)_

accessible-forest-without-shrub-forest

display_name: accessible-forest-without-shrub-forest

altitudinal-vegetation-zone

display_name: altitudinal-vegetation-zone

biogeographical-region

display_name: biogeographical-region

canton

display_name: canton

economic-region

display_name: economic-region

production-region

display_name: production-region

protection-forest-region

display_name: protection-forest-region

en: Number of woody species (from 40 cm height)


en: mixing-models eemma end-member-mixing-analysis emma tracers stable-isotopes

en: vignette data

en: A simple data set for the vignette script

mimetype: text/plain

en: eemma vignette script

en: An R script for the vignettes (simple data analysis demonstrations) shown in the user's guide

mimetype: application/octet-stream

en: An R script that performs ensemble end-member mixing analysis

en: eemma user's guide

media_type: application/pdf

en: A brief user's guide to EEMMA, with illustrations using a simple data set

format: PDF

mimetype: application/pdf

en:
The R script eemma.R, which implements Ensemble End-Member Mixing Analysis (EEMMA) to estimate source fractions in mixtures, exploiting information contained in time-series correlations among tracer time series.

A brief user's guide, a demonstration script, and a demonstration data set are also provided, to accompany Kirchner, J.W., Mixing models with multiple, overlapping, or incomplete end-members, quantified using time series of a single tracer, Geophysical Research Letters, 2023.

The user's guide is available for public use under Creative Commons CC-BY-SA. Public use of the scripts is permitted under GNU General Public License 3 (GPL3); for details see https://www.gnu.org/licenses/

eemma

display_name: eemma

emma

display_name: emma

end-member-mixing-analysis

display_name: end-member-mixing-analysis

mixing-models

display_name: mixing-models

stable-isotopes

display_name: stable-isotopes

tracers

display_name: tracers

en: eemma.R, an R script for Ensemble End-Member Mixing Analysis


en: bryophytes nature-conservation habitat-fragmentation species-richness extinction-debt habitat-area wetlands vascular-plants

en: Wetlands of the canton of Zürich (Switzerland): Data on species richness and recent and historic area and connectivity of 55 fens.

en:
The data provided in the Excel sheet contain the following information for 55 wetlands of the canton of Zürich (Switzerland):
-Species richness data for vascular plants and bryophytes classified as follows: (1) all vascular plant species; (2) wetlands specialists among vascular plants; (3) generalists, which were all non-specialist vascular plant species; (4) short-lived vascular plant specialists; (5) long-lived vascular plant specialists; (6) short-lived vascular plant generalists; (7) long-lived vascular plant generalists; (8) bryophyte species.
-Area of all wetlands in 1850, 1900, 1950 and 2000
-Wetland area within buffers with 2km radius with the center of the wetland as starting point
-Mean indicator values according to Landolt et al. (2010) and the standard deviation of these indicator values based on presence-absence data of vascular plants. Indicator values for temperature, light availability, moisture, acidity, nutrients, amount of humus and soil aeration were considered.

en:
This dataset includes data on species richness of vascular plants and bryophytes in 55 wetlands of the canton of Zürich (Switzerland) as well as recent and historic data on the area and connectivity of these 55 wetlands and was used for the paper Jamin A., Peintinger M., Gimmi U., Holderegger R., Bergamini A. (2020) Evidence for a possible extinction debt in Swiss wetland specialist plants. Ecology and Evolution.
Species richness data are available for vascular plants and bryophytes. The field survey was carried out between June 5 and August 10, 2012. The survey covered all wetland (fen) types in the canton of Zürich. For data collection, at least half a day per wetland was spent searching for species. Within each wetland all different vegetation types were covered until no new species were found to get as complete species lists as possible. In the Excel file information on species richness of the following groups is provided: (1) all vascular plant species; (2) wetlands specialists among vascular plants; (3) generalists, which were all non-specialist vascular plant species; (4) short-lived vascular plant specialists; (5) long-lived vascular plant specialists; (6) short-lived vascular plant generalists; (7) long-lived vascular plant generalists; (8) bryophyte species. Specialist vascular plant species included all characteristic species listed in Appendix 1a of the wetland inventory of Switzerland (BUWAL, 1990).
Based on the data of Gimmi et al. (2011), the area of all wetlands in 1850, 1900, 1950 and 2000 were determined as well as the wetland area within buffers 2km in radius with the center of the wetland as starting point. These data are also provided in the Excel sheet.
Moreover, for each wetland mean indicator values according to Landolt et al. (2010) and the standard deviation of these indicator values based on presence-absence data of vascular plants were calculated and are provided in Excel sheet. Indicator values for temperature, light availability, moisture, acidity, nutrients, amount of humus and soil aeration were considered.

bryophytes

display_name: bryophytes

extinction-debt

display_name: extinction-debt

habitat-area

display_name: habitat-area

habitat-fragmentation

display_name: habitat-fragmentation

nature-conservation

display_name: nature-conservation

species-richness

display_name: species-richness

vascular-plants

display_name: vascular-plants

wetlands

display_name: wetlands

educ

en: Education, culture and sport


en: predators gradient bark-beetles pinus parasitoids pests insects elevation

en: Gradients

media_type: text/csv

en:
The column headers refer to:

- SamplingCode: WSL fauna database code referring to year and trap type (not relevant)
- SamplingDate: Date when the emergence traps were emptied, corresponds roughly to the date of emergence
- TreeNumber: Tree ID
- Defoliation: percentage of needle loss or crown transparency, according to international standards, of the trees prior to felling
- BarkSurface: bark surface area of stem parts exposed in emergence traps
- YearOfAttack: Year of colonization. Technically, the colonization window opened on 1st of January and closed in June, when sections of the tree stems were transported to the institute
- YearOfEmergence: Emergence year of a given cohort of insects in the greenhouse
- YearAfter Attack: Temporal difference between year of colonization and year of emergence of a given cohort of insects, corresponding to total development time
- Region: AO Aosta (ITA), GR Grisons (CH), VS Valais (CH)
- Location: locality nearest to the gradient
- Elevation: Site where trees were felled and exposed to colonization
- Aspect: north (N) or south (S) facing slope
- Species: taxonomic species according to Fauna Europaea
- Family: taxonomic family
- Order: taxonomic order: Col. Coleoptera, Hym. Hymenoptera, Dipt Diptera, Raph Raphidioptera
- Guild: Phyto phytophagous, Pred predatory, para parasitoid
- Number: number of sampled individuals of a given species at a given date.
- Density: number of emerged insects per m2 bark surface
- Identifyer: specialist who identified the insects

format: CSV

en:
The colonization of cut pine stems by wood-inhabiting insects was investigated at various elevations. The study sites were located in the regions of Aosta Valley (Italy), Valais (Switzerland), and Grisons (Switzerland). In each region, there were two gradients in pine (Pinus sylvestris) forests, with three study sites at 900 m, 1200 m, and 1600 m a.s.l. each. Vital trees were felled in late autumn and the stems were colonized by pioneering xylophagous insects and their natural enemies next spring. Pieces of these stems were cut and exposed in emergence traps in a greenhouse. In each region the survey was done in two consecutive years.

Please contact author for terms of use.

bark-beetles

display_name: bark-beetles

elevation

display_name: elevation

gradient

display_name: gradient

insects

display_name: insects

parasitoids

display_name: parasitoids

pests

display_name: pests

pinus

display_name: pinus

predators

display_name: predators

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: Pine insects along elevational gradients


maintainer: Sofia Pagliarin

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

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: Information on data sources

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: plate-tectonics gen3sis pantropical-diversity-disparity mechanistic-modeling paleoclimate

en: Script used to generate the configurations files to run the simulation experiment.

en: Dataset_S1.csv includes species diversity counts for 237 clades in tropical moist forests (TMF) in the Neotropics (NeotropicalTMF), Indomalaya (IndomalayanTMF), Afrotropics (AfrotropicalTMF), All three TMF regions together (AllTMF), all non-TMF regions (NonTMF), and in total (Total). As well as whether the clade is pantropical (Pantropical_clade) and shows the pantropical diversity disparity (PDD_clade). Pantropical clades are found in all three TMF regions with at least one-third of the clades’ total diversity spread throughout these regions. Pantropical diversity disparity (PDD) clades show lower diversity in TMF in the Afrotropics than in the Neotropics and Indomalaya.

en: Dataset_S4.csv: simulation model parameters and diversity summary statistics. Including rate of temperature niche evolution (Tev), temperature niche width (TW), divergence threshold (S), Dispersal probability distribution shape (WeibullShape), model identifier (model), and random seed (seed). Also includes information on number of extinct species (n_extinct), number of extant species (n_extant), total species (total_diversity), Spearman correlation coefficient between absolute latitude and species richness (latitude_richness_cor), and diversity in the Neotropics (neotropical_diversity), Indomalaya (indomalayan_diversity), Afrotropics (afrotropical_diversity). Also, whether the simulation generated pantropical distribution of species (pantropicality_index), or the pantropical diversity disparity (PDD_index). Finally what time step the simulation exited at (0 for complete simulations) and the number of species in the ending timestep (running_diversity).

en: Dataset_S3.csv: - Paleoenvironmental reconstructions (details in the associated SI appendix) including latitude (y), longitude (x), and temperature data across 200 myrs at 170 kyr intervals.

en: Dataset_S2.csv: Environmental and species richness data across 110 km x 110 km grid cells in Neotropical, Indomalayan and Afrotropical moist forest sites. Variables include x and y coordinates in the Behrmann equal area coordinate reference system, potential evapotranspiration (PET), mean annual temperature (MAT), mean annual precipitation (MAP), amphibian, mammal, bird and squamate reptile species richness and biogeographic region, as well as the first two principal components of a principal component analysis on PET, MAT and MAP (PC1, PC2). Environmental data is from CHELSA and ENVIREM and species richness summarised from published data (vertLife, MOL, IUCN, GARD).

en:
Datasets and R scripts

~~~~~Datasets

Dataset_S1.csv: Distribution of species diversity in plant and vertebrate clades. Total clade level diversity and species diversity in tropical moist forests (TMF) across the Neotropics, Indomalaya and Afrotropics. Pantropical clades are found in all three TMF regions with at least one-third of the clades’ total diversity spread throughout these regions. Pantropical diversity disparity (PDD) clades show lower diversity in TMF in the Afrotropics than in the Neotropics and Indomalaya.

Dataset_S2.csv: Environmental and species richness data across 110 km x 110 km grid cells in Neotropical, Indomalayan and Afrotropical moist forest sites. Variables include x and y coordinates in the Behrmann equal area coordinate reference system, potential evapotranspiration (PET), mean annual temperature (MAT), mean annual precipitation (MAP), amphibian, mammal, bird and squamate reptile species richness and biogeographic region, as well as the first two principal components of a principal component analysis on PET, MAT and MAP (PC1, PC2).

Dataset_S3.csv: Global reconstructed paleo-temperature estimates and spatial coordinates across 200 million years at 170,000 year intervals at 2 degree spatial resolution.

Dataset_S4.csv: Gen3sis model parameters and biodiversity summary statistics. Summary statistics include the number of extant species, the number of extinct species, the total number of species, the number of species within the tropical moist forest biome boundaries in the Neotropics, the Afrotropics and Indomalaya, the pantropical index, and the pantropical disparity index, as well as the running time-step and diversity of unfinished simulations.

Dataset_S5.csv: Net relatedness index (NRI) values for vertebrate clades showing an observed disparity in pantropical diversity in the Neotropical, Indomalayan and Afrotropical moist forest regions and associated P-values. Positive values indicate phylogenetic clustering, whereas negative values indicate phylogenetic overdispersion.

~~~~~Scripts

Script_1 - GLS.R. R script to replicate the linear modelling analyses.

Script_2 - Gen3sis_config_template.R. R script to generate the configurations files to run the simulation experiment.

Script_3 - Gen3sis_config_creator.R. R script to generate the configurations files to run the simulation experiment.

mechanistic-modeling

display_name: mechanistic-modeling

paleoclimate

display_name: paleoclimate

pantropical-diversity-disparity

display_name: pantropical-diversity-disparity

plate-tectonics

display_name: plate-tectonics

en: Data from: Earth history events shaped the evolution of uneven biodiversity across tropical moist forests


en: survey municipality participation energy-transition switzerland

en: The dataset contains data from a survey, which was conducted in a periurban region close to Berne, Switzerland. The survey was conducted in Fall 2018 and contained opinion questions about the energy transition. Additionally, spatial data was collected using a PPGIS. While the opinion data is included in the data set, the spatial data is not. For more explanation, please consider the information sheet, the related publications or to contact the authors.

energy-transition

display_name: energy-transition

municipality

display_name: municipality

participation

display_name: participation

survey

display_name: survey

switzerland

display_name: switzerland

educ

en: Education, culture and sport

en: Implementing the energy transition at municipal level in Switzerland: A regional survey


snow-drift-station-flowcapt

maintainer: Benjamin Walter

title_for_slug: snow-drift-station-flowcapt

en: raclets snowdrift acoustic-mass-flux snow-blowing flowcapt wind-speed

en: maximum mass flux

en: The data file contains the maximum mass flux of 10 minute intervalls. The duration of one cycle was 1 min and contained 6s observations and 54 s stand-by. The time is given in UTC+1.

en: maximum wind speed

en: The data file contains the maximum wind speed in 10 minute intervalls. The duration of one cycle was 1 min and contained 6 s observations and 54 s stand-by. The time is given in UTC+1.

en: average wind speed

en: The data file contains the average wind speed in 10 minute intervalls. The duration of one cycle was 1 min and contained 6s observations and 54 s stand-by. The time is given in UTC+1.

en: avergaged mass flux

en: Average mass flux of 10 min measurement interval. The Cycle duration is 1 min which includes 6 s observation and 54 s stand-by. The time is given in UTC+1.

en: minimum mass flux

en: The data file contains the minimum mass flux of 10 minute intervalls. The duration of one cycle was 1 min and contained 6s observations and 54 s stand-by. The time is given in UTC+1.

en: minimum wind spees

en: The data file contains the minimum wind speed in 10 minute intervalls. The duration of one cycle was 1 min and contained 6s observations and 54 s stand-by. The time is given in UTC+1.

en: The FlowCapt is an ultra-robust instrument measuring solid particle acoustic mass - flux intensities (g m‾ ² s‾ ¹) and wind speeds (m s‾ ¹). It was deployed at Gotschnagrat (LON: 46.859 LAT: 9.849). The vertical tube with a length of 1 m monitors snowdrift and snow-blowing; and is mounted at a height between 0.1 an 1.1 m above snow surface. The time within each data set is given in UTC+1.

acoustic-mass-flux

display_name: acoustic-mass-flux

flowcapt

display_name: flowcapt

raclets

display_name: raclets

snow-blowing

display_name: snow-blowing

snowdrift

display_name: snowdrift

wind-speed

display_name: wind-speed

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: Snow Drift Station - Flowcapt


maintainer: Frank Techel

en: avalanche natural-avalanches avalanche-size snowpack-model machine-learning

en: Data set AV2 used for training the avalanche-size estimator (Sections 2.1.2 and 3.2 in Mayer et al.)

en: Data set AV1 was used for training the avalanche-day classifier (Sections 2.1.1, 2.2, and 3.1 in Mayer et al.).

en: Data set DL was used for validation of the avalanche-day classifier and the avalanche-size estimator. The data set contains the quality-checked danger levels merged with the respective SNOWPACK simulations (Sections 2.3 and 3.3(2) in Mayer et al.).

en: Data set AV3 was used for validation of the avalanche-day classifier (Sections 2.1.3 and 3.3(1) in Mayer et al.).

en:
The data set contained in this repository was used in the analysis by Mayer et al. (2023):
Mayer, S. I., Techel, F., Schweizer, J., and van Herwijnen, A.: Prediction of natural dry-snow avalanche activity using physics-based snowpack simulations, EGUsphere, https://doi.org/10.5194/egusphere-2023-646, 2023.

avalanche

display_name: avalanche

avalanche-size

display_name: avalanche-size

machine-learning

display_name: machine-learning

natural-avalanches

display_name: natural-avalanches

snowpack-model

display_name: snowpack-model

educ

en: Education, culture and sport

en: Data-set for prediction of natural dry-snow avalanche activity and avalanche size using physics-based snowpack simulations


en: bedload-transport torrent river surrogate-measurement mountain-stream sediment-transport

en: Data used in paper: Antoniazza, G., Dietze, M., Mancini, D., Turowski, J.M., Rickenmann, D., Nicollier, T., Boss, S., Lane, S.N. (2023). Anatomy of an Alpine bedload transport event: A watershed-scale seismic-network perspective. Journal of Geophysical Research: Earth Surface, 128, e2022JF007000. https://doi.org/10.1029/2022JF007000

en: Data-variability-SPG-response

en: Data used in paper: Antoniazza, G., Nicollier, T., Wyss, C.R., Boss, S., Rickenmann, D., 2020. Bedload Transport Monitoring in Alpine Rivers: Variability in Swiss Plate Geophone Response. Sensors 2020, 20, 4089; doi:10.3390/s20154089

en: Data used in paper: Rickenmann, D., 2020. Effect of Sediment Supply on Cyclic Fluctuations of the Disequilibrium Ratio and Threshold Transport Discharge, Inferred from Bedload Transport Measurements over 27 Years at the Swiss Erlenbach stream. Water Resources Research, 56, e2020WR027741. https://doi.org/10.1029/2020WR027741

en: SPG flume experiment data

en:
SPG data from controlled flume experiments conducted at the Obernach outdoor flume facility (TU Munich) between 2018 and 2020. Data used in following papers:
"Toward a General Calibration of the Swiss Plate Geophone System for Fractional Bedload Transport" submitted to Earth Surface Dynamics on the 14th of January 2022.
"Improving the Calibration of Impact Plate Bedload Monitoring Systems by Filtering Out Acoustic Signals from Extraneous Particle Impacts" submitted to Earth and Space Science on the 13th of August 2021.

en: Hydrological drivers of bedload transport in Avançon de Nant

en: Data used in paper: Antoniazza, G., Nicollier, T., Boss, S., Mettra, F., Badoux, A., Schaefli, B., Rickenmann, D., Lane, S.N., 2022. Hydrological Drivers of Bedload Transport in an Alpine Watershed. Water Resources Research, 58, e2021WR030663. https://doi.org/10.1029/2021WR030663

en: Data used in paper: Rickenmann, D., Ammann, L., Nicollier, T., Boss, S., Fritschi, B., Antoniazza, G., Steeb, N., Chen, Z., Wyss, C., Badoux, A. (2022). Comparison of calibration characteristics of different acoustic impact systems for measuring bedload transport in mountain streams. Earth Surface Dynamics Discussions, https://doi.org/10.5194/esurf-2022-7

en: SPG field calibration data

en:
SPG field calibration data from the Erlenbach (since 2009), the Albula (2018), the Navisence (2019) and the Avançon de Nant (2019-2020) monitoring stations. Data used in following papers:
"Toward a General Calibration of the Swiss Plate Geophone System for Fractional Bedload Transport" submitted to Earth Surface Dynamics on the 14th of January 2022.
"Improving the Calibration of Impact Plate Bedload Monitoring Systems by Filtering Out Acoustic Signals from Extraneous Particle Impacts" submitted to Earth and Space Science on the 13th of August 2021.

en:
The Swiss Federal Research Institute WSL has extensive experience with surrogate bedload transport measurements. The first measuring site was established in the Erlenbach stream, a small (first-order) catchment in the pre-alpine valley Alptal in central Switzerland. Continuous bedload transport measurements were started in 1986, using first piezoelectric sensors (1986 to 1999) and then geophone sensors (from 2002 onwards) underneath a steel plate and mounted flush with the streambed. In the meantime, the so-called Swiss plate geophone (SPG) system has been installed at more than 20 field sites, primarily in smaller and steeper streams in Switzerland, Austria, and Italy but also in a few larger rivers and in some other streams worldwide (Israel, USA, Japan).
Sediment transport observations in Switzerland with the SPG system concern the following streams: Erlenbach near Brunni (Alptal valley), Albula at Tiefencastel, Navisence at Zinal, Avançon de Nant near Pont de Nant (see map). The data in this repository primarily refer to calibration measurements with the SPG system. The publications listed here discuss primarily the performance of the measuring system but also process-based aspects of bedload transport.

bedload-transport

display_name: bedload-transport

mountain-stream

display_name: mountain-stream

river

display_name: river

sediment-transport

display_name: sediment-transport

surrogate-measurement

display_name: surrogate-measurement

torrent

display_name: torrent

en: Sediment transport observations in Swiss mountain streams


en: ice antarctica arctic snow sea-salt-aerosol

en: Fig 1A

en: Data Figure 1A

en: Code

en: Matlab code to read and plot the data

en: Table 2

en: This table lists all NEXAFS data files in chronological order with PE carbon to oxygen signal intensity ratios -from which the atomic ratio were calculated in the paper - before ("preCtoO") and after ("postCtoO") each NEXAFS measurement. Also listed is the change in Na ("lossSodi"), O ("lossOxy"), Cl ("lossChlor"), and C ("lossCarb") signal intensity after the NEXAFS measurement compared to prior to the NEXAFS measurement.

en: This table lists all data files in chronological order. "SampleTemp" refers to the reading of the PT-1000 at the side of the sample holder. "cellPressure" is the water vapour pressure during the measurements. From this, in presence of ice, the temperature of the ice sample can be calculated which is given in the column "iceTemp". "dT" is the difference, or temperature offset, between sensor's reading and the ice samples temperature. The offset is due to the sensor being mounted away from the cooled spot of the sample were it experiences heating from warmer parts of the sample holder. The off-set is used to calibrate the temperature sensor and the resulting temperature during the experiments is given in the column "temperature". "relHum" is the relative humidity above (supercooled) liquid and "concBrine" is the concentration of a NaCl solution in mol/l in equilibrium with ice at the experimental temperature. "Area" is the integrated PE signal.

en: Fig 1F_2

en: Individual data to mean shown in Figure 1F

en: Read Me

en: Description of the data tables

en: Fig 1F_1

en: Fig 1C

en: Data to Figure 1C

en: Fig 1E

en: Data to Figure 1E

en: Fig 1D

en: Data to Figure 1D

en: Fig 1B_2

en: Individual data to mean shown in Figure 1B

en: Fig 1F

en: Data to Figure 1F

en: Fib 1B_3

en: Fig 1B

en: Laboratory experiments are presented on the phase change at the surface of sodium chloride – water mixtures at temperatures between 259 K and 240 K. High selectivity to the upper few nanometres of the frozen solution – air interface is achieved by using electron yield near-edge X-ray absorption fine structure (NEXAFS) spectroscopy. We present the NEXAFS spectrum of the hydrohalite.

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 set on interfacial supercooling and the precipitation of hydrohalite in frozen NaCl solutions by X-ray absorption spectroscopy


en: climate-change-scenarios lake switzerland hydro-ch2018 climate-change hydrology river

en: This report presents past observations and projects the future development of water temperature in Swiss lakes and rivers. Projections are made until the end of the 21st century using the CH2018 climate scenarios. Besides climate change effects on temperature, we also discuss effects on discharge for rivers, and effects on the thermal structure, and specifically the seasonal mixing regime and ice cover of lakes.

climate-change

display_name: climate-change

climate-change-scenarios

display_name: climate-change-scenarios

hydrology

display_name: hydrology

lake

display_name: lake

switzerland

display_name: switzerland

educ

en: Education, culture and sport

en: EnviDat: the Environmental Data Portal

en: Hydro-CH2018 Evolution of stream and lake water temperature under climate change


permanent-vegetation-quadrats-lwf

title_for_slug: permanent-vegetation-quadrats-lwf

en: ground-vegetation swiss-forest-lab long-term-forest-ecosystem-research species-composition icp-forests

en: Data Request

en:
Ground vegetation is an important compartment of the ecosystem in terms of biodiversity and it takes an active part in the general functioning of the ecosystem. It is also a useful bio-indicator of the site conditions and its monitoring may enable the detection of environmental changes. Ground vegetation relevés were carried out repeatedly at 17 LWF plots during in the the period between 1994 and 2011. In 2013, ground vegetation was surveyed at an additional LWF plot (Laegeren). The cover of all plant species occurring in 16 1-m2 quadrats, distributed over the 43 x 43 m intensive monitoring subplot was visually assessed. Seedlings and saplings were also counted and their position within the quadrat was noted in order to assess tree regeneration.

 Purpose:

To assess the species diversity of ground vegetation and detect possible environmental changes using its bio-indicator value.

 Manual Citation:

 * Kull, P., 1997. Kapitel D2. Vegetationsaufnahmen. In: Brang, P. (Ed.), Aufnahmeanleitungen aller Forschungsprojekte auf Flächen der Langfristigen Waldökosystem-Forschung (LWF). Eidg. Forschungsanstalt WSL, Birmensdorf, pp. 1-9.

 * Canullo R, Starlinger F, Granke O, Fischer R, Aamlid D, 2016: Part VI.1: Assessment of Ground Vegetation. In: UNECE ICP Forests Programme Co-ordinating Centre (ed.): Manual on methods and criteria for harmonized sampling, assessment, monitoring and analysis of the effects of air pollution on forests. Thünen Institute of Forest Ecosystems, Eberswalde, 12 p. + Annex [http://icp-forests.net/page/icp-forests-manual](http://icp-forests.net/page/icp-forests-manual)

 Paper Citation:

 * Thimonier A, Kull P, Keller W, Moser B, Wohlgemuth T (2011) Ground vegetation monitoring in Swiss forests: comparison of survey methods and implications for trend assessments. Environmental Monitoring and Assessment, 174: 47-63. [doi: 10.1007/s10661-010-1759-y](http://doi.org/10.1007/s10661-010-1759-y)

ground-vegetation

display_name: ground-vegetation

icp-forests

display_name: icp-forests

long-term-forest-ecosystem-research

display_name: long-term-forest-ecosystem-research

species-composition

display_name: species-composition

swiss-forest-lab

display_name: swiss-forest-lab

en: Permanent vegetation quadrats LWF


maintainer: Franziska Gerber

en: consistent aws cryowrf python antarctica

en: Scripts to preprocess (and download for some databases) atmospheric weather station data. Furthermore, a list of stations and a map can be created to have an overview.

en:
There are many sources providing atmospheric weather station data for the Antarctic continent. However, variable naming, timestamps and data types are highly variable between the different sources. The published python code intends to make processing of different AWS sources from Antarctica easier. For all datasets that are taken into account variables are renamed in a consistent way. Data from different sources can then be handled in one consistent python dictionary.

The following data sources are taken into account:

* AAD: Australian Antarctic Division (https://data.aad.gov.au/aws)
* ACECRC: Antarctic Climate and Ecosystems Cooperative Research Centre by the Australian Antarctic Division
* AMRC: Antarctic Meteorological Research Center (ftp://amrc.ssec.wisc.edu/pub/aws/q1h/)
* BAS: British Antarctic Survey (ftp://ftp.bas.ac.uk/src/ANTARCTIC_METEOROLOGICAL_DATA/AWS/; https://legacy.bas.ac.uk/met/READER/ANTARCTIC_METEOROLOGICAL_DATA/)
* CLIMANTARTIDE: Antarctic Meteo-Climatological Observatory by the italian National Programme of Antarctic Research (https://www.climantartide.it/dataaccess/index.php?lang=en)
* IMAU: Institute for Marine and Atmospheric research Utrecht (Lazzara et al., 2012), https://www.projects.science.uu.nl/iceclimate/aws/antarctica.ph
* JMA: Japan Meteorological Agency (https://www.data.jma.go.jp/antarctic/datareport/index-e.html)
* NOAA: National Oceanic and Atmospheric Administration (https://gml.noaa.gov/aftp/data/meteorology/in-situ/spo/)
* Other/AWS_PE: Princess Elisabeth (PE), KU Leuven, Prof. N. van Lipzig, personal communication
* Other/DDU_transect: Stations D-17 and D-47 (in transect between Dumont d’Urville and Dome C, Amory, 2020)
* PANGAEA: World Data Center (e.g. König-Langlo, 2012)

Important notes

* Information about data sources is available. Some downloading scripts are included in the provided code. However, users should make sure to comply with the data providers terms and conditions.
* Given changing download options of the differnent institutions the above links may not permanently work and data has to be retrieved by the user of this dataset.
* No quality control is applied in the provided preprocessing software - quality control is up to the user of the datasets. Some dataset are quality controlled by the owner.

Acknowledgements
--------------------------
We thank all the data providers for making the data publicly available or providing them upon request. Full acknowledgements can be found in Gerber et al., submitted.

References
---------------
Amory, C. (2020). “Drifting-snow statistics from multiple-year autonomous measurements in Adélie Land, East
Antarctica”. The Cryosphere, 1713–1725. doi: 10.5194/tc-14-1713-2020

Gerber, F., Sharma, V. and Lehning, M.: CRYOWRF - a validation and the effect of blowing snow on the Antarctic SMB, JGR - Atmospheres, submitted.

König-Langlo, G. (2012). “Continuous meteorological observations at Neumayer station (2011-01)”. Alfred Wegener
Institute, Helmholtz Centre for Polar and Marine Research, Bremerhaven, PANGAEA, doi: 10.1594/PANGAEA.
775173

antarctica

display_name: antarctica

aws

display_name: aws

consistent

display_name: consistent

cryowrf

display_name: cryowrf

python

display_name: python

en: Preprocessing Antarctic Weather Station (AWS) data in python


en: shading shortwave-radiation longwave-radiation fractional-snow forest

en: Sky-view fraction along the cablecar transect

en: Data is used and described in the following paper: Malle et al. (2019). Shading by Trees and Fractional Snow Cover control the Subcanopy Radiation Budget. Journal of Geophysical Research. DOI:10.1029/2018JD029908.

en: Radiation Data 18.04.2019

en:
Spatiotemporal incoming/outgoing shortwave and longwave radiation as well as sunlit and shaded-snow view fractions below an evergreen forest stand in the Swiss alps. Data was collected on 18th of April 2018 along a 48m long, heterogeneous forest stand under full snow cover conditions.

The presented data is used and further described in the following paper: Malle et al. (2019). Shading by Trees and Fractional Snow Cover control the Subcanopy Radiation Budget. Journal of Geophysical Research Atmospheres. DOI:10.1029/2018JD029908.

en: Radiation Data 25.4.2018

en:
Spatiotemporal incoming/outgoing shortwave and longwave radiation as well as sunlit and shaded-snow view fractions below an evergreen forest stand in the Swiss alps. Data was collected on 25th of April 2018 along a 48m long, heterogeneous forest stand under partial snow cover conditions.

The presented data is used and further described in the following paper: Malle et al. (2019). Shading by Trees and Fractional Snow Cover control the Subcanopy Radiation Budget. Journal of Geophysical Research Atmospheres. DOI:10.1029/2018JD029908.

en: Seasonal sub-canopy radiation data

en:
Seasonal, spatially aggregated incoming and outgoing shortwave radiation below an evergreen forest stand collected with a cable car system.

The presented data is used and further described in the following paper: Malle et al. (2019). Shading by Trees and Fractional Snow Cover Control the Subcanopy Radiation Budget. Journal of Geophysical Research Atmospheres. DOI:10.1029/2018JD029908.

en: This data set consists of incoming and outgoing short- and longwave radiation as well as sunlit-snow-view-fraction as described in the JGR-Atmospheres paper "Shading by trees and fractional snow cover control the sub-canopy radiation budget", by Malle et al. (2019). Data was collected along a 48m long, heterogeneous forest transect between January and June 2018 close to Davos, Switzerland.

forest

display_name: forest

fractional-snow

display_name: fractional-snow

longwave-radiation

display_name: longwave-radiation

shading

display_name: shading

shortwave-radiation

display_name: shortwave-radiation


maintainer: Sebastian Schlögl

en: atmosphere turbulent-sensible-heat-fluxes snow atmospheric-turbulence stable-boundary-layer

en: Turbulence data AA00

en: sensor in 1 m height

mimetype: application/zip

en: Turbulence data PM07

en: NWW

en: Turbulence data WFJ07

en: upper sensor

en: Turbulence data WFJ11

en: sensor in 25 m height

en: SEE

en: Turbulence data GR00

en: sensor in 2 m height

en: lower sensor

en: sensor in 0.2 m height

en:
We used five different atmospheric turbulence datasets from four test sites, with these sites showing differences in their topographical characteristics. We chose one typical alpine test site with high topographical complexity (Weissfluhjoch, Davos, Switzerland) and three test sites consisting of one glacier site (Plaine Morte, Crans-Montana, Switzerland) and two polar sites (Greenland and Antarctica) representing a quasi-ideal site with homogeneous surface and quasi infinite fetch in all directions.
The turbulent sensible heat flux was calculated using the eddy-covariance method. Note that the sonic temperature fluctuations have been converted into virtual temperature fluctuations.
Three-dimensional wind velocity and air temperature were processed using a linear detrending (Rannik and Vesala, 1999) and a planar fit approach (Massmann and Lee, 2002) to rotate the coordinate system. Air temperature, relative humidity and air pressure from weather stations were used to calculate air properties, which are required for the data processing. The weather stations are located in the immediate vicinity of the turbulence tower and are affected by the same air masses. Turbulence data were averaged to 30-min intervals, whilst changing to a 15-min time interval marginally affects the heat fluxes at the Weissfluhjoch test site (Mott et al., 2011). Note that we define a negative sensible heat flux as being directed towards the snow surface and a positive sensible heat flux as being directed upwards.
The selected datasets and corresponding test sites are briefly introduced below:

Weissfluhjoch 2007 (WFJ07): A vertical set-up of two three-dimensional ultrasonic anemometers (CSAT3, Campbell Scientific, Inc.) was used at the traditional field site Weissfluhjoch (2540 m asl.) to measure three-dimensional wind velocity and air temperature at a frequency of 20 Hz. The sensors were mounted 3 m and 5 m above the ground and provided reliable data for 50 days between 11 February 2007 and 24 April 2007. Further information on the field campaign can be found in Stössel et al. (2010) and Mott et al. (2011).

Weissfluhjoch 2011-13 (WFJ11): Three-dimensional wind velocity and air temperature were recorded at 5 m above the ground at a frequency of 10 Hz with a three-dimensional ultrasonic anemometer (CSAT3). The analysis was conducted for data obtained between February and March in the years 2011-13.

Plaine Morte 2007 (PM07): Two three-dimensional ultrasonic anemometers (CSAT3) were installed on a horizontal boom facing opposite directions (west-north-west vs. east-south-east) at 3.75 m above the ground to measure air temperature and three-dimensional wind velocity at 20 Hz. The data were collected at the almost flat field site on the Plaine Morte glacier (2750 m asl.) near Crans-Montana, Switzerland from February to April 2007. High quality meteorological data were additionally recorded and used to force the model. A detailed description about the set-up at the Plaine Morte glacier can be found in Huwald et al. (2009) and Bou-Zeid et al. (2010).

Greenland 2000 (GR00): High-frequency three-dimensional ultrasonic anemometer measurements (CSAT3) were recorded at 50 Hz at the Summit Camp (72.3 °N, 38.8 °W, 3208 m asl.) located on the northern dome of the Greenland ice sheet. Data were collected at 1 m and 2 m above the snow surface during summer in 2000 and 2001. Additionally, meteorological measurements were obtained for the post processing and used to force the model. More information about the field campaign can be found in Cullen et al. (2007, 2014).

Antarctica 2000 (AA00): A set-up of three vertical three-dimensional ultrasonic anemometers (DA-600, Kaijo Denki) were installed at Mizuho Station (70°42' S, 44°20' E, 2230 m asl.) in Eastern Antarctica at 0.2, 1 and 25 m and recorded turbulence data at a frequency of 100 Hz from October to November 2000. Longwave and shortwave radiation, relative humidity, air and snow surface temperature were additionally measured and used to force the model. More information about the field campaign can be found in Nishimura and Nemoto (2005).

atmosphere

display_name: atmosphere

atmospheric-turbulence

display_name: atmospheric-turbulence

snow

display_name: snow

stable-boundary-layer

display_name: stable-boundary-layer

turbulent-sensible-heat-fluxes

display_name: turbulent-sensible-heat-fluxes

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: How do stability corrections perform in the stable boundary layer over snow?


en:
Volume of stemwood with bark of all trees and shrubs starting at 12 cm dbh that were felled between two inventories. The correction for bias with the sample Tarif trees may be so drastic that it results in negative values with small numbers of trees.

Citation:
 > _Abegg, M.; Brändli, U.-B.; Cioldi, F.; Fischer, C.; Herold-Bonardi, A.; Huber M.; Keller, M.; Meile, R.; Rösler, E.; Speich, S.; Traub, B.; Vidondo, B. (2014). Fourth national forest inventory - result tables and maps on the Internet for the NFI 2009-2013 (NFI4b). [Published online 06.11.2014] Available from World Wide Web http://www.lfi.ch/resultate/ Birmensdorf, Swiss Federal Research Institute WSL. [doi:10.21258/1057112](https://doi.org/10.21258/1057112)_

altitudinal-vegetation-zone

display_name: altitudinal-vegetation-zone

avalanches-silvaprotect

display_name: avalanches-silvaprotect

biogeographical-region

display_name: biogeographical-region

conifers-broadleaves

display_name: conifers-broadleaves

economic-region

display_name: economic-region

landslide-mudflow-silvaprotect

display_name: landslide-mudflow-silvaprotect

lower-higher-altitudinal-zones

display_name: lower-higher-altitudinal-zones

main-tree-species

display_name: main-tree-species

net-increment

display_name: net-increment

ownership

display_name: ownership

potential-cost-for-timber-harvesting

display_name: potential-cost-for-timber-harvesting

processes-in-channels-silvaprotect

display_name: processes-in-channels-silvaprotect

production-region

display_name: production-region

protection-forest-region

display_name: protection-forest-region

rockfall-silvaprotect

display_name: rockfall-silvaprotect

stage-of-stand-development

display_name: stage-of-stand-development

tree-species-woody-species

display_name: tree-species-woody-species

yield

display_name: yield

en: EnviDat: the Environmental Data Portal

en: Yield


maintainer: Markus Schlegel

en: metabarcoding spore-dispersal air-sampling monitoring edna

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:
Resources associated with the manuscript *A case study on the application of spore sampling for the monitoring of fungi* (Schlegel et al. 2023, submitted).
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 underrepresented in the air.
The contents of the dataset (ZIP archive):
* All 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

edna

display_name: edna

metabarcoding

display_name: metabarcoding

monitoring

display_name: monitoring

spore-dispersal

display_name: spore-dispersal

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


amount-of-dead-wood

title_for_slug: amount-of-dead-wood

en:
Wood volume of all deadwood recorded according to the NFI3 method. For standing trees and shrubs starting at 12 cm dbh, the volume of stemwood reduced due to stem breakage is recorded, and for lying deadwood the merchantable wood ( starting at 7 cm in diameter). Heaps of branches are not included.  The correction for bias with the sample Tarif trees may be so drastic that it results in negative values with small numbers of trees.

Citation:
 > _Abegg, M.; Brändli, U.-B.; Cioldi, F.; Fischer, C.; Herold-Bonardi, A.; Huber M.; Keller, M.; Meile, R.; Rösler, E.; Speich, S.; Traub, B.; Vidondo, B. (2014). Fourth national forest inventory - result tables and maps on the Internet for the NFI 2009-2013 (NFI4b). [Published online 06.11.2014] Available from World Wide Web http://www.lfi.ch/resultate/ Birmensdorf, Swiss Federal Research Institute WSL. [doi:10.21258/1057112](https://doi.org/10.21258/1057112)_

accessible-forest-without-shrub-forest

display_name: accessible-forest-without-shrub-forest

altitudinal-vegetation-zone

display_name: altitudinal-vegetation-zone

amount-of-dead-wood

display_name: amount-of-dead-wood

biogeographical-region

display_name: biogeographical-region

canton

display_name: canton

economic-region

display_name: economic-region

lower-higher-altitudinal-zones

display_name: lower-higher-altitudinal-zones

en: Amount of dead wood