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ATLFISHREF A 12S mitochondrial reference dataset for metabarcoding Atlantic Fishes frequently caught during scientific surveys in the Bay of Biscay
The global biodiversity crisis driven by anthropogenic pressures significantly threatens marine ecosystems functioning. The rate of climate change and the impacts of anthropogenic pressures outpacing the capabilities of our observation tools, stresses the need to develop new methods to assess these rapid modifications. Environmental DNA (eDNA; DNA traces released by organisms) metabarcoding has emerged as a non-invasive method that has been widely developed over the last decade. Thanks to a large spatio-temporal coverage, high detection of rare species and its time and cost effectiveness, eDNA metabarcoding represents a promising biomonitoring tool. However, capturing fish diversity using eDNA requires a high-quality genetic reference database, which we are currently still lacking. For the South European Atlantic shelf area, we estimated that only 41% of the fish species present were recorded in the available eDNA reference databases. Improving reference databases can notably rely on opportunistic sampling enabling the reporting of sequences for new species. Therefore, the data provided here consists of barcoding 95 species of ray-finned and cartilaginous fishes over the 12S mitochondrial DNA gene. We generated 168 12S barcodes from fishes that were sampled in the Bay of Biscay (Northeast Atlantic, France) between 2017 and 2019. We also provided the “Teleo” barcode associated with a specific 12S region for each individual. In addition to the sequences, we provided for each individual the taxonomy, the details associated with the barcode (Genbank accession number, chromatograms), a photograph, as well as 5 ecomorphological measures and 11 life-history traits. These traits document several functions such as dispersion, diet, habitat use, and position in the food web. Furthermore, we provided the metadata of each sampling site (date, station, sampling hour, gear, latitude, longitude, depth) and environmental variables measured in situ (conductivity, salinity, water temperature, water density, air temperature). This data set is highly valuable to improve the Northeast Atlantic eDNA genetic database, thus helping to better understand the effects of environmental forcing in the Bay of Biscay, a transition zone housing mixed assemblages of boreal, temperate and subtropical fish species susceptible to display variability in functional traits to adapt to changing conditions.
Four years of daily stable water isotope data in stream water and precipitation from three Swiss catchments
This dataset contains four years of daily measurements of the natural isotopic composition (2H, 18O) of precipitation and stream water at the Alp catchment (area 47 km2) in Central Switzerland and two of its tributaries (0.73 km2 and 1.55 km2). In addition, the dataset contains daily measurements of key hydrometeorological variables.
Nitrogen availability under trees exposed to CO2 enrichment (FACE)
Data obtained in the free-air CO2 enrichment (FACE) experiment at Hofstetten, NW Switzerland, between 2009 and 2016. This dataset contains analyses of the soil solution throughout the experiment, especially for nitrate, as well as different analyses done at the end of the experiment: ammonium and nitrate captured by ion-exchange resin bags and extracted from soil cores, gross N mineralisation and nitrification measured by isotope dilution.
High resolution climate data for Europe
High-resolution information on climatic conditions is essential to many applications in environmental and ecological sciences. Here we present downscaled climate data for the CORDEX EUR11 domain at a high resolution of 30 arc sec. The temperature algorithm is based on statistical downscaling of atmospheric temperature lapse rates. The precipitation algorithm incorporates orographic predictors including wind fields, valley exposition, and boundary layer height. The resulting data consist of a daily temperature and precipitation timeseries. The data is distributed under a: Creative Commons: Attribution 4.0 International (CC BY 4.0) license.
Greenland Climate Network (GC-Net) Data
In Memory of Dr. Konrad (Koni) Steffen <br /> <br /> Update October 2022: The GC-Net is kindly continued by the Geological Survey of Denmark and Greenland (GEUS). Starting October 3, 2022, the access to the latest versions of the "ready to use" L1 data has been migrated to GEUS. Future data versions will be available at: [https://doi.org/10.22008/FK2/VVXGUT](https://doi.org/10.22008/FK2/VVXGUT) Background Starting with a single station in 1991, the Greenland Climate Network (commonly known as GC-Net) is a set of Automatic Weather Stations (AWS) set up and managed by the late Prof. Dr. Konrad (Koni) Steffen, and spanning the Greenland Ice Sheet (GrIS). This first station was "Swiss Camp" or the "ETH-CU" camp (GC-Net station 01) which was used as a field science and education site by Koni for years. The GC-Net was expanded with multiple NASA, NOAA, and NSF grants throughout the years, and then supported by WSL in the later years. These data (see "C-file" below) were previously hosted by the Cooperative Institute for Research in Environmental Sciences (CIRES) in Boulder, Colorado. Overview Provided in this dataset are the 16 longest running stations in the network, which are spread over a significant area of the GrIS and the majority of the unique climatic zones. From the South Dome high point in the South, to the Western Jakobshavn ablation region in the west, to the Petermann glacier in the North across east of the Northeast Greenland Ice Stream to the east, GC-Net is the longest running climatological record of Greenland. The standard GC-Net station consists of: * Air temperature measurements at 2 heights above the surface * Temperature and humidity measurements at 2 heights above the surface * Wind speed and direction measured at 2 heights above the surface * Sonic distance sounder measurements for 2 snow height and distance of instruments to surface * Incoming shortwave radiation measurement * Reflected shortwave radiation measurement * Net broadband radiation (long- and short-wave) measurement * Air pressure measurement Data have often been repatriated in near-real time using one of either the GOES geostationary satellite or the ARGOS polar orbiting satellite transmission system. The stations were visited typically every 1-2 years for maintenance and service, and to download full uncorrupted data directly from the dataloggers. GC-Net stations were visited by Twin Otter equipped with snow skids to land directly on the open-ice at the AWS locations, or by helicopter near the west coast. The AWSs operate on solar and battery power and occasionally lost power during the dark and cold winter months, particularly when the batteries were aging. Dataset This dataset consists of 2 main data levels; Level 0 and Level 1. Level 0 is the raw data from the dataloggers, historical processing codes, satellite transmissions, and Koni’s personal data archive. Level 0 data (.zip) directories contain subdirectories: * “C file” - contains the historical processed datafile for each station. * “Campbell logger files” - contains the raw csv datafiles from the stations’ Campbell Scientific dataloggers since the CR1000 era (~2007-2008 for most stations). * “Photos” - contains photographs of the station when available marked by year. Level 1 is the appended, calibrated, cleaned, and quality flagged data. The full processing scheme is open-source and publicly available on the following GitHub repository (please also check GitHub for the latest L1 data): [GC-Net L1 data on GitHub](https://github.com/GEUS-Glaciology-and-Climate/GC-Net-level-1-data-processing "GC-Net-level-1-data-processing") Level 1 data is provided in the newly described csv-compatible [NEAD format](https://www.envidat.ch/#/metadata/nead "NEAD format"). <br /> Additional Details Dataset description publication will be forthcoming. The Geological Survey of Denmark and Greenland (GEUS) has been imperative in the reprocessing and continuity mission of GC-Net. Multiple GC-Net stations have been replaced with updated and upgraded AWS hardware at the same coordinates by GEUS. This effort will ensure continuity of the GC-Net dataset into the future.
Acoustic Data from the PMA Bedload Monitoring System
This dataset contains experimental acoustic and vibration signals recorded by the Phased Microphone Arrays (PMA) system during laboratory impact calibration tests. The PMA system is designed for surrogate monitoring of bedload transport. It consists of a stainless-steel plate mounted on elastomer supports and instrumented with an array of microphone elements and an accelerometer fixed to the internal plate. The microphone sensors (sensitivity = 11.2 mV/Pa, frequency response = 10 Hz - 20 kHz) record air-pressure fluctuations caused by particle impacts, while the accelerometer (sensitivity = 50.0 mV/g, frequency response = 0.5 Hz - ~10 kHz) measures vibrations of the internal plate. All channels were synchronously sampled at 10 kHz using a 16-channel, 24-bit data acquisition system. Additional data and details on experimental setup, signal analysis, and interpretation are available in the associated publication.
DISCHMEX - Impact of extreme land-surface heterogeneity on micrometeorology over spring snow-cover
This dataset contains eddy-covariance measurements in the ablation period of 2014-2016. Measurements were taken from two turbulence towers over a long-lasting snow patch, which are 5 m apart from each other (2014 and 2015). The turbulence towers were equipped with two YOUNG ultrasonic anemometers mounted 0.7 m (in 2014) and 3.3 m (in 2015) above snow-free ground, two ultrasonic anemometers (CSAT3, Campbell Scientific, Inc.) mounted at 2.6 m (in 2014) and 2.2 m (in 2015) above snow-free ground and one anemometer (DA-600, Kaijo Denki) mounted at 0.3 m above snow surface. The measurement setup changed in 2016 and includes a measurement above the snow-free ground in upwind direction (Swiss coordinates: 790191/176689). The measurement tower is equipped with one ultrasonic anemometer (CSAT3, Campbell Scientific, Inc.) in 3.3 m above the snow-free ground. Additionally, one measurement tower is installed above the long-Lasting snow patch and equipped with the same setup as 2015. Turbulence data were sampled at a frequency of 20 Hz. The processing of the data to quality controlled fluxes has been done with the Biomicrometeorology flux software (Thomas et al., 2009). The program applies plausibility tests and a despiking test after Vickers and Mahrt (1997) on the measured data. The routine further applies a time-lag correction and considers the deployment (e.g. the sonic azimuth). A frequency response correction (Moore, 1986) is done and a three-dimensional rotation is performed. Finally, quality assurance/quality control (QA/QC) flags after Foken et al., (2004) are issued and fast Fourier transform power and co-spectra are calculated. The change in snow height is considered in the post-processing for every measurement day. The turbulence data were averaged to 30 minute intervals.
Induced Rockfall Dataset (Small Rock Experimental Campaign), Tschamut, Grisons, Switzerland
Dataset of an experimental campaign of induced rockfall in Tschamut, Grisons, Switzerland. The data archive contains site specific geographical data such as DEM and orthophoto as well as the deposition points of manually induced rockfall by releasing differently shaped boulders with 30–80 kg of mass. Additionally available are all the StoneNode data streams for rocks equipped with a sensor. The data set consists of * Deposition points from two series (wet (27/10/2016) and frozen (08/12/2016) ground) * Digital Elevation Model (grid resolution 2 m) obtained via UAV * Orthophoto (5 cm resolution) obtained via UAV * Digitized rock point clouds (.pts input files for RAMMS::ROCKFALL) * StoneNode v1.0 raw data stream for equipped rocks. Further information is found in * A. Caviezel et al., _Design and Evaluation of a Low-Power Sensor Device for Induced Rockfall Experiments_, IEEE Transactions on Instrumentation and Measurement, 2018, 67, 767-779, http://ieeexplore.ieee.org/document/8122020/ * P. Niklaus et al., _StoneNode: A low-power sensor device for induced rockfall experiments_, 2017 IEEE Sensors Applications Symposium (SAS), 2017, 1-6, http://ieeexplore.ieee.org/document/7894081/
Hydro-meteorological simulations for the period 1981-2018 for Switzerland
The dataset provides simulated 1) precipitation, 2) discharge, 3) soil moisture, and 4) low-flow simulations for 307 medium-sized catchments in Switzerland for the period 1981-2018. The data were simulated using the hydrological model PREVAH in its gridded-version. The simulated time series are provided at daily resolution. A detailed description of the modeling approach can be found in Brunner et al. 2019 submitted to NHESS.
LABES 2 Indicators of the Swiss Landscape Monitoring Program
The Swiss Landscape Monitoring Program (LABES) records both the physical and the perceived quality of the landscape with about 30 indicators. The surveys of the physical aspects are largely based on evaluations of data available throughout Switzerland from swisstopo and the Federal Statistical Office (FSO). Another significant part of the data comes from a nationwide population survey on landscape perception. This dataset describes data that have been assembled in the 2020 update of the Swiss Landscape Monitoring Program LABES.