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46 results for “Sediment sampling”
Data from: eDNA metabarcoding of log hollow sediments and soils highlights the importance of substrate type, frequency of sampling and animal size, for vertebrate species detection
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PIE LTER, Year 2017-2018, locations, date, sediment concentration and spectral reflectance measurement methods of 40 water samples at Plum Island Sound and deep ocean, Massachusetts.
PIE LTER, Year 2017-2018, locations, date, sediment concentration and spectral reflectance measurement methods of 40 water samples at Plum Island Sound and deep ocean, Massachusetts
Table S1 The grain size, TOC and elemental composition of sediment samples in the northern South China Sea
<p><span>Grain size measurements of the sediments were carried out on a Mastersizer 3000 laser particle size analyzer</span><span>. Prior to analysis organic matter was removed by leaching the sediment with 15% H<sub>2</sub>O<sub>2</sub>. Total organic carbon (TOC) of the sediments was measured in </span><span>Thermo EA-IsoLink elemental analyzer</span><span>. Prior to analysis carbon bound to carbonate minerals was removed by leaching the sediment with 10% HCl. Total element concentrations (Al, Ca, Ti, Fe, Mn) of the bulk sediments were measured after acid digestion (HF, HNO<sub>3</sub> and HCl) by </span><span>Thermo iCAP 7400 ICP-OES</span><span>. Solid phase iron speciation data were measured following sequential Fe extraction (Fe<sub>carb</sub>, Fe<sub>ox</sub>, Fe<sub>mag</sub>, Fe<sub>py</sub>) by T</span><span>hermo iCAP 7400 ICP-OES</span><span>.</span></p>
Grain size distribution of Amazon river sediment samples collected over the period 2005-2008; and ADCP water velocity profiles collected on the major tributaries of the Amazon in Bolivia and Peru, 2007-2008
<p>This dataset contains two items:</p> <p>- The grain size distribution of river sediment samples collected along the Amazon River and its tributaries during four sampling campaigns performed in June 2005 (lower Amazon, Brazil), March 2006 (lower Amazon, Brazil), May 2007 (Upper Madeira, Bolivia), and April 2008 (Upper Solimões-Amazonas, Peru). [spreadsheet "Grain_size_distribution_dataset_Amazon_2005-2008_Bouchez_data.xlsx"].</p> <p>- River water velocity profiles derived from Acoustic Doppler Current Profiler (ADCP) measurements performed on the major tributaries of the Amazon in May 2007 (Upper Madeira, Bolivia) and April 2008 (Upper Solimões-Amazonas, Peru) [folder "ADCP_dataset_Amazon_2007-2008_Bouchez_data"].</p> <p>The dataset description and the relevant references are provided in the text files "Grain_size_distribution_dataset_Amazon_2005-2008_Bouchez_description.docx" and "ADCP_dataset_Amazon_2007-2008_Bouchez_description.docx" .</p> <p>These data were acquired thanks to the support of the French National Service for Observation "HYBAM" ("Hydrogeochemistry of the Amazon Basin"), part of the CNRS National Infrastructure "OZCAR" ("Critical Zone Observatories: Applications and Research").</p>
Measured properties in soil samples and marine sediment collected in Galion Bay (Martinique, France) in order to trace erosion sources in insular tropical catchments
<p>This dataset was compiled in order to select the optimal suite of tracers and identify and quantify the main sources of sediment deposited in Galion Bay and associated chlordecone transfers since the 1960s. It includes measured properties for potential sources collected across the Galion catchment (Martinique, France) and along a sediment core sampled in Galion Bay (GAL17-04, N°IGSN TOAE0000000573). Associated with this dataset, metadata are integrated for sources and targets registered using International Geological Sample Numbers (IGSN).</p>
Data from: Detection of the endangered European weather loach (Misgurnus fossilis) via water and sediment samples: testing multiple eDNA workflows.
<p>The European weather loach (<i>Misgurnus fossilis</i>) is classified as highly endangered in several countries of Central Europe. Populations of <i>M. fossilis</i> are predominantly found in ditches with low water levels and thick sludge layers and are thus hard to detect using conventional fishing methods. Therefore, environmental DNA (eDNA) monitoring appears particularly relevant for this species. In previous studies, <i>M. fossilis</i> was surveyed following eDNA water sampling protocols, which were not optimized for this species. Therefore, we created two full factorial study designs to test six different eDNA workflows for sediment samples and twelve different workflows for water samples. We used qPCR to compare the Threshold cycle (Ct) values of the different workflows, which indicate the target DNA amount in the sample, and spectrophotometry to quantify and compare the total DNA amount inside the samples. We analyzed 96 water samples and 48 sediment samples from a pond with a known population of <i>M. fossilis</i>. We tested several method combinations for long-term sample preservation, DNA capture and DNA extraction. Additionally, we analyzed the DNA yield of samples from a ditch with a natural <i>M. fossilis</i> population monthly over one year to determine the optimal sampling period. Our results showed that the long-term water preservation method commonly used for eDNA surveys of <i>M. fossilis </i>did not lead to optimal DNA yields, and we present a valid long-term sample preservation alternative. A cost-efficient high salt DNA extraction led to the highest target DNA yields and can be used for sediment and water samples. Furthermore, we were able to show that in a natural habitat of <i>M. fossilis</i>, total and target eDNA were higher between June and September, which implies that this period is favorable for eDNA sampling. Our results will help to improve the reliability of future eDNA surveys of <i>M. fossilis</i>.</p>
Carbon and Nitrogen content of intertidal shellfish sandbanks sediment samples within Ría de Arousa, Spain
<p>The GEOMA Research group from the University of Vigo implements a solution to improve the knowledge of the sediment dynamics, the stability of the ecosystem substratum, and its response to the predicted Climate Change outcome (INTERM). The INTERM solution is based on sedimentological monitoring of sandbanks at specific locations of clam exploitation in the Ría de Arousa (Pontevedra, Spain).</p> <p>Here we show the results of the elemental analysis (total and inorganic carbon and nitrogen) carried out on the bulk fraction of sediment samples collected in five locations with current (Camaxe, Xastelas, O Sarrido, and O Bohido) or stopped (Lombos de Ulla) shellfish activity. The analyses were conducted at the CACTI facilities (Uvigo) using a ThermoFischer NC 2500 Elemental Analyzer.</p> <p>This study is part of the “Accelerating and upscaling transformational adaptation in Europe: demonstration of water-related innovation packages (TRANSFORMAR) coordinated by the Universiteit Antwerpen and funded by the European Union’s Horizon program (H2020_101036683).</p> <p> </p> <p>In this version:</p> <ul> <li>New measurements added</li> <li>Minor errors corrected</li> </ul>
Data from: Detection of vertebrates from natural and artificial inland water bodies in a semi-arid habitat using eDNA from filtered, swept and sediment samples
<p>Climate warming will impact the sustainability of arid and semi-arid zone environments so we need to understand the influence of changes in arid lands on vertebrate populations. However, biomonitoring and biodiversity assessment in arid environments can be prohibitively time-consuming, expensive, and logistically challenging due to their often remote and inhospitable nature. Sampling of environmental DNA (eDNA) coupled with high-throughput sequencing is an emerging biodiversity assessment method. Here we explore the application of eDNA metabarcoding and various sampling approaches to estimate vertebrate richness and assemblage at human-constructed and natural water sources in a semi-arid region of Western Australia. Three sampling methods: sediment samples, filtering through a membrane with a pump, and membrane sweeping in the water body, were compared using two eDNA metabarcoding assays, 12S-V5 and 16smam, for 120 eDNA samples collected from four gnammas (gnamma: Australian Indigenous Noongar language term – granite rock pools) and four cattle troughs in the Great Western Woodlands, Western Australia. We detected higher vertebrate richness in samples from cattle troughs and found differences between assemblages detected in gnammas (more birds and amphibians) and cattle troughs (more mammals, including feral taxa). Total vertebrate richness was not different between swept and filtered samples, but all sampling methods yielded different assemblages. Our findings indicate that eDNA surveys in arid lands will benefit from collecting multiple samples at multiple water sources to avoid underestimating vertebrate richness. The high concentration of eDNA in small, isolated water bodies permits the use of sweep sampling which simplifies sample collection, processing, and storage, particularly when assessing vertebrate biodiversity across large spatial scales.</p>
Data from: Detection of the endangered European weather loach (Misgurnus fossilis) via water and sediment samples: testing multiple eDNA workflows.
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Tomographic data of Trilobatus trilobus shells from central Atlantic core-top sediment samples
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Data from: Detection of vertebrates from natural and artificial inland water bodies in a semi-arid habitat using eDNA from filtered, swept and sediment samples
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Cinca River Field Survey: sediment sampling and tree measurement
<p>A field survey was performed on 26-28 November 2018 by Melissa Latella, Matteo B. Bertagni, Paolo Vezza and Carlo Camporeale (Envirofluidgroup, Department of Environmental, Land and Infrastructure Engineering, Polytechnic of Turin, Italy). The survey was carried out over the riparian area of the Cinca River, in a river segment located between the towns of Ballobar and Zaidín (Spain).</p> <p>Sediment samples were collected through the Wolman Pebble Count method. Pictures of the samples constitute the input for the MATLAB-based image-processing tool BaseGrain. BaseGrain allows to extrapolate the intermediate diameter of a set of samples. The output diameters can be processed in order to obtain the grain size distribution, the d50 and d90, and the Manning coefficient.</p> <p>Also vegetation features were measured during the survey. Tree diameter and height were collected in order to regress allometric curves, whereas the number of trees in areas of known extension allows to determine the spatial tree density.</p>
Collection of pXRF Data Corresponding to Study Spectral Samples | Southwest Australia Acid Saline Sediments | Radwin 2022
<p>This file contains pXRF data from a portable Bruker XRF instrument using mudrock calibration settings, where each sample was scanned for 90 seconds to alternate through energy spectrums. This data has at tab displaying associated file numbers that correspond to sample ID's. These sample ID's all correspond to spectra of the same sample location used for the pXRF measurements. This data was collected for the completion of a masters thesis at the University of Utah Department of Geology & Geophysics. </p>
XRD analysis dataset of intertidal shellfish sandbanks sediment samples within Ría de Arousa, Spain
<p><span><span> </span></span></p> <p><span>The GEOMA Research group from the University of Vigo implements a solution to improve the knowledge of the sediment dynamics, the stability of the ecosystem substratum, and its response to the predicted Climate Change outcome (INTERM). The INTERM solution is based on sedimentological monitoring of sandbanks at specific locations of clam exploitation in the Ría de Arousa (Pontevedra, Spain).</span></p> <p><span>Here we show the results of X-ray Diffraction analysis on the bulk fraction of sediment samples collected in five locations with current (Camaxe, Xastelas, O Sarrido, and O Bohido) or stopped (Lombos de Ulla) shellfish activity. The analyses were conducted at the CACTI facilities (Uvigo) using a Siemens D-5000 X-ray diffractometer.</span></p> <p><span>This study is part of the “Accelerating and upscaling transformational adaptation in Europe: demonstration of water-related innovation packages (TRANSFORMAR)” coordinated by the Universiteit Antwerpen and funded by the European Union’s Horizon program (H2020_101036683).</span></p>
Description of suspended sediment and soil samples database: measured properties associated metadata
<p>From the perspective of open science, this dataset includes data and metadata of soil and suspended sediment samples collected across three catchments in Martinique (French West Indies) : Galion river catchment, Lézarde river catchment and Salée river catchment. During one year (June 2022 - July 2023), suspended sediment samplers were installed in the three river networks. In order to determine the signature of the potential erosion sources, soil samples were collected across the three catchments. In order to quantify suspended sediment source contributions and chlordecone contamination of suspended matter transiting in river, a set of different properties were measured in soil and suspended sediment samples: radionuclide activities, carbon and nitrogen isotopes, elemental geochemistry, visible colorimetry, chlordecone and its degradation products concentrations</p>
Hyperspectral data of sediment samples collected from Vigo fieldwork Sept. 2023
<h2>Abstract</h2> <p>Raw hyperspectral data of 9 sediment samples in HDF5 file format. The samples were collected by UPORTO and IGME from Vigo Campaign fieldwork in Sept. 2023 but they were scanned at Ecotone lab in Trondheim by Ecotone UHI in February 2024. The data was scanned for both dry and wet sediments.</p> <p>This depositry contains data generated within the European S34 project. The data are in raw form and have not been further processed. Processed data are published in other depositories.</p> <h2>Metadata Information</h2> <table> <tbody> <tr> <td> <p><strong>Identification</strong></p> </td> </tr> <tr> <td> <p>Full Title</p> </td> <td> <p>Hyperspectral data of sediment samples collected from Vigo fieldwork Sept. 2023</p> </td> </tr> <tr> <td> <p>Abstract</p> </td> <td> <p>Raw hyperspectral data of 9 sediment samples. The samples were collected by UPORTO and IGME from Vigo Campaign fieldwork in Sept. 2023 but they were scanned at Ecotone lab in Trondheim with Ecotone UHI in February 2024. The data was scanned for both dry and wet sediments.</p> <p>This depositry contains data generated within the European S34 project. The data are in raw form and have not been further processed. Processed data are published in other depositories.</p> </td> </tr> <tr> <td> <p>Keywords</p> </td> <td> <p>Raw hyperspectral data, sediments, sand, mineral resource</p> </td> </tr> <tr> <td> <p>Pilot area</p> </td> <td> <p>Ria de Vigo</p> </td> </tr> <tr> <td> <p>Associated resources</p> </td> <td> <p><a href="https://doi.org/10.5281/zenodo.13381973">https://doi.org/10.5281/zenodo.13381973</a></p> </td> </tr> <tr> <td> <p>Language</p> </td> <td> <p>English</p> </td> </tr> <tr> <td> <p>URL</p> </td> <td> <p> </p> </td> </tr> <tr> <td> <p>Categories</p> </td> <td> <p>Mineral resources</p> </td> </tr> <tr> <td> <p><strong>Temporal reference</strong></p> </td> </tr> <tr> <td> <p>Creation date (dd.mm.yyyy)</p> </td> <td> <p>16.02.2024</p> </td> </tr> <tr> <td> <p>Revision date (dd.mm.yyyy)</p> </td> <td> <p> </p> </td> </tr> <tr> <td> <p><strong>Quality and validity</strong></p> </td> </tr> <tr> <td> <p>Representation type</p> </td> <td> <p> </p> </td> </tr> <tr> <td> <p>Fromat</p> </td> <td> <p>HDF5</p> </td> </tr> <tr> <td> <p>Lineage</p> </td> <td> <p> </p> </td> </tr> <tr> <td> <p>Spatial resolution</p> </td> <td> <p>2 mm (with UHI about 2 m away)</p> </td> </tr> <tr> <td> <p>Positional accuracy</p> </td> <td> <p> </p> </td> </tr> <tr> <td> <p>Maintenance information</p> </td> <td> <p> </p> </td> </tr> <tr> <td> <p>Coordinate system</p> </td> <td> <p>3035</p> </td> </tr> <tr> <td> <p><strong>Constranits related to access and use</strong></p> </td> </tr> <tr> <td> <p>Use limitation</p> </td> <td> <p>no</p> </td> </tr> <tr> <td> <p>Access constraint</p> </td> <td> <p>no</p> </td> </tr> <tr> <td> <p>Public/Private</p> </td> <td> <p>Public</p> </td> </tr> <tr> <td> <p><strong>Responsible organisation</strong></p> </td> </tr> <tr> <td> <p>Responsible Contact</p> </td> <td> <p>Ecotone As</p> </td> </tr> <tr> <td> <p>Responsible Party</p> </td> <td> <p>Ecotone As</p> </td> </tr> <tr> <td> <p><strong>Metadata on metadata</strong></p> </td> </tr> <tr> <td> <p>Contact</p> </td> <td> <p>Ecotone As, info@ecotone.com</p> </td> </tr> <tr> <td> <p>Metadata language</p> </td> <td> <p>English</p> </td> </tr> </tbody> </table>
Data from: The utility of environmental DNA from sediment and water samples for recovery of observed plant and animal species from four Mojave Desert springs
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sand collected by sediment samples
<p>The data are sediment captured by sediment samples duriing field monitoring.</p>
Figure 5 in The microplastic pattern in Turkish lakes: sediment and bivalve samples from Çıldır Lake Almus Dam Lake, and Kartalkaya Dam Lake
Figure 5. Microplastic abundance (per individual and g soft tissue fresh / wet weight) (a), polymer characterization (b), and shape (c) of microplastics collected from bivalve samples from three lakes. Different capitals (A, B, C) show significant differences among sampling stations. Different letters (a and b) show significant differences among bivalve species.
Elemental composition of intertidal shellfish sandbanks sediment samples within Ría de Arousa, Spain
<p>The GEOMA Research group from the University of Vigo implements a solution to improve the knowledge of the sediment dynamics, the stability of the ecosystem substratum, and its response to the predicted Climate Change outcome (INTERM). The INTERM solution is based on sedimentological monitoring of sandbanks at specific locations of clam exploitation in the Ría de Arousa (Pontevedra, Spain).</p> <p>Here we show the results of X-ray Fluorescence analysis carried out on the bulk fraction of sediment samples collected in six locations with current (Camaxe, Xastelas, O Sarrido, Lavanqueira, and O Bohido) or stopped (Lombos de Ulla) shellfish activity. The analyses were conducted at the CACTI facilities (Uvigo) using an X-ray Fluorescence Spectrometer by Wave Scattering (Siemens SRS3000).</p> <p>This study is part of the “Accelerating and upscaling transformational adaptation in Europe: demonstration of water-related innovation packages (TRANSFORMAR)” coordinated by the Universiteit Antwerpen and funded by the European Union’s Horizon program (H2020_101036683).</p> <p>In this version:</p> <ul> <li> New measurements added</li> <li>Order of Xastelas samples (May 2023) corrected</li> <li>Minor errors corrected</li> </ul>
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Allen Brain Atlas
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International Brain Laboratory public data
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OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.