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131 results for “physicochemical”
Soil microbial and physicochemical data from watersheds impacted by different management practices or wildfire in the Southern Appalachian Mountains, 2023
Four forested watersheds in Western North Carolina with different management practices or disturbance were sampled in the summer of 2023 to compare soil physicochemical, microbial, and functional differences. These data include mineral soil physicochemical properties (location, elevation, aspect, gravimetric moisture content, pH, total carbon and nitrogen, total organic carbon, dissolved organic carbon and nitrogen, total dissolved nitrogen, dissolved inorganic nitrogen (NO3 and NH4), and microbial biomass carbon and nitrogen), soil microbial properties (16S ASV community sequences, ITS ASV community sequences, extracellular enzyme activity, carbon mineralization rates, and ammonium mineralization rates), and organic soil properties (total organic carbon, total carbon and nitrogen, 16S ASV sequences, pH, and moisture). Together, this dataset provides context to understanding the impacts of different management practices and relevant disturbances, such as severe wildfire, on soil in the Southern Appalachian region.
Soil nitrogen availability vs. acidification: effects on soil respiration, heterotrophic respiration, and soil physicochemical properties in mixed temperate forests in central New York, USA (2019-2022)
In 2011, an experimental nitrogen x pH manipulation study was initiated in mixed temperate forests in central New York, USA to disentangle the often-confounded roles of nitrogen (N) and soil pH in driving various ecosystem processes. This data package contains soil physicochemical properties (soil pH, resin available nitrogen), soil temperature, in situ soil respiration, and heterotrophic respiration measured from laboratory incubations of soils collected from experimental plots. Soil pH was measured both pre-treatment (2009-2010) and after 8 and 11 years of experimental treatment. All other properties were measured between 9 and 12 years after treatment initiation.
Hydrological, physicochemical and metabolic activity data for streams in the Japanese Alps
<p>A series of files with hydrological, physicochemical and metabolic activity data from a study investigating the environmental dynamics of six stream systems in the Japanese Alps.</p>
Geochemical, physicochemical, and genomic data from a continental-scale survey of microbial diversity in Antarctic soils (2003-2023)
This data package offers comprehensive insights into Antarctic soil microbial diversity and composition. From 2003 to 2023, a total of 186 samples were collected from diverse locations spanning the Antarctic Peninsula to East Antarctica, representing a wide range of environmental gradients and climatic conditions. Soils were stored at -20°C to preserve their integrity for downstream analyses. This data package integrates cultivation-independent sequencing of prokaryotic and fungal communities alongside a robust cultivation-dependent culture collection to enable direct comparisons across microbial diversity assessment methods. Accompanying geochemical, physicochemical, and environmental parameters provide critical context for biogeographical analyses, offering a valuable resource for studying microbial adaptations and community dynamics in extreme Antarctic environments.
Integrated measurements of soil micro-invertebrate abundance and associated physicochemical properties from the McMurdo Dry Valleys, Antarctica (1993–2022)
This data package compiles three decades (1993–2022) of soil micro-invertebrate abundance data and associated physicochemical measurements collected as part of the McMurdo Dry Valleys Long Term Ecological Research (MCM LTER) project in Antarctica. Variables include soil micro-invertebrate counts and species richness, along with associated soil physicochemical properties, including gravimetric moisture content, pH, electrical conductivity, soil organic carbon, ammonium, and nitrate. Data originate from both long-term core monitoring efforts and targeted opportunistic sampling campaigns across multiple valleys, including Arena, Beacon, Pearse, Taylor, Victoria, and Wright Valleys. Sampling locations span a range of geomorphic and ecological settings, providing broad spatial and temporal coverage of soil conditions across the Dry Valleys ecosystem. Data were curated to represent the most comprehensive and spatially diverse records available while minimizing sampling bias across years and study types. These integrated measurements provide a valuable resource for understanding the drivers of soil micro-invertebrate abundance and habitat suitability and serve as a foundation for future analyses of long-term ecological change and species distribution modeling in polar desert soils.
Alpine and subalpine wetland soil physicochemical characteristics, summer 2020.
To understand patterns in soil biogeochemistry of wetlands at Niwot Ridge, samples were collected and analyzed for a series of physicochemical characteristics during 2020-2021. Samples were collected from 8 wetland sites lying at different elevations from the Saddle into the subalpine. At each site, samples were collected at 4 depth intervals within 5 sampling nodes along transects from the dry edge to saturated center of each system. These soils were analyzed for a suite of physicochemical characteristics, including soil moisture, bulk density, extractable nitrate and ammonium, loss on ignition as a proxy for organic carbon content, pH, total carbon and nitrogen, and adsorbed sulfate. Data will be used to inform future studies on biogeochemistry patterns and processes in alpine wetlands and across the Niwot landscape.
Associated Data: RASPD+: Fast protein-ligand binding free energy prediction using simplified physicochemical features
<p>Additional digital data to "RASPD+: Fast protein-ligand binding free energy prediction using simplified physicochemical features" (ChemRxiv preprint:<a href="https://doi.org/10.26434/chemrxiv.12636704.v1">https://doi.org/10.26434/chemrxiv.12636704</a>).</p> <p>Associated code can be found at: <a href="https://github.com/HITS-MCM/RASPDplus">https://github.com/HITS-MCM/RASPDplus</a></p> <p>Files:</p> <ul> <li>weights.tar.gz: contains the model weights of one random dataset split and its associated crossvalidation folds. Used for standard RASPD+ evaluation.</li> <li>additional_model_replicates.tar.gz: contains the remaining models trained on the full set of descriptors.</li> <li>external_test_sets.tar.gz: contains the descriptor tables for all external test sets used</li> <li>dude.tar.gz: contains the descriptor tables for and several identifier lists for evaluation on the Directory of Useful Decoys - Enhanced (DUD-E)</li> <li>run_outputs.tar.gz: Performance metric data and predicted values created during the model training and evaluation runs. Basis for the figures and metrics in the manuscript.</li> </ul> <p> </p>
Summer and winter invertebrate and physicochemical data from the Coweeta Hydrologic Lab
<p>This resource contains data for aquatic invertebrates collected from leaf litterbags, which were deployed in 11 streams at the Coweeta Hydrologic Lab (Macon County, North Carolina, USA) during winter and summer months in 2017-2018. Litterbags consisted of fine-mesh bags (250µm) attached to coarse-mesh bags (5mm), each containing <em>Rhododendron maximum</em> leaf litter. The litterbags were deployed for two-month periods, which were as follows: 19 October - 11 or 18 December, 2017; 15 November - 5 January 2017-2018; 9 May - 5 July 2018; and 5 July - 31 August 2018. We collected invertebrate samples from the >1mm size fraction from 3 coarse-fine litterbag pairs incubated in each of our streams during the aforementioned 2-month periods. Invertebrates were preserved in ethanol, identified, and classified into functional feeding groups based on classifications in Merritt et al. 2019. We identified invertebrates in the "shredder" functional feeding group to genus and all other insects to family (Merritt et al. 2019). We also measured invertebrate lengths in mm and converted these lengths to masses using information from Benke 1999. This resource also contains daily temperature and discharge data, litter breakdown data from the coarse-mesh bags associated with the invertebrate data, and weekly nutrient concentration data from the streams during the study period. Discharge data was provided by the USFS Coweeta Hydrologic Lab and can also be found here: https://www.fs.usda.gov/rds/archive/catalog/RDS-2016-0025-2</p> <p>Discharge data citation:</p> <p>USFS Coweeta Hydrologic Laboratory. 2023. Daily streamflow data for gauged watersheds at Coweeta Hydrologic Laboratory, North Carolina. 2nd Edition. Fort Collins, CO: Forest Service Research Data Archive. https://doi.org/10.2737/RDS-2016-0025-2</p>
Evaluating Changes in the Local Protein Physicochemical En-vironment induced by Molecular Dynamics Simulation
<p><span>Mutation of a single amino acid residue may significantly affect the structure and function of an entire protein. The effect of single amino acid substitutions can be assessed by examining the physicochemical environment surrounding the amino acid of interest, an emerging form of quantification of which is multidimensional tensors. However, the effect with respect to a protein variant’s inherent dynamics in tensor space is rarely assessed despite the potential importance of this form of analysis in revealing local physicochemical properties of the protein and response to mutation. Using the wild-type and 936 mutant structures of the protein domain 1pga, the present research evaluated the effects of local protein context and single amino acid substitutions on molecular dynamics simulation-derived structural distributions via the use of tensors capturing a range of biochemical properties. It was observed that the extent of simulated </span><span>physicochemical</span><span> variation local to a substituted amino acid is positively associated with local mechanical stiffness, loss of protein thermostability and decreased local hydrophobicity. In addition, it was observed that the largest tensor variation occurs in densely-packed, hydrophobic core-associated regions of protein structures. In summary, the pattern of tensor change aligns with prior knowledge about protein stability and physicochemical properties.</span></p>
Dataset for the article "Capping agent control over the physicochemical and antibacterial properties of ZnO nanoparticles".
<p>Dataset for the article "Capping agent control over the physicochemical and antibacterial properties of ZnO nanoparticles".</p> <p>David Rutherford1, Markéta Šlapal Bařinková1, Thaiskang Jamatia2, Pavol Šuly2, Martin Cvek2, Bohuslav Rezek1</p> <p><br>1 Faculty of Electrical Engineering, Czech Technical University in Prague, Technická 2, 16227 Prague, Czech Republic<br>2 Centre of Polymer systems, Tomas Bata University in Zlin, Trida T. Bati 5678, 760 01 Zlín, Czech Republic</p> <p><br>Dataset description:</p> <p>240909 UV-vis_capped_ZnO.xlsx UV-vis spectroscopy<br>220623 ZnO Zlin Zn ion.xlsx Zinc ion measurement<br>230511 dls_zeta_data.xlsx DLS & zeta potential measurement<br>230221 ZnO_Zlin_MIC_MASTER.xlsx Minimum inhibitory concentration</p>
A dataset of physicochemical water parameters from Lima and Douro estuaries (Northwest Portugal)
<p>This dataset provides physicochemical water data collected during five sampling campaigns at two temperate North Atlantic estuaries, the Lima and Douro, in northern Portugal, between 2021 and 2022. The dataset is described in the <em>Data in Brief </em>article “Physicochemical dataset from Lima and Douro estuaries (Northwest Portugal)”. It includes: a) in-situ vertical profiles of water parameters (temperature, salinity, pH, turbidity, dissolved oxygen), acquired with a multiparameter probe along the water column, from the surface to the bottom, at 8 stations in the Lima estuary (during ebb and flood tides) and 11 stations in the Douro estuary (during flood tide); and b) chemical analyses of nutrients, chlorophyll <em>a</em>, total particulate matter, particulate organic matter, and metal concentrations from 5 representative stations in each estuary. Additional dissolved metal data are provided for the Lima estuary.</p>
RDF version of the data from Anastasios G. et al. Computational enrichment of physicochemical data for the development of a zeta-potential read-across predictive model with Isalos Analytics Platform. NanoImpact (2021).
<p>This is an RDFied version of the dataset published by Anastasios G. et al. Computational enrichment of physicochemical data for the development of a zeta-potential read-across predictive model with Isalos Analytics Platform. NanoImpact (2021).</p> <p>The original dataset publication DOI: <a href="https://doi.org/10.1016/j.impact.2021.100308">https://doi.org/10.1016/j.impact.2021.100308</a></p> <p>The Original publication authors: Anastasios G. Papadiamantis, Antreas Afantitis, Andreas Tsoumanis, Eugenia Valsami-Jones, Iseult Lynch, Georgia Melagraki</p>
Under-ice lake physicochemical data, Missisquoi Bay and Shelburne Pond, Vermont, USA, 2014-2015
This dataset contains under-ice physicochemical data from Missisquoi Bay and Shelburne Pond in Vermont, USA collected during the 2013-2014 and 2014-2015 winters and spring thaw periods. The main dataset contains data for ice depths, water column sampling depths, nutrient chemistry, chlorophyll a, and relevant physicochemical variables. Ancillary data includes nearby air temperature data for the study periods as well as river discharge data for contributing or nearby tributaries. Data collection is complete.
Raw data for the submitted manuscript: Effects of microplastics on enchytraeid multigeneration reproduction and soil physicochemical properties
<p>Survival and reproduction data from multigenerational single species tests involving four types of plastic materials.</p> <p> </p>
Applicability of pea ingredients in baked products: links between formulation, reactivity potential and physicochemical properties
<p>This is the data used for the figures and supplementary information in the following publication:</p> <p>Krause, S., Asamoah, E.A., Huc-Mathis, D., Moulin, G., Jakobi, R., Rega, B. & Bonazzi, C. (2022). Applicability of pea ingredients in baked products: links between formulation, reactivity potential and physicochemical properties. Food Chemistry, 132653. DOI: <a href="https://doi.org/10.1016/j.foodchem.2022.132653">10.1016/j.foodchem.2022.132653</a>.</p> <p> </p> <p><strong>Abstract</strong></p> <p>This study aimed to evaluate the applicability of purified pea ingredients (starch and protein isolate) by assessing their potential to form volatile compounds during the different steps of sponge cake development compared to pea flour and wheat flour. While pea flour was highly susceptible to lipid oxidation during batter beating, the combination of purified pea starch and pea protein yielded significantly fewer oxidation markers with known green-beany off-odors. This was due more to the inactivation of lipoxygenase during flour fractionation than to differences in batter structure. However, fractionated ingredients were highly prone to participating in the Maillard reaction and caramelization during baking, leading to a more complex mixture of pyrazines, Strecker aldehydes and furanic compounds with potential malty and roasted notes compared to cakes based on pea flour or wheat flour. These findings confirm that using purified pea fractions can create high-quality products with an attractive composition.</p>
Data set on soil physicochemical parameters, biomass accumulation and carbon credit generation in different management systems in Rio Verde, GO, Brazil
<h1>Description</h1> <p>This repository contains a comprehensive dataset focused on soil organic carbon and its role in mitigating climate change through carbon sequestration on agricultural lands in Rio Verde, GO, Brazil. With the global imperative to reduce anthropogenic CO2 emissions, our data highlights the effectiveness of no-till agricultural practices in both improving soil quality and enhancing carbon storage. This collection represents extensive soil and biomass sampling from five distinct areas within the Cerrado region, utilizing three priority management systems:</p> <p>No-till with soybean and maize in sequence under rainfed conditions. No-till with soybean and maize in sequence with central pivot irrigation. First and second cuts of sugarcane. The samples were meticulously collected post-harvest and used to estimate both soil biomass accumulation and carbon stock indices. A thorough analysis of the soil's physicochemical parameters was conducted for the 0-20 cm soil profile in each area. This dataset not only provides a valuable resource for studying the impact of different no-till practices on carbon sequestration but also serves as a critical input for modeling future contributions of conservation management systems to carbon trading markets.</p> <div> <div> </div> <div> <h2>Data Contents</h2> </div> <p>Soil organic carbon measurements for various no-till systems. Biomass accumulation data post-harvest. Carbon stock indices derived from biomass samples. Detailed physicochemical profiles of soil samples.</p> <div> <h2>Significance</h2> </div> <p>This dataset is pivotal for researchers and policymakers focusing on the potentials of agricultural carbon sequestration and its implications for carbon trading schemes. It offers insights into the current contributions of no-till conservation management systems and aids in the development of future strategies to enhance carbon</p> <h1>Metadata Description and Script</h1> </div> <p>This repository contains two key data files that encapsulate diverse aspects of soil physicochemical parameters, biomass accumulation, and carbon credit generation across different management systems in Rio Verde, GO, Brazil. Below are descriptions of each file's contents and structure.</p> <div> <h2>all.txt</h2> </div> <p>This text file presents aggregated data from various sites under different agricultural management systems. Each row in the dataset represents measurements from distinct sample plots, with the following fields:</p> <ul> <li><code>Sites</code> - Identifier for the plot location.</li> <li><code>SB</code> - Soil bulk density (g/cm³).</li> <li><code>SOC</code> - Soil organic carbon (%).</li> <li><code>Stock</code> - Carbon stock (ton/ha).</li> <li><code>Biomass</code> - Biomass accumulation (ton/ha).</li> <li><code>Credits</code> - Estimated carbon credits (ton CO2 equivalent/ha).</li> </ul> <div> <h2>Quimica.xlsx</h2> </div> <p>This Excel file provides detailed physicochemical analyses of soil samples from different management zones in the study area. The data is structured to support in-depth analysis of soil characteristics influencing carbon sequestration capabilities. Each sheet in the workbook corresponds to a specific area, with columns typically representing:</p> <ul> <li><code>pH</code> - Soil pH, indicating the acidity or alkalinity.</li> <li><code>EC</code> - Electrical conductivity (dS/m).</li> <li><code>Cation Exchange Capacity (CEC):</code> - (meq/100g).</li> <li><code>Organipont c Matter:</code> - (%).</li> <li><code>NPK levels</code> - Concentrations of Nitrogen (N), Phosphorus (P), and Potassium (K).</li> </ul>
Figure 3 in Dynamics of meiobenthic fauna in a tropical sandy coast (Chennai, Bay of Bengal) with reference to the physicochemical parameters
Figure 3. Physicochemical parameters of the Chennai coast (a- Ammonia; b- Density of meiobenthic fauna).
Fig. 4 in Refining the Occurrence of Viral Encephalopathy and Retinopathy, Photobacteriosis, and Vibriosis in Connection with Seawater Physicochemical Parameters: A Five-Year Case Study Abstract
Fig. 4: Estimated time series of the probability of absence/presence (0 to 1) based on the model (depicted by a line), alongside on-site records of absence/presence (represented by dots) for three diseases at Fish Farm A.
Fig. 2 in Refining the Occurrence of Viral Encephalopathy and Retinopathy, Photobacteriosis, and Vibriosis in Connection with Seawater Physicochemical Parameters: A Five-Year Case Study Abstract
Fig. 2: A - Annual variation (HREG) of physico-chemical parameters based on mean value parameters (T=temperature °C), TS- D=standard deviation of T, S=salinity (psu), SSD=standard deviation of salinity, O=oxygen (mg/ml), OSD=standard deviation of oxygen, pH, pHSD=standard deviation of pH). B - Presence/absence of diseases (t0= 1/1, step 1 day) (VAO1=Vibriosis, PHDP=- Photobacteriosis, VER=viral encephalopathy & retinopathy).
Fig. 3 in Refining the Occurrence of Viral Encephalopathy and Retinopathy, Photobacteriosis, and Vibriosis in Connection with Seawater Physicochemical Parameters: A Five-Year Case Study Abstract
Fig. 3: Presence/absence of fish diseases in the years 2011-2015. (A: VER - Viral Encephalopathy & Retinopathy, B: PHDP - Photobacteriosis, C: VAO1 - Vibriosis). For the presence of disease, the value was [1], and for absence, it was [0].
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
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DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
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.