Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
101
datasets available to search
ShareScore release 0.7.1
Dataset results
101 results for “dissolved organic matter”
Data and code for "Salomon et al. 2024: Effects of dissolved organic matter on the toxicity of micro- and nanoplastic particles to Daphnia - a meta-analysis."
<div> <p>All data and R code for</p> <p><strong>Salomon S, Grubmüller E, Kropf P, Nickl E, Rühl A, Weigel S, Becker F, Antonio Vital AL, Laforsch C, Schott M, Mair MM. (2024). Effects of dissolved organic matter on the toxicity of micro- and nanoplastic particles to <em>Daphnia</em> - a meta-analysis. <em>Microplastics and Nanoplastics</em>. (<a href="https://doi.org/10.1186/s43591-024-00088-4" target="_blank" rel="noopener">https://doi.org/10.1186/s43591-024-00088-4</a>)</strong></p> <p><em>Abstract</em></p> <p>Effects of micro- and nanoplastic particles (MNP) on organisms have been increasingly reported in recent years, with a large number of studies conducted on water fleas of the genus <em>Daphnia</em>. Most of the available studies used pristine particles that have not been exposed to the environment or to organic substances. In natural environments, however, organic substances like dissolved organic matter (DOM) attach to the MNP, forming an ecocorona on the particles’ surface. How the formation of an ecocorona influences MNP toxicity is still uncertain. While some studies suggest that DOM can mitigate the negative effects of MNP on organisms, other studies did not find such associations. In addition, it is unclear whether the DOM attached to the particles’ surface is attenuating the effects of MNP directly or whether co-exposure with DOM solved in the medium attenuates MNP toxicity indirectly, for instance by increasing Daphnia‘s resilience to stressors in general. To draw more solid conclusions about the direction and size of the mediating effect of DOM on MNP-associated immobilization in <em>Daphnia</em> spp., we synthesized evidence from the published literature and compiled 305 data points from 13 independent studies. The results of our meta-analysis show that the toxic effects of MNP are likely reduced in the presence of certain types of DOM in the exposure media. We found similar mediating effects when MNP were incubated in media containing DOM before the exposure experiments, although to a lesser extent. Future studies designed to disentangle the effects of DOM attached to the MNP from the general effects of DOM in the exposure medium will contribute to a deeper mechanistic understanding of MNP toxicity in nature and enhance the reliability of MNP risk assessment.</p> </div>
The role of nitrogen and iron biogeochemical cycles in the production and export of dissolved organic matter in agricultural headwater catchments
<p>Data on soil solutions collected in the riparian area at 15 cm depth in an agricultural catchment in Brittany (France) during one hydrological cycle. Zero-tension lysimeters were collected at a fortnightly frequency from October 2022 to June 2023. Measurements inlcude dissolved organic matter concentration and composition (3D flurorescence), nitrates, iron, and phosphorus.</p> <p>Data are published in Lambert et al., 2014, The role of nitrogen and iron biogeochemical cycles in the production and export of dissolved organic matter in agricultural headwater catchments, doi.org/10.5194/egusphere-2024-1212 (preprint).</p>
Storage experiment for the analysis of dissolved organic matter in surface water and groundwater
<p>This dataset contains the data resulting from a storage experiment, whereby samples from surface water (<em>n</em>=3) and groundwater (<em>n</em>=1) were stored cooled (4°C) or frozen (-20°C) and analysed after 1, 2, 3, 7, 14, 30 and 90 days using fluorescence spectroscopy (Aqualog, Horiba Scientific, Edison, NJ, USA). For each sample, the absorbance spectrum (240–500 nm) and a fluorescence excitation-emission matrix (EEM) were obtained. EEMs were obtained for excitation wavelengths 240–500 nm (3 nm interval) and emission wavelengths 248–825 nm (~4.6 nm interval) with an integration time of 1 second. Five absorbance indicators and eight fluorescence indicators were calculated. The DOC concentration was estimated using the two-wavelength approach of Cook et al. (2017).</p> <p>The dataset consists of four files:</p> <ul> <li>Aqualog data processing and index calculation.R: R script with the code to process the Aqualog data and to calculate the indices.</li> <li>Aqualog.zip: Raw data obtained from the Aqualog, divided into subfolders corresponding to the day of measurement. For each sample, the absorbance spectrum (*ABS.dat) and EEMs of the sample (*SEM.dat) and corresponding blank measurement (*BEM.dat) are provided.</li> <li>Indices.xlsx: Table with index values for all samples.</li> <li>Samples.xlsx: Table with information about all samples (e.g. sampling site, storage duration, storage method)</li> </ul> <p>The geolocations of the sampling sites are:</p> <ul> <li>Site 102 - 50° 29' 6.09''N - 8° 33' 33.57''E</li> <li>Site 134 - 50° 28' 36.55''N - 8° 32' 39.56''E</li> <li>Site 175 - 50° 28' 34.05''N - 8° 32' 42.89''E</li> <li>Site 187 - 50° 28' 49.98''N - 8° 32' 35.12''E</li> </ul>
Hydrobiogeochemical controls on the delivery of dissolved organic matter to boreal headwater streams
<p>Dataset of continuous stream discharge, soil moisture, and hydrographic separation of Upper Horseshoe and Lower Horseshoe stream sites near Pynn's Brook, Newfoundland. Matched to continuous data where available are dissolved organic carbon concentration, absorbance at 254 nm and specific UV absorbance measurements from discrete samples collected via autosampler or grab-sampled.</p>
Data for: Dissolved organic matter (DOM) offsets the detrimental effects of climate change in the nitrogen fixing cyanobacterium Crocosphaera
Open the record for dataset details and reuse information.
Water and soil chemistry and molecular composition data of dissolved organic matter from soils in the central Amazon rainforest, 2019-2021
This dataset was created based on sampling campaigns in the central Amazon rainforest. It covers four field sites in vicinity of the Amazon Tall Tower Oberservatory project (ATTO). The field sites are comprised of pristine, old-growth rainforest with distinct forest types: terra firme forest (Plateau and Terrace sites) and white-sand forest (Campina and Campinarana sites). Freely percolating soil porewater was sampled repeatedly in soil profiles from 0 to 30 cm in the wet seasons (October to May) of 2019, 2020 and 2021. Solid soil samples were taken in vicinity to the plots in October 2017. The datasets include chemical and texture (particle size fractions) and chemical (metals, cation exchange capacities and pH) data from soil samples. Soil porewater samples were measured for pH, electrical conductivity and dissolved organic carbon (DOC) concentrations. There are some missing values for these data, particularly for DOC concentrations. Soil porewater samples were used for solid-phase extraction of dissolved organic matter (DOM). The molecular composition was measured by ultra-high resolution mass spectrometry (Orbitrap Elite MS). The detected masses were used to assign molecular formulas. The data include the assigned molecular formulas and sum-normalized intensites of all samples. This data is associated with a Ph.D. dissertation chapter (Lange, 2025) and a journal article (Lange et al., accepted).
Time series of environmental parameters and organic matter analyses for dissolved and particulate organic matter in the Neuse River Estuary, North Carolina, USA 2015-2016
Environmental parameters and organic matter analyses (concentration, absorbance, fluorescence) for dissolved and particulate organic matter for the Neuse River Estuary, North Carolina, USA from 20 July 2015-28 July 2016. Samples were collected bi-weekly from July 2015-October 2015 and March 2016-July 2016 and monthly from November 2015-February 2016. The dataset consists of environmental parameters measured (water temperature, salinity, percent dissolved oxygen, turbidity, chlorophyll-a) and calculated (flushing time) as well as organic matter analyses for dissolved and particulate organic matter (concentration, absorbance, fluorescence) from surface (0.2 m below surface) and bottom (0.5 m above bottom) at 11 stations from the furthest extent of saltwater intrusion (Station 0) to the mouth of the estuary (Station 180). Data were collected as part of the Neuse River Estuary Modeling and Monitoring Program (ModMon; http://paerllab.web.unc.edu/projects/modmon/) at the University of North Carolina - Chapel Hill, Institute of Marine Science.
Stream water dissolved organic matter
The composition of dissolved organic matter in streams, and water flowing from springs and thermokarst featuers in the Caribou-Poker Creeks Research Watershed (CPCRW) was characterized using fluorescence analysis during the summer of 2006.
Reactivity, fate and functional roles of dissolved organic matter in anoxic inland waters
<p class="Textkrper1">The transit of organic matter (OM) through the aquatic compartment of its global cycle has been intensively studied, traditionally with a focus on the processing and degradation of its dissolved fraction (DOM). Because this is so intimately related to oxidation, the notion tenaciously persists that where dioxygen (O<sub>2</sub>) is absent, DOM turnover is markedly slowed. In this Opinion Piece, we outline how diverse processes shape, transform and degrade DOM also in anoxic aquatic environments, and we focus here on inland waters as a particular case study. A suite of biogeochemical DOM functions that have received comparatively little attention may only be expressed in anoxic conditions, and may result in enhanced biogeochemical roles of these deoxygenated habitats on a network scale.</p>
Vertical Stratification of Peat Pore Water Dissolved Organic Matter composition in a peat bog in Northern Minnesota
<p>Currently peatlands represent a sink for carbon dioxide and source of atmospheric methane. It is unclear the impact that climate change will have on these systems. As such, a large-scale ecosystem manipulation (Spruce and Peatland Responses under Climatic and Environmental Change, SPRUCE) has been implemented at a peat bog (S1 bog) at the Marcel Experimental Forest (MEF), Minnesota, USA, to determine the effects of climatic forcing on ecosystem processes in northern peatlands. In this study, we aimed to: (i) identify peat pore water dissolved organic matter (DOM) composition as a function of depth before the initiation of the manipulation experiment and (ii) contribute to the knowledge of DOM chemistry and decomposition processes at the S1 bog. We found strong vertical resolution in DOM molecular composition and optical properties within the peat column at the S1 bog. Surface samples were dominated by inputs from surface vegetation. The mid-depth, 30-75cm was an area of high reactivity and increased microbial activity with diagenetic formation of many unique compounds such as polycyclic aromatic compounds (PAC) that contain both nitrogen and sulfur heteroatoms. These compounds were previously observed in coal-derived products and were assumed to be responsible for coal’s biological activity. Biological processes taking place at the intermediate depth zone of the peat profile at the S1 bog are assumed to be responsible for the formation of these heteroatomic PAC in our system. Conversely, these compounds might stem from black carbon and nitrogen from potential fires that occurred at the site in the past. Surface and deep DOM exhibited more similar characteristics suggesting the possibility of lateral and vertical advection of pore water from the surface to the deeper horizons. Our results highlight the importance of understanding processes that control DOM production and transformation with depth.</p> <p>Included: FTICR MS data and optical properties data</p>
Deciphering the impacts of main inflowing rivers on dissolved organic matter in Lake Daye using isotopes, optical spectroscopy, and FT-ICR-MS during non-flood season
<p>The uploaded data include water quality data, isotopes, DOM fluorescence index and FT ICR MS data of Daye Lake and its inflowing rivers.</p>
Water residence time and temperature drive the dynamics of dissolved organic matter in Alpine lakes in the Tibetan Plateau
<p>This dataset contains data from an investigation into the drivers on the spatial distribution of dissolved organic matter in alpine lakes in the Tibetan Plateau described in the paper: "Du Y., Chen F., Xiao K., Song C., He H., Zhang Q., Zhou Y., Jang K.-S., Zhang Y., Xing P., Liu Z., Zhang Y. and Lu Y. 2021. Water Residence Time and Temperature Drive the Dynamics of Dissolved Organic Matter in Alpine Lakes in the Tibetan Plateau, Global Biogeochemical Cycles 35(11), e2020GB006908". </p> <p>The primary objectives of the study were to: (i) evaluate the spatial variability of the amount, source, and composition of DOM from alpine lakes on the Tibetan Plateau, and (ii) determine the primary environmental controls and mechanisms responsible for the spatial variability.</p> <p>At first, we collected 35 water samples from 25 lakes distributed in the northwestern (33.1–33.6 °N, 78.9–80.4°E), central (30.5–31.9°N, 88.3–89.4°E) and southeastern (28.6–29.1 °N, 90.4–90.8°E) regions of the plateau. We characterized water chemistry and DOM composition in these lakes by measuring dissolved organic carbon (DOC) and DOM optical properties (i.e., absorbance and fluorescence spectroscopy). DOM compositions of three lakes of different water residence times (WRTs) were further analyzed using ultrahigh-resolution molecular techniques (i.e., electrospray ionization-assisted Fourier transform-ion cyclotron resonance mass spectrometry, ESI FT-ICR MS).</p> <p>Secondly, we collected the indices of climatic characteristics (i.e., mean annual temperature, mean annual precipitation, and mean annual irradiation period) and lake hydrology (i.e., catchment area, lake area, mean depth and water residence time) of the sampling lakes.</p> <p>Thirdly, we performed statistical analysis to determine the primary environmental control and predictors of the spatial variability in lacustrine DOM on the Tibetan Plateau. The statistical analyses included non-parametric Kruskal-Wallis with Dunn post hoc test, spearman's bivariate correlations, redundancy analysis, and linear regression models.</p> <p>Main results of this work are that (1) DOM in Tibetan alpine lakes is mediated more by in-lake production and transformations than by catchment inputs; (2) water residence time (WRT) of lakes and mean annual temperature (MAT) accounted for 30–59% of the spatial variance of the abundance of chromophoric DOM (CDOM) and fluorescent DOM (FDOM); (3) Alpine lakes on the Tibetan Plateau would play a more active and prominent role in regional and global carbon cycles in the face of climate change.</p>
Nocturnal dissolved organic matter release by turf algae and its role in the microbialization of reefs
<p>The increased release of dissolved organic matter (DOM) by algae has been associated with the fast but inefficient growth of opportunistic microbial pathogens and the ongoing degradation of coral reefs. Turf algae (consortia of micro- and macroalgae commonly including cyanobacteria) dominate benthic communities on many reefs worldwide. Opposite to other reef algae that predominantly release DOM during the day, turf algae containing cyanobacteria may additionally release large amounts of DOM at night. However, this night-DOM release and its potential contribution to the microbialization of reefs remains to be investigated.</p> <p>We first tested the occurrence of hypoxic conditions at the turf algae-water interface, as a lack of oxygen will facilitate the production and release of fermentation intermediates as night-time DOM. Secondly, the dissolved organic carbon (DOC) release by turf algae was quantified during day- and nighttime, and the quality of day and night exudates as food for bacterioplankton was tested. Finally, DOC release rates of turf algae were combined with estimates of DOC release based on benthic community composition in 1973 and 2013 to explore how changes in benthic community composition affected the contribution of night-DOC to the reef-wide DOC production.</p> <p>A rapid shift from supersaturated to hypoxic conditions at the turf algae-water interface occurred immediately after the onset of darkness, resulting in night-DOC release rates similar to those during daytime. Bioassays revealed major differences in the quality between day and night exudates: Night-DOC was utilized by bacterioplankton two times faster than day-DOC, but yielded a four-times lower growth efficiency. Changes in benthic community composition were estimated to have resulted in a doubling of DOC release since 1973, due to an increasing abundance of benthic cyanobacterial mats (BCMs), with night-DOC release by BCMs and turf algae accounting for >50 % of the total release over a diurnal cycle. </p> <p>Night-DOC released by BCMs and turf algae is likely an important driver in the microbialization of reefs by stimulating microbial respiration at the expense of energy and nutrient transfer to higher trophic levels via the microbial loop and thereby threatens the productivity and biodiversity of these unique ecosystems.</p>
Molecular Level Estimation of the Composition and Fate of Dissolved Organic Matter in Fire-Impacted Temperate and Subtropical Peatlands
<p>Calculated values of optical (UV-visible and fluorescence) spectroscopy parameters and molecular formulas determined by ultrahigh resolution mass spectrometry for dissolved organic matter (DOM) in porewaters from a temperate and sub-tropical peatland. These data were used to generate figures in a manuscript submitted to the Journal of Geophysical Research - Biogeosciences.</p>
Data for: Transformation of dissolved organic matter by two Indo-Pacific sponges
<p class="MsoNormal">Dissolved organic matter (DOM) is the largest organic carbon reservoir in the ocean and an integral component of biogeochemical cycles. The role of free-living microbes in DOM transformation has been studied thoroughly, whereas little attention has been directed towards the influence of benthic organisms. Sponges are efficient filter feeders and common inhabitants of many benthic communities circumglobally. In our study, we investigated how two tropical coral reef sponges shape marine DOM. We compared bacterial abundance, inorganic and organic nutrients in off reef, sponge inhalant, and sponge exhalant water of <em>Melophlus sarasinorum</em> and <em>Rhabdastrella globostellata</em>. DOM and bacterial cells were taken up, and dissolved inorganic nitrogen was released by the two Indo-Pacific sponges. Both sponge species utilized a common set of 142 of a total of 3040 compounds detected in DOM on a molecular formula level via ultrahigh-resolution mass spectrometry. In addition, species-specific uptake was observed, likely due to differences in their associated microbial communities. Overall, the sponges removed presumably semi-labile and semi-refractory compounds from the water column, thereby competing with pelagic bacteria. Within minutes, sponge holobionts altered the molecular composition of surface water DOM (inhalant) into a composition similar to deep-sea DOM (exhalent). The apparent radiocarbon age of DOM increased consistently from off reef and inhalant to exhalant by about 900 <sup>14</sup>C years for <em>M. sarasinorum</em>. In the pelagic, similar transformations require decades to centuries. Our results stress the dependence of DOM lability definition on the respective environment and illustrate that sponges are hotspots of DOM transformation in the ocean.</p> <p class="MsoNormal">Here, we provide the data from this study. The four tables contain the metadata, bulk measurements of dissolved organic carbon (DOC), total dissolved nitrogen, NOx, and radiocarbon dating of DOC, bacterioplankton abundances measured with a flow cytometer, and relative peak intensities of molecular formulas obtained through Fourier-transform ion cyclotron resonance mass spectrometry and the online tool ICBM-OCEAN.</p>
Phytoplankton assemblage shifts with dissolved organic matter properties: a functional perspective for sentinel lakes
<p>1. Climate change is altering both dissolved organic matter (DOM) properties and phytoplankton dynamics in lakes. High-altitude lakes are good sentinels of global change. However, their value as sentinels depends on how well we understand their functioning. This study analyzed physical, chemical, and biological data during three pre-defined periods running from complete ice-cover right to the end of the ice-free season, in a high-altitude oligotrophic lake. A functional approach was used to assess how relationships between DOM and the planktonic community vary over time.</p> <p>2. Phytoplankton functional change was found to occur with shifts in dissolved organic matter. During the ice-influenced period, from February to the end of the thaw, the phytoplankton community was dominated by small autotrophs and mixotrophic flagellates and DOM from sediment and terrestrial origin dominated the DOM pool of the lake. Phytoplankton diversity and richness increased during the post-snowmelt overturn period, when terrestrial DOM dominated the DOM pool. Finally, large siliceous autotrophs, competitive under low nitrogen concentrations and high temperature, dominated almost exclusively during the late summer period. Increased phytoplankton biomass meant that phytoplankton-derived DOM was dominant during the late summer period.</p> <p>3. These phenological changes in the phytoplankton community resulted in functional shifts at the base of the food web. Based on the relationships between the variables in the study, it can be deduced that the nature of the relationship between phytoplankton and bacteria progressively shifted from strong top-down control exerted by phytoplankton over bacteria toward predominantly bottom-up control at the end of the ice-free season.</p> <p>4. Synthesis. Using a field survey starting from complete ice-cover and lasting right to the end of the ice-free season in a sentinel lake, we show seasonal shifts in the link between dissolved organic matter properties and plankton community traits. Differences in environmental conditions and DOM origin explained variation in phytoplankton community structure and function, pointing to seasonal shifts in microbial food web interactions. Our research suggests that, under climate change, the balance between mixotrophy and autotrophy and the control exerted by phytoplankton over bacterioplankton will change in oligotrophic high-altitude lakes with large, vegetated catchments. </p>
Oxygen availability regulates the quality of soil dissolved organic matter by mediating microbial metabolism and iron oxidation
<p>Dissolved organic matter (DOM) plays a vital role in biogeochemical processes and in determining the responses of soil organic matter (SOM) to global change. Although the quantity of soil DOM has been inventoried across diverse spatio-temporal scales, the underlying mechanisms accounting for variability in DOM dynamics remain unclear, especially in upland ecosystems. Here, a gradient of SOM storage across twelve croplands in northeast China was used to understand links between DOM dynamics, microbial metabolism, and abiotic conditions. We assessed the composition, biodegradability and key biodegradable components of DOM. In addition, SOM and mineral-associated organic matter (MAOM) composition, soil enzyme activities, oxygen availability, soil texture, iron (Fe), Fe-bound organic matter and nutrient concentrations were quantified to clarify the drivers of DOM quality (composition and biodegradability). The proportion of biodegradable DOM increased exponentially with decreasing initial DOM concentration due to larger fractions of depolymerized DOM that was rich in small-molecular phenols and proteinaceous components. Unexpectedly, the composition of DOM was decoupled from that of SOM or MAOM, but significantly related to enzymatic properties. These results indicate that microbial metabolism exhibited a dominant role in DOM generation. As DOM concentration declined, increased soil oxygen availability regulated DOM composition and enhanced its biodegradability mainly through mediating microbial metabolism and Fe oxidation. The oxygen-induced oxidation of Fe(II) to Fe(III) removed complex DOM compounds with large molecular weight. Moreover, increased oxygen availability stimulated oxidase-catalyzed depolymerization of aromatic substances, and promoted production of protein-like DOM components due to lower enzymatic C/N acquisition ratio. As global changes in temperature and moisture will have large impacts on soil oxygen availability, the role of oxygen in regulating DOM dynamics highlights the importance of integrating soil oxygen supply with microbial metabolism and Fe redox status to improve model predictions of soil carbon under climate change.</p>
Data set for spectral and FT-ICR-MS analysis of dissolved organic matter in sediments of the New Britain Trench axis station
<p> </p> <p>数据集包括原始数据和简单处理所需的数据、图表和文章。</p> <p> </p> <p>表格包含样品数量、收集深度、样品名称以及相应光谱和 FT-ICR-MS 数据的名称。</p> <p> </p> <p>例如,光谱数据包括荧光相对强度、荧光指数,而 FT-ICR-MS 光谱数据包括化合物类型相对强度以及化学式、元素比、等效双键数 (DBE) 和每个样品的芳香指数 (AImod)。</p> <p> </p>
Dataset for Quantifying Dissolved Organic Matter Scaling Relationships and Trends in Watersheds
<p>This updated dataset explores the relationship between species richness (i.e., compound metrics) and watershed characteristics using various environmental datasets and data-driven methods. The repository includes data and associated links, notes on curating the data (e.g., graphics, slides), and data analysis scripts to understand species-watershed relationships.</p>
Dissolved organic matter degradation in the freshwater portion of the St. Lawrence River (2019)
<p>During the summer of 2019, we sampled a 207 km transect of the St. Lawrence, a large temperate river in which flows two strikingly distinct water masses in terms of origin as well as chemical and physical properties. We then assessed dissolved organic matter bio- and photo-reactivity at 40 sites along the river through a series of standardized incubations and exposure to simulated sunlight, and then used water irradiance and morphometric profiles to estimate in situ areal rates of processing across the river. The main variables presented are DOC concentrations and DOM composition data generated by a PARAFAC model. In addition, this dataset also includes results for a suite of standard physical and chemical variables as well as light attenuation profiles obtained with a profiling radiometer.</p>
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
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.