Find research datasets worth reusing

openCC (other)Dec 2022View details →

Porewater nutrient concentrations from control plots at a Spartina patens-dominated salt marsh at Law's Point, Rowley River, Plum Island Ecosystem LTER, MA.

Porewater samples from a Spartina patens-dominated salt marsh on the Rowley River in the Plum Island Ecosystem (PIE) LTER site were analyzed for salinity as well as ammonium, phosphate, sulfide and chloride concentrations.

openCC (other)Dec 2022View details →

Porewater nutrient concentrations from control plots at a Typha sp. dominated brackish marsh on the Upper Parker River, Plum Island Ecosystem LTER, MA.

Porewater samples from a Typha sp.-dominated brackish marsh on the Upper Parker River in the Plum Island Ecosystem (PIE) LTER site were analyzed for salinity as well as ammonium, phosphate, sulfide and chloride concentrations.

openCC (other)Jan 2021View details →

PIE LTER, geographic information for the transects that were set up to study the impacts on the salt marsh vegetation of nutrient enrichment from the Ipswich Wastewater Treatment Facility on Greenwood Creek in Ipswich, MA.

A description of the transects that were set up to study the impacts on the salt marsh vegetation of nutrient enrichment from the Ipswich Wastewater Treatment Facility on Greenwood Creek in Ipswich, MA, USA. The marsh around Clubhead Creek, Rolwey, MA, USA was used as a reference.

openCC (other)Jan 2020View details →

Presence or absence of marsh plant species along transects through a nutrient enriched marsh receiving wastewater effluent and a reference (unenriched) marsh, Plum Island Ecosystems LTER.

Presence or absence of marsh plant species along transects through a nutrient enriched marsh receiving wastewater effluent and a reference (unenriched) marsh. Nutrient enrichment comes from the Ipswich Wastewater Treatment Facility on Greenwood Creek in Ipswich. The marsh around Clubhead Creek, Rowley, MA was used as a reference.

openCC (other)Oct 2022View details →

SBC LTER: Nutrient concentrations and algae cover in the Ventura River catchment, California, 2008

Results from these data were reported in: Klose, K., Cooper, S. D., Leydecker, A. D. and Kreitler, J. 2012. Relationships among catchment land use and concentrations of nutrients, algae, and dissolved oxygen in a southern California river. Freshwater Science, 2012, 31(3):908-927 doi: 10.1899/11-155.1 Data not reported here: Chlorophyll-a, physicochemical and land use parameters (e.g., land-use type, water depth, substratum size, % open canopy, and water velocity) were used in the paper's analysis and so were also collected, but are not reported here. Nutrient diffusing substrata (NDS) were deployed at 12 sites to assess the nutrient(s) limiting algal growth; these data are also not reported here. Macroalgal cover and stream nutrients are reported during spring and summer 2008 at 15 stream and estuarine sites in the Ventura River catchment in southern California, USA. Data were collected within a mosaic of undeveloped, agricultural, and urban areas to examine relationships among land use, nutrients, algae, and dissolved oxygen (see paper, linked below). This dataset reports major dissolved nutrients (phosphate, nitrate, ammonium) and total dissolved nitrogen and phosphorus, from May to September 2008, and percent cover of macroalgae (benthic and floating) at the same sites at the beginning and end of this period.

opencc-by-4.0Dec 2019View details →

Nutrient, phytoplankton and zooplankton data, 20 year surface biomass from Darwin

Nutrient, phytoplankton and zooplankton data to accompany Sonnewald et al. : Elucidating Ecological Complexity: Unsupervised Learning determines global marine eco-provinces. Note: We discard the areas (gridcells) with biomass <10-4

opencc-by-4.0Nov 2020View details →

Nutritional value of edible insects: special emphasis on their micro and macro nutrients

The data set was prepared by collecting the existed information regarding the nutritional value of insects from relevant published papers. For each column, variables or descriptors were expressed in the same unit. The information from each insect in a raw were followed by a reference of the paper which the information is taken from with the DOI which makes it easily accessible for the readers.

opencc-by-4.0Jun 2022View details →

River flows and nutrient discharges to the Atlantic ocean basin

This dataset includes i) River flows and ii) nutrient discharges to the Atlantic ocean basin: River flow data are a subset of the WaterGAP 2.2d model (Monthly data on a 0.5° x 0.5° grid between 90°N and 60°S. 1901–2016) (Müller Schmied et al. 2020) The original watergap2.2d data is provided in netcdf format. Our postprocessing includes the selection of the coastal cells and the extraction of the monthly values in these cells. The resulting dataset is provided as a shapefile (Global_YearMonthly_River_flow_watermap22_coast.shp), including Date, latitude and longitude of the coastal cell’s centroids and the discharge values (m3s-1). Watergap2.2d outputs offers a very good spatio-temporal extent and resolution, and according to the Müller Schmied et al. 2020, the validation results for streamflow (or discharges values) are reasonably satisfactory, although there is some spatial variability in the performance results. Moreover, the recently published “Global Freshwater Fluxes into the World's Oceans (GRDC, 2021)” product and paper, uses the yearly outcomes of this model, which has also supported our selection. River nutrient discharges are a subset of observations from the “Global River Water Quality Archive”. (<a href="https://essd.copernicus.org/preprints/essd-2021-51/">Virro et al, 2021</a>), that among the publicly available and downloadable datasets, gathers the highest number of observations as includes data from different international and national databases. The GRQA data is provided as csv files (one file for each nutrient). These files have been processed to subset only observations at stations near the coastline. To do this a intersection between station locations and a buffer of 0.2 degrees around the coastline has been made. For each nutrient, a shapefile with the subsetted observations is provided. All shapefiles provided are accompanied by a “.qmd” file that includes metadata information in QGIS 3 format.

opencc-by-4.0Aug 2022View details →

Nutritional table to estimate the availability of nutrients in households from the Mexican National Survey of Household Income and Expenditures (ENIGH) 2008-2020

The database contains the amount of six nutrients (calories, proteins, vitamin A and C, iron, and zinc) per 100 grams/mililiters for each of the food categories used in the Mexican National Survey of Household Income and Expenditures 2008-2020.

opencc-by-4.0May 2024View details →

Fine-scale anthropogenic nutrient input data for 8 watersheds along the Saint Lawrence River (1981, 2021)

We quantified Net Anthropogenic Nitrogen and Phosphorus Inputs (NANI-NAPI) at two scales (the finest one, the municipality, and a coarser one, the county) for all municipalities and counties of 8 watersheds in Québec, Canada, for 1981 and 2021. The datasets here report 1) watershed NANI and NAPI values accounted from both scales for 1981 and 2021, 2) municipality-scale NANI values for each municipality in the 8 watersheds, and 3) certain components of the municipality-scale NANI for all municipalities in the Yamaska watershed.

opencc-by-4.0Aug 2024View details →

Prey nutrient content is associated with the trophic interactions of spiders and their prey selection under field conditions

<h2>Materials and Methods</h2> <h2><a name="_Toc58843581"></a>Fieldwork</h2> <a name="_Hlk173879015"></a><a name="_Hlk56335325"></a>Money spiders (Araneae: Linyphiidae) and wolf spiders (Araneae: Lycosidae), the two most abundant spider groups in this study, were visually located along transects in two adjacent barley fields at Burdons Farm, Wenvoe in South Wales (51°26'24.8"N, 3°16'17.9"W) and collected from occupied webs and the ground in daylight hours between April and September 2018. Each belt transect was adjacent to a randomly selected crop tramline and were distributed across the entire field and ran its length. The areas searched were 4 m2 quadrats at least 10 m apart and all observed linyphiids and lycosids were collected. The 300 spiders taken forward for molecular dietary analysis in this study were taken from 64 randomly selected locations along the aforementioned transects. Following collection of spiders, 4 m2 of ground and crop stems was suction sampled <a name="_Hlk173879230"></a>in each of these 64 sampling locations for approximately 30 seconds, with the collected material emptied into a bag and any organisms immediately killed with ethyl-acetate. Suction sampling used a ‘G-vac’ modified garden leaf-blower. All material was later frozen at -20 ºC for storage before sorting in the lab. Sticky trap data were also collected, but were not used in this study as suction sampling was found to represent the interactions of spiders more closely (Cuff, Tercel et al., 2024). These invertebrates were collected for background population densities and macronutrient analysis, not for molecular dietary analysis. All invertebrates were identified to family level using morphological keys: Araneae (Roberts, 1993), Diptera (Ball, 2008), Coleoptera (Duff, 2012), Hymenoptera (Goulet & Huber, 1993), Hemiptera (Unwin, 2001), Collembola (Dallimore & Shaw, 2013) and Chilopoda (Barber, 2008). Further identifications were not carried out due to the inability to identify some of the invertebrate groups further via the associated metabarcoding-derived dietary data (e.g., Sciaridae), and the difficulty associated with finer taxonomic resolution of many damaged or immature specimens. The only taxa not identified to family level were springtails of the superfamily Sminthuroidea (Sminthuridae and Bourletiellidae, which were often indistinguishable following suction sampling and preservation due to the fine features necessary to differentiate them) which were left at super-family, mites (many of which were immature or in poor condition, or lacked appropriate taxonomic keys) which were identified to order level and wasps of the superfamily Ichneumonoidea (which were identified no further due to obscurity of wing venation due to damage); in these cases, these taxonomic assignments were pooled to family-level for later analyses. <a name="_Hlk96098198"></a> Extraction, amplification and sequencing of DNA from the individually collected spiders, and its bioinformatic analysis are described by Cuff, Tercel, et al. (2022) and Drake et al. (2022) and are also detailed in Supplementary Information 1. In short, dietary metabarcoding was carried out using two primer pairs, one excluding predator DNA and the other amplifying it, to overcome the problem of overamplification of predator DNA (Cuff, Kitson, et al., 2023). Amplified DNA was sequenced on an Illumina MiSeq V3 2x300 cartridge, and resultant data screened for false positives following bioinformatic processing via minimum sequence copy thresholds applied according to read counts in controls and control DNA counts present in samples (Drake et al., 2022).   <h2><a name="_Toc58843582"></a>Macronutrient determination</h2> Specimens were taken for macronutrient analysis from the same suction samples collected for invertebrate community identification. Representatives were taken from each family found in the community samples for which specimens were intact, in visually good condition and relatively clean of soil and other contaminants. If specimens were from a relatively uncommon family but unclean, soil and other surface contaminants were physically removed, and the specimen then momentarily dipped in water to remove remaining surface contaminants without greatly dislodging surface lipids. <a name="_Hlk173879439"></a>Macronutrient contents were determined following the MEDI protocol (Cuff, Wilder, et al., 2021; Cuff & Wilder, 2021) with minor alterations to account for the small size of most of the invertebrates processed (Cuff, 2021) and with the omission of exoskeletal measurement. During extraction, half volumes (i.e., 500 µl) of solvents were used. For the lipid assays, 15 µl of sulfuric acid was added for a 15 min incubation, followed by only 200 µl of vanillin reagent to increase the concentration and development of analyte for more accurate readings from smaller invertebrates. Lipid and protein standard series were diluted to 50% of the concentration specified in the original protocol (i.e., 0-1 mg ml-1). Carbohydrate assays used 140 µl of reagent with 30 min incubation at 92 °C followed by a further 30 min at room temperature. Carbohydrate standard series were diluted to 1 % of the concentrations specified in the original protocol (i.e., 0-0.02 mg ml-1) to ensure signals overcame the higher limit of detection relative to typical invertebrate carbohydrate content.  <a name="_Hlk173926384"></a>Mean macronutrient contents were calculated for each taxon and converted into proportions of the total macronutrient mass detected for each taxon (i.e., macronutrient values are given as % total macronutrient mass). Macronutrient data were allocated to each prey taxon. Where macronutrient data were not available for a family (due to no or very few individuals being present in vacuum samples), average data for that order were used.   <h2><a name="_Toc58843584"></a>Statistical analysis</h2> We have assessed nutritional dynamics through a combination of multivariate models and network-based null modelling. All analyses were conducted in R v.4.0.3 (R Core Team, 2020). To compare the nutritional balance of prey consumed by different spider groups, the mean nutrient contents of all prey consumed by each spider were calculated and compared using a multivariate linear model (MLM) via the ‘manylm’ command in mvabund (Wang et al., 2012). Differences were visualised using ternary plots via ‘ggtern’ (Hamilton & Ferry, 2018) and ‘ggplot2’ (Wickham, 2016). How spider diets differ between spider groups (genera, sexes and life stages) and how this is related to the nutrient contents of those prey was assessed using a fourth corner analysis (FCA). Fourth corner analyses assess how the relationship between the presence of species (or consumed resources in a dietary context) and environmental (or consumer) traits relates to species traits (or prey traits; (Brown et al., 2014). First, overall relationships between dietary composition and spider traits were assessed using a multivariate generalized linear model (MGLM) via the ‘manyglm’ command in the ‘mvabund’ package (Wang et al., 2012) with a binomial error family. These relationships were identified via likelihood ratio test using the ‘anova.manyglm’ command. A fourth corner analysis was performed using the ‘trait.glm’ command in mvabund with the ‘R’, ‘Q’ and ‘L’ matrices representing dietary detections of prey families in each spider, spider trait data (genus (a proxy for many unmeasured traits such as morphology), sex and life stage) and prey proportional macronutrient contents, respectively, with a binomial error family. Log-likelihood ratio tests were carried out using the ‘anova.traitglm’ command with 999 bootstrap iterations and Monte-Carlo resampling. The model was repeated with the least absolute shrinkage and selection operator (LASSO) applied, which is a method of penalised likelihood that reduces model terms to zero if they lack predictive power (i.e., do not reduce the Bayesian information criterion), thereby selecting models with greater predictive accuracy (Brown et al., 2014). To assess whether the proportions of mean prey nutrient contents deviated from those expected based on random foraging, null diets were simulated using network-based null models in ‘econullnetr’ (Vaughan et al., 2018) with the ‘generate_null_net’ command. The ‘generate_null_net_indiv’ function (Cuff, Windsor, et al., 2023) was used to generate null diets for each individual spider based on local prey communities determined via suction sampling. The mean prey macronutrient contents of spider diets were compared between expected and observed diets using a MLM in mvabund, and significant differences visually represented through a ternary plot using ggtern. To ascertain how differences between spider groups factor into any deviations from random nutrient intake, the difference in macronutrient proportions between expected and observed spider diets was also compared between spider genera, life stages and sexes in a MLM. To relate prey preferences of different spider groups to different prey and their macronutrient contents, observed interactions were compared against null models based on prey abundances using the ‘generate_null_net’ command in econullnetr (as above) for each of the spider groups and, separately, for individual spiders. Ternary plots representing preference effect sizes for prey of varying macronutrient contents were generated using the group-specific data via ‘ggtern’. The observed interactions of individual spiders were divided by the interactions expected in the null model; infinite values (i.e., zero interactions expected and more than zero observed) and NAs (e.g., no interactions expected nor observed) were converted to zero. These observed/expected values were compared between spider groups via permutational multivariate analysis of variance (PerMANOVA). These results were visualised by plotting mean standardised effect sizes for each spider genus, sex and life stage from the prey choice null models via ggplot2.

opencc-by-4.0Jul 2024View details →

Data accompanying the manuscript "Biogeochemical cycling of trace elements and nutrients in ferruginous waters – constraints from a deep oligotrophic ancient lake", published in Limnology and Oceanography (doi: 10.1002/lno.12687)

CTD and geochemical data accompanying the publication: Biogeochemical cycling of trace elements and nutrients in ferruginous waters – constraints from a deep oligotrophic ancient lake in Limnology & Oceanography (doi: 10.1002/lno.12687).

opencc-by-4.0Oct 2022View details →

Nutrient controls on carbohydrate and lignin decomposition in beech litter

Raw data for Nutrient controls on carbohydrate and lignin decomposition in beech litter Lukas Kohl, Wolfgang Wanek, Katharina Keiblinger, Ieda Hämmerle, Lucia Fuchslueger, Thomas Schneider, Katharina Riedel, Leo Eberl, Sophie Zechmeister-Boltenstern, Andreas Richter https://doi.org/10.1016/j.geoderma.2022.116276

opencc-by-3.0-usApr 2022View details →

Metal and nutrient content from submerged aquatic macrophytes collected from Southern Coeur d'Alene Lake, Idaho (USA) in August 2018.

This repository contains data and R scripts used to produce the analyses reported in the manuscript listed below. See the Readme.txt and metadata.csv files for more explanation. The .R file can be used to unbundle the .tar.gz file via the packrat library. The data and script files are contained in the .tar.gz file.  Scofield, B.D., Fields, S.F. & Chess, D.W. Aquatic macrophytes show distinct spatial trends in contaminant metal and nutrient concentrations in Coeur d’Alene Lake, USA. Environ Sci Pollut Res (2023). <a href="https://doi.org/10.1007/s11356-023-27211-x">https://doi.org/10.1007/s11356-023-27211-x</a>

opencc-by-4.0May 2023View details →

MainstreamBIO_Collection of Nutrient Recycling Practices_Dataset1_2023.06.01_v1

The dataset contains a developed set of Nutrient recycling practices (NRPs), which refer to the processes of recovering nutrients from organic waste and wastewater and returning them to agricultural land as recycled nutrient fertilizers (RNFs). In the processes, nutrients from nutrient-rich materials created during production and consumption are reused sustainably and safely as recycled nutrients. NRP is a sustainable practice that helps reduce waste and pollution while improving soil health and increasing crop yields. NRP also reduces the use of non-renewable natural resources and can reduce nutrient emissions into the environment. Most of the selected practices are widely used mainly in agriculture, but also in forestry. A large group of them is well recognized and accepted by stakeholders, but some of them are associated with a specific location where appropriate biomass and technology is available. A certain group of practices presents an innovative approach to the problem of nutrient recycling and these practices are not widely known and implemented.

opencc-by-4.0Sep 2023View details →

Dataset Changes in structure and assembly of a species-rich soil natural community with contrasting nutrient availability upon establishment of a plant-beneficial Pseudomonas in the wheat rhizosphere

This dataset is related to the paper "Changes in structure and assembly of a species-rich soil natural community with contrasting nutrient availability upon establishment of a plant-beneficial Pseudomonas in the wheat rhizosphere" (Garrido-Sanz et al., 2023, doi: 10.1186/s40168-023-01660-5) and contains the data obtained from bacterial competition asays and plant-growth measurements. Sequencing data used in this study has been deposited in the NCBI Sequence Read Archive (RSA) under the BioProject accession number <a href="https://www.ncbi.nlm.nih.gov/bioproject/PRJNA948847">PRJNA948847</a>. The R script used to analyze the data generated in the paper is available at <a href="https://github.com/dgarrs/Pprotegens_proliferation_NatComs">GitHub </a>and <a href="https://doi.org/10.5281/zenodo.8322086">Zenodo</a>.

openCC (other)Dec 2021View details →

Data from: Nutrient identity modifies the destabilizing effects of eutrophication in grasslands

Nutrient enrichment can simultaneously increase and destabilize plant biomass production, with co-limitation by multiple nutrients potentially intensifying these effects. Here, we test how factorial additions of nitrogen (N), phosphorus (P), and potassium with essential nutrients (K+) affect the stability (mean/standard deviation) of aboveground biomass in 34 grasslands over seven years. Destabilization with fertilization was prevalent but was driven by single nutrients, not synergistic nutrient interactions. On average, N-based treatments increased mean biomass production by 21-51% but increased its standard deviation by 40-68% and so consistently reduced stability. Adding P increased interannual variability and reduced stability without altering mean biomass, while K+ had no general effects. Declines in stability were largest in the most nutrient-limited grasslands, or where nutrients reduced species richness or intensified species synchrony. We show that nutrients can differentially impact the stability of biomass production, with N and P in particular disproportionately increasing its interannual variability.

openCC (other)Jul 2017View details →

LAGOS-NE – Lake nutrient chemistry and geospatial data to measure spatial structure of ecosystem properties in a 17-state region of the U.S.

This dataset includes data for the lake water quality and geospatial variables that describe climate, hydrology, land use land cover, and lake characteristics that were used to study spatial structure in lake properties at the sub-continental scales (Lapierre et al. Quantifying spatial structure to improve understanding of the relationships between climate, landscape, and lake ecosystem properties, to be submitted to Ecology). All observations came from LAGOS-NELIMNO v. 1.054.1 and LAGOS-NEGEO v. 1.03 (LAke multi-scaled GeOSpatial and temporal database), an integrated database of lake ecosystems (Soranno et al. 2015). LAGOS-NE contains a complete census of lakes great than or equal to 4 ha with corresponding geospatial information for a 17-state region of the U.S., and a subset of the lakes has observational data on morphometry and chemistry. Approximately 54 different sources of data were compiled for the LAGOS-NELIMNO v. 1.054.1 dataset and were mostly generated by government agencies (state, federal, tribal) and universities. In this analysis, we compiled lake water quality data from the summer stratified season (June 15-September 15) in the most recent 10 years of data included in LAGOS-NELIMNO v. 1.054.1 (2002-2011). We report the median total nitrogen, total phosphorus, secchi depth, and chlorophyll values for each lake, which was calculated as the grand median of each yearly median value. We also include data for lake and landscape characteristics including variables related to lake morphometry, climate, hydrology, atmospheric deposition, land use and land cover.

openCC (other)May 2023View details →

Nutrient and stoichiometric time series measurements of decomposing coarse detritus in freshwaters worldwide from literature published between 1976-2020.

This data publication is a database of published estimates of nitrogen, phosphorus, and carbon content of decomposing coarse detritus though time in freshwater ecosystems worldwide. Nutrient content measurements are paired with estimates of detrital mass loss within decomposition time series (i.e., defined cohorts of decomposing material through time) with the goal of understanding patterns and drivers of temporal elemental dynamics of freshwater detritus. A systematic literature search for aquatic decomposition experiments conducted on 29 April 2020 generated 580 records (after trimming for duplicates and obvious relevance). From this literature pool, we extracted 810 decomposition time series and associated environmental data (e.g., temperature, water quality, detrital characteristics). Time series included in this synthesis include a range of detritus types (including terrestrial and aquatic plant material, carcasses, dung, and veneers), ecosystems (including streams, lakes, rivers, and wetlands), and settings (including natural ecosystems, field mesocosms, and laboratory microcosms).