Find research datasets worth reusing

openCC (other)Oct 2025View details →

City of Seattle, Seattle Public Utilities, Marbled Murrelet Habitat Enhancement Experiment 2010, Cedar River Municipal Watershed, King County, WA

This experimental project aims to enhance nesting habitat for the marbled murrelet through active habitat restoration in second-growth forests. The project was conducted within the Cedar River Municipal Watershed (CRMW) in Washington State, with the goal of determining if silvicultural treatments, such as creating canopy gaps and tree topping, can accelerate the growth of tree branches suitable for murrelet nesting. The project was implemented in 2010 at a 75-acre site within CRMW. Treatments included removing surrounding trees to increase canopy openness ("gaps"), topping trees to stimulate branch growth, and combining both methods. The site was specifically chosen for its proximity to the murrelet detections in nearby old growth stands, and site suitability in terms of tree age, species composition, and manageable topography. Data collected focused on tree growth and structure characteristics critical to murrelet nesting. A total of 48 trees received treatments, which were systematically compared to untreated controls to assess outcomes. The initial implementation confirmed logistical feasibility and budget adherence, with plans for monitoring and resampling established for the 2020s. If successful, these techniques could be replicated across various environmental conditions to expand viable nesting habitat for the marbled murrelet, directly supporting conservation objectives outlined in the CRMW Habitat Conservation Plan.

openCC0Sep 2024View details →

Distribution and habitat use of juvenile Feather River salmonids: 25 years and ongoing of snorkel surveys

Since 1999, the California Department of Water Resources (DWR) has conducted annual snorkel surveys to monitor juvenile salmon on the Feather River. The objective of this data collection effort is to determine the relative abundance and distribution of rearing juvenile Chinook salmon and steelhead. A secondary objective is to collect baseline data for future monitoring programs associated with habitat restoration projects. Crews survey units within 20 sampling sections on the high flow (HFC) and low flow channel (LFC) between January and September and collect information on species, fish size, substrate, cover, and habitat type. This dataset represents an extensive time series that could be used to identify habitat conditions where juvenile Chinook salmon and steelhead occur and how these conditions have changed over time. These data were published to support the Healthy Rivers and Landscapes Program.

openCC0Aug 2025View details →

Lake Superior NERR, Black Ash Habitat and Breeding Bird Survey, St. Louis River Estuary, WI, 2021

This dataset documented breeding bird communities within black ash forest stands along the shores of the St. Louis River Estuary in 2021. Breeding bird abundance was measured across multiple black ash stands that varied in canopy cover percent, understory density, and overall structural complexity. Data from this work supports the Lake Superior National Estuarine Research Reserve and collaborating partners in their ongoing ecological monitoring and habitat management in the St. Louis River Estuary. Data could be compiled with other regional breeding bird surveys or forestry data.

openCC BY-NCJan 2026View details →

Limno-STOICH a comprehensive database linking the elemental content of organisms with inland, aquatic habitats (2025-12-11)

The Limnology Stoichiometric Traits of Organisms In their Chemical Habitats (Limno-STOICH) contains >51,000 observations of organismal elemental content fro >3,100 rivers, lakes, wetlands, and other aquatic ecosystem sites on seven continents. The data are derived from 190+ sources including author contributed collections, novel NEON-related data, and published datasets. The database also includes extensive spatial and temporal metadata to link elemental stoichiometry with ecosystem type, trophic status, etc., and information on organismal data (body size, taxonomic classifications, stable isotope composition) and water physicochemical parameters, as available. Users are encouraged to read the associated manuscript (Corman et al.) for further information.

openCustomSep 2021View details →

May to July 2018 regions of interest (ROIs) of tidal marsh and tidal forest plant species to be used as ground reference data in habitat mapping

We collected field data from sites distributed in habitats along the salinity axis of the Altamaha River estuary and the Duplin River to be used as ground reference data for habitat mapping. Regions of interest (ROIs) for tidal marsh (salt, brackish, tidal fresh) and tidal fresh forest vegetation species were generated near ground control points (GCP) by digitizing vegetation areas in ArcGIS 10.4 based on field maps.These observations will be used to create habitat maps from aerial photographs of the Altamaha River estuary, GA taken following Hurricane Irma to better understand how the storm surge affected tidal vegetation and to examine any shifts in vegetation type.

openCC (other)Jul 2024View details →

Hubbard Brook Experimental Forest: Data in support of Territory sizes and patterns of habitat use by forest passerines over five decades: Ideal free or ideal despotic?, Zammarelli et al.

In this study, we analyzed territory sizes of seven migratory songbirds occupying a 10-hectare plot in the Hubbard Brook Experimental Forest, New Hampshire, USA over a 52-year period (1969-2021). All species varied in abundance over the duration of the study, some dramatically. Changes in territory sizes were inversely related to changes in abundance within the study plot despite differences in habitat preference, supporting the ideal free distribution. Territory sizes varied two-fold within a year across species. Results contribute to understanding how variation in territory size relates to 1) how habitat use changes with bird abundance, 2) the evolution of territory size, and 3) the role of territoriality in population dynamics. This dataset includes data, R code, and spatial files supporting this study. These data were gathered as part of the Hubbard Brook Ecosystem Study (HBES). The HBES is a collaborative effort at the Hubbard Brook Experimental Forest, which is operated and maintained by the USDA Forest Service, Northern Research Station. Associated datasets in the data catalog: Holmes, R.T., N.L. Rodenhouse, and M.T. Hallworth. 2022. Bird Abundances at the Hubbard Brook Experimental Forest (1969-present) and on three replicate plots (1986-2000) in the White Mountain National Forest ver 8. Environmental Data Initiative. https://doi.org/10.6073/pasta/6422a72893616ce9020086de5a5714cd (Accessed 2023-12-17). Zammarelli, M.B. and R.T. Holmes. 2023. Hubbard Brook Experimental Forest: 10-ha bird plot territory maps, 1969 - 2021 ver 1. Environmental Data Initiative. https://doi.org/10.6073/pasta/df93595ba8df60570d472f6e6f58839e (Accessed 2024-01-11).

Density and cover of winter annual plants in three harvester ant habitats at the Jornada Basin LTER site, 1987

This dataset contains plant cover and density data collected in three harvester ant (Pogonomyrmex rugosus) nesting habitats at the Jornada Basin LTER site in 1987. The purpose of this investigation was to answer three general questions: 1. How does the modification of soil properties and the ratios of resources (e.g., water-N) by ants alter species assemblages of winter annual plants at the edge of the ant nests? 2. How does the "spring cleaning", clipping, predation or herbivory by ants affect success of the winter annual plants at the edge of ant nests? 3. Are there significant differences in the floristic assemblage and belowground standing crop (root biomass) between the edge of ant nest and the surrounding unaffected soils? Variables included in the dataset include density and cover of all winter annual plants measured at regular intervals between January and May of 1987. Density is expressed as the number of individuals of a species per square meter. The cover of each species was calculated as the area covered by a perpendicular (not vertical) projection of its aerial parts onto the ground surface and expressed in covered area (cm squared) per square meter. This study was completed in 1987.

Soil nutrients sampled in and around harvester ant nests in three habitats at the Jornada Basin LTER site, 1987

This dataset contains soil nutrient content measurements from harvester ant nests and reference soils in three nesting habitats at the Jornada Basin LTER site in 1987. The purpose of this investigation was to answer three general questions: 1. How does the modification of soil properties and the ratios of resources (e.g., water-N) by ants alter species assemblages of winter annual plants at the edge of the ant nests? 2. How does the "spring cleaning", clipping, predation or herbivory by ants affect success of the winter annual plants at the edge of ant nests? 3. Are there significant differences in the floristic assemblage and belowground standing crop (root biomass) between the edge of ant nest and the surrounding unaffected soils? Five ant nests and paired (non-nest) reference soils were sampled in three study locations. This dataset contains chemical analyses for the soil samples collected for each of the three sites, including total nitrogen, (ammonium, nitrate), inorganic phosphorus, and exchangeable cations (K+, Na+, Ca2+ and Mg2+). Also included is below ground biomass from five ant nests for each of the three sites. This study was completed in 1987.

Soil organic matter content sampled in and around harvester ant nests in three habitats at the Jornada Basin LTER site, 1987

This dataset contains soil organic matter content measurements from harvester ant nests and reference soils in three nesting habitats at the Jornada Basin LTER site in 1987. The purpose of this investigation was to answer three general questions: 1. How does the modification of soil properties and the ratios of resources (e.g., water-N) by ants alter species assemblages of winter annual plants at the edge of the ant nests? 2. How does the "spring cleaning", clipping, predation or herbivory by ants affect success of the winter annual plants at the edge of ant nests? 3. Are there significant differences in the floristic assemblage and belowground standing crop (root biomass) between the edge of ant nest and the surrounding unaffected soils? Five ant nests and paired (non-nest) reference soils were sampled in three study locations. This dataset contains percent (%) organic matter content measured by mass-loss on combustion in a muffle furnace. This study was completed in 1987.

Gravimetric soil water content sampled in and around harvester ant nests in three habitats at the Jornada Basin LTER site, 1987

This dataset contains gravimetric soil water content measurements from harvester ant nests and reference soils in three nesting habitats at the Jornada Basin LTER site in 1987. The purpose of this investigation was to answer three general questions: 1. How does the modification of soil properties and the ratios of resources (e.g., water-N) by ants alter species assemblages of winter annual plants at the edge of the ant nests? 2. How does the "spring cleaning", clipping, predation or herbivory by ants affect success of the winter annual plants at the edge of ant nests? 3. Are there significant differences in the floristic assemblage and belowground standing crop (root biomass) between the edge of ant nest and the surrounding unaffected soils? Five ant nests and paired (non-nest) reference soils were sampled in three study locations on a monthly schedule from January to May 1987. This dataset contains percent (%) soil water content in these samples determined using the gravimetric method. This study was completed in 1987.

openCC (other)Mar 2025View details →

MCR LTER: Coral Reef: Growth-predation risk trade-offs constrain the local distribution of a thicket-forming staghorn coral to marginal reef habitats; Data for Ladd et al., 2025, Scientific Reports.

This dataset is in support of the manuscript: Growth-predation risk tradeoffs constrain the local distribution of a thicket-forming staghorn coral to marginal reef habitats. These data were collected to 1) document how Acropora pulchra is distributed around the island of Moorea, and 2) to better understand the ecological processes that shape that distribution. Data include 1) results from surveys around the island of Moorea documenting the presence and size distribution of Acropora pulchra thickets, 2) results from an experiment measuring the growth and survivorship of Acropora pulchra fragments in the presence and absence of fish predators at nearshore fringing reef sites and adjacent sites in the mid lagoon (n = 20 sites in total), and 3) ancillary data on nitrogen content and dN15 in the tissue of the macroalgae Turbinaria ornata, sediment accumulation, and corallivore biomass at the experimental sites. All data were collected in 2016 and 2017.

openCC (other)Jun 2022View details →

Larval transport pathways from three prominent sand lance habitats in the Gulf of Maine: otolith data, model data, and post-processed model data products

This dataset includes hatch and larval period for sand lance collected in 2019 and results from particle tracking runs of simulated sand lance larvae throughout the Northeast U.S. Shelf as part of Long-Term Ecological Research (NES-LTER). Release dates vary by region, corresponding to hatch and settlement dates of settling sand lance collected in 2019. Particles were depth-keeping throughout the upper 40 m to best replicate our understanding of the vertical distribution of sand lance larvae. Data were used to determine the average particle transport pathways from these sand lance habitats, including connectivity among the three hotspots, and spatial variability of connectivity within each hotspot. Further information can be found within the manuscript: Suca, J. J., Ji, R., Baumann, H., Pham, K., Silva, T. L., Wiley, D. N., Feng, Z., & Llopiz, J. K. (2022). Larval transport pathways from three prominent sand lance habitats in the Gulf of Maine. Fisheries Oceanography, 31( 3), 333-352. https://doi.org/10.1111/fog.12580

openCC (other)Feb 2023View details →

Survey of pond habitats and aquatic diversity of Madison, Wisconsin from May to Aug 2019 and 2020 Data Set

1) Urbanization may lead to changes in local richness (alpha diversity) or in community composition (beta diversity), although the direction of change can be challenging to predict. For instance, introduced species may offset the loss of native specialist taxa, leading to no change in alpha diversity in urban areas, but decreased beta diversity (i.e., more homogenous community structure). Alternatively, because urban areas can have low connectivity and high environmental heterogeneity between sites, they may support distinct communities from one another over small geographic distances. 2) Wetlands and ponds provide critical ecosystem services and support diverse communities, making them important systems in which to understand consequences of urbanization. To determine how urban development shapes pond community structure, we surveyed 68 ponds around Madison, Wisconsin, USA, which were classified as urban, greenspace, or rural based on surrounding land use. We evaluated the influence of local abiotic factors, presence of nonnative fishes, and landscape characteristics on alpha diversity of aquatic plants, macroinvertebrates, and vertebrates. We also analyzed whether surrounding land cover was associated with changes in community composition and/or the presence of specific taxa. 3) We found a 23% decrease in mean richness (alpha diversity) from rural to urban pond sites, and a 15% decrease in richness from rural to urban greenspace pond sites. Among landscape factors, observed pond richness was negatively correlated with adjacent developed land and mowed lawns, as well as greater distances to other waterbodies. Among pond level factors, habitat complexity was associated with increased richness, while the presence of invasive fish was associated with decreased richness. 4) Beta diversity was relatively high for all ponds due to turnover in composition between sites. Urban ponds supported more introduced species, lacked a subset of native species found in rural ponds,

openCustomAug 2022View details →

Vegetation Survey on the Virginia Barrier Islands - Species by habitat, 1974

This dataset contains observations by Cheryl McCaffrey during a 1974 mapping of the vegetation on the barrier islands of the Virginia Coast Reserve (McCaffrey, CA, Dueser RD. 1990. Preliminary Vascular Flora for the Virginia Barrier Islands. Va. J. Sci.. 41:259-281. http://www.vacadsci.org/vjsArchives/V41/41-4A/p259.pdf) It also includes additional observations by Terry Cook on Hog Island in 1989. Note, because the primary purpose of this survey was mapping, species are listed if they were observed, but no extraordinary efforts were made to list all species on a particular island. Thus, an observation indicates that a species was there, but lack of an observation does not necessarily mean that the species was absent.

opencc-by-4.0Oct 2020View details →

Habitatquarries: distribution of underground marl quarries in the Flemish Region and border areas, with the Flemish distribution of Natura 2000 habitat type 8310

General The data source is a geospatial collection of polygons that correspond with the presence or absence of the Natura 2000 Annex I habitat type 8310 (Caves not open to the public) in the Flemish Region (and border areas), Belgium.  The dataset contains all known, not collapsed, underground marl quarries in Flanders. Several of these quarries have their entrance in or run underground to the neighboring regions/countries. In general, different polygons represent different quarry units with their own internal climatic environment. Units that cross Flemish borders have been split into separate polygons. Exceptionally they may overlap if such units are situated above each other.  For safety reasons, the dataset only contains the contour of the quarries, and no details like floor plans or entrances. For admission to research the indoor climate, please contact the Quarries and Safety Department of the municipality of Riemst (<a href="https://www.riemst.be/nl/wonen/groeven">https://www.riemst.be/nl/wonen/groeven</a>; <a href="mailto:mike.lahaye@riemst.be">mike.lahaye@riemst.be</a>). The data source is produced, owned and administered by the Research Institute for Nature and Forest (INBO, a scientific institute of the Flemish government).   Technical aspects The data source is a GeoPackage that contains: <ul> <li> a spatial polygon layer ‘<code>habitatquarries</code>’ in the Belgian Lambert 72 coordinate reference system (EPSG-code <a href="https://epsg.io/31370">31370</a>); </li> <li> a non-spatial table ‘<code>extra_references</code>’ with site-specific bibliographic references. </li> </ul> The data source has been based on an unpublished shapefile used in De Saeger & Lahaye (2019) and on a BibTeX bibliography file. See R-code in the GitHub repository <a href="https://github.com/inbo/n2khab-preprocessing/tree/c0821eb/src/generate_habitatquarries">'n2khab-preprocessing' at commit c0821eb</a> for the creation. A reading function to return <code>habitatquarries</code> (this data source) in a standardized way into the R environment is provided by the R-package <a href="https://inbo.github.io/n2khab/">n2khab</a>. The attributes of the spatial polygon layer ‘<code>habitatquarries</code>’ are:  <ul> <li> <code>polygon_id</code>: a unique number per polygon;  </li> <li> <code>unit_id</code>: a unique number for each quarry unit. Quarry units consisting of several polygons (= partly outside the Flemish region) have a number greater than 100; </li> <li> <code>name</code>: name of the site; </li> <li> <code>habitattype</code>: either: <ul> <li> <code>8310</code> (habitat type 8310) </li> <li> <code>gh</code> (no Natura 2000 type) </li> <li> missing (outside of the Flemish Region); </li> </ul> </li> <li> <code>extra_reference</code>: extra reference with more information. </li> </ul> The non-spatial table <code>extra_references</code> provides the bibliography referred to by the spatial attribute <code>extra_reference</code>. It was derived from a BibTeX bibliography file by using the R-package <a href="https://docs.ropensci.org/bib2df">bib2df</a>, and it is back-convertible into one (see R-package <a href="https://inbo.github.io/n2khab/">n2khab</a>). The original bibliography file is also available in the above linked ‘n2khab-preprocessing’ repository.

opencc-by-4.0Jul 2024View details →

Global Mangrove Watch: Mangrove Habitat Mask

This is the habitat mask used to define the locations where mangroves can be found. It was used during the creation of the Global Mangrove Watch (GMW; <a href="https://www.globalmangrovewatch.org/?map=eyJiYXNlbWFwIjoibGlnaHQiLCJ2aWV3cG9ydCI6eyJsYXRpdHVkZSI6MjAsImxvbmdpdHVkZSI6MCwiem9vbSI6MiwiYmVhcmluZyI6MCwicGl0Y2giOjB9fQ%3D%3D">https://www.globalmangrovewatch.org</a>) extent products. Details of how this layer was originally produced are within Bunting et al., 2018 but it has subsequently been edited with further regions added as the GMW layers have been updated and improved. This is considered a living dataset which is edited, and new versions are produced when missing areas or improvements are identified. New versions will be uploaded here on zenodo. Relevant publications: Bunting, P., Rosenqvist, A., Lucas, R., Rebelo, L.-M., Hilarides, L., Thomas, N., Hardy, A., Itoh, T., Shimada, M., Finlayson, C., 2018. The Global Mangrove Watch—A New 2010 Global Baseline of Mangrove Extent. Remote Sens-basel 10, 1669. <a href="https://doi.org/10.3390/rs10101669" target="_blank" rel="noopener">https://doi.org/10.3390/rs10101669</a> Bunting, Pete, Rosenqvist, Ake, Lucas , Richard, Rebelo, Lisa-Maria, Hilarides, Lammert, Thomas, Nathan, Hardy, Andy, Itoh, Takuya, Shimada, Masanobu, & Finlayson, Max. (2019). Global Mangrove Watch (1996 - 2016) Version 2.0 (2.0) [Data set]. Zenodo. <a href="https://doi.org/10.5281/zenodo.5658808" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.5658808</a> Bunting, P., Rosenqvist, A., Hilarides, L., Lucas, R.M., Thomas, N., 2022. Global Mangrove Watch: Updated 2010 Mangrove Forest Extent (v2.5). Remote Sens-basel 14, 1034. <a href="https://doi.org/10.3390/rs14041034" target="_blank" rel="noopener">https://doi.org/10.3390/rs14041034</a> Pete Bunting, Ake Rosenqvist, Lammert Hilarides, Richard M. Lucas, & Nathan Thomas. (2022). Global Mangrove Watch 2010 Baseline (v2.5) (2.5) [Data set]. Zenodo. <a href="https://doi.org/10.5281/zenodo.5828339" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.5828339</a> Bunting, P., Rosenqvist, A., Hilarides, L., Lucas, R.M., Thomas, N., Tadono, T., Worthington, T.A., Spalding, M., Murray, N.J., Rebelo, L.-M., 2022. Global Mangrove Extent Change 1996–2020: Global Mangrove Watch Version 3.0. Remote Sens-basel 14, 3657. <a href="https://doi.org/10.3390/rs14153657" target="_blank" rel="noopener">https://doi.org/10.3390/rs14153657</a> Bunting, P., Rosenqvist, A., Hilarides, L., Lucas, R., Thomas, N., Tadono, T., Worthington, T., Spalding, M., Murray, N., Rebelo, L.-M., (2022) Global Mangrove Watch (1996 - 2020) Version 3.0 Dataset. <a href="https://doi.org/10.5281/zenodo.6894273" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.6894273</a>

opencc-by-4.0Oct 2023View details →

Dataset - Sex and Habitat effects on Verrallia aucta parasitism in Philaenus spumarius in Scotland

This csv file contains data for analysis on the sex and habitat effects on Verrallia aucta parasitism in Philaenus spumarius in Scotland. P. spumarius were sampled from three different habitat types within eleven sites across Scotland and molecularly screened for V. aucta parasitism using qPCR. Csv file contains total number of P. spumarius samples, total number of V. aucta positive P. spumarius samples and percent positive, per sex and habitat, within each site.

opencc-by-4.0Nov 2023View details →

Data for Decomposing Fomes fomentarius fruiting bodies, unlike fresh ones, represent a bacteria-rich habitat primarily driven by Arthropoda

These files represent the data files necessary to run the R script analysis for the paper "Decomposing Fomes fomentarius fruiting bodies, unlike fresh ones, represent a bacteria-rich habitat primarily driven by Arthropoda."A link to the paper and code will be provided once the paper has been published.