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549 results for “use of habitat”
Distribution and habitat use of juvenile steelhead and other fishes of the lower Feather River
Understanding how fish presence is related to habitat features is useful in restoration planning and monitoring as better information about how fish use habitat may lead to more impactful restoration projects. The California Department of Water Resources (DWR), conducted a two-year study of microhabitat and mesohabitat in Feather River. The goal of this study was to identify relationships between habitat conditions (depth, substrate, velocity, and cover) and where juvenile Chinook salmon and steelhead occur. Snorkel surveys were conducted monthly March through August in 2001 and 2002 across 29 different sites, which were selected at random (13 in Low Flow Channel, and 16 in High Flow Channel). Each sampling section covered an area 25 meters long by 4 meters wide, running parallel to riverbank. These data were published to support the Healthy Rivers and Landscapes Science Program.
Dynamic landscapes of fear and safety alter prey refuge use in freshwater habitats
The non-consumptive effects of predators on prey behavior have been studied in many different systems. However, predator-prey ecology has placed a bulk of emphasis on how fear alters prey behavior, and new studies have begun to shift focus to the importance that safety in the form of refuges has in structuring prey behavioral responses. This project focuses on changes in the safety landscape as well as changes in the fear landscape and how these changes impact crayfish behavior. Using an established bass-crayfish predator prey system, we altered shelter quality and location in relation to the presence of bass odor signals. We measured shelter use by the crayfish in response to this changing landscape.
Migratory shorebird habitat use, diet, and prey selection on mudflats in the Virginia barrier island and lagoon system, 2023-2024
Migratory shorebirds require access to heterogenous resources during migration. Understanding how shorebirds utilize different foraging substrates and food resources across the coastal landscape is important for informing conservation. We compared shorebird habitat use and invertebrate prey communities between barrier island and mudflat foraging substrates. We counted shorebirds and collected prey samples at random points on sand, peat, and mudflat substrates during spring migration (May 14 - June 2), 2023 - 2024. We opportunistically collected fecal samples on mudflats in our study area and used fecal DNA metabarcoding with 18S (invertebrates) and 23S (biofilm) primers to describe the diets of dunlin (Calidris alpina), red knots (Calidris canutus rufa) and semipalmated sandpipers (Calidris pusilla). We then used network null modeling to determine if our focal species were selectively consuming invertebrates on mudflats. Peat banks were the most heavily used intertidal substrate and mudflats supported similar shorebird abundances and species richness to sand. Dunlin and semipalmated sandpipers were more abundant on peat and mudflats, while red knots were more abundant on sand and peat. Invertebrate density was highest on peat banks and similar between mudflat and sand substrate, though mudflats supported a more diverse prey community. Amphipod crustaceans, blue mussels (Mytilus edulis), and polychaete worms were main prey consumed by all species on mudflats. Dunlin and semipalmated sandpipers fed primarily on crustaceans whereas red knots mainly fed on bivalves. All species consumed biofilm and a high proportion of diatoms were observed in fecal samples collected from semipalmated sandpipers. Red knots and dunlin selectively consumed bivalves on mudflats while semipalmated sandpipers showed no dietary preferences. Managing staging sites to preserve a diversity of intertidal habitats is critical for meeting the variable foraging requirements of migratory shorebirds.
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.
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.
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).
Salmonid habitat use monitoring used to determine effectiveness of habitat improvement projects in the Sacramento River, CA
Overview The Central Valley Project Improvement Act (CVPIA) funds habitat improvement work in the Central Valley of California to increase salmonid populations in furtherance of meeting CVPIA fish doubling goals. This data package contains five datasets. Enclosure Study – Growth Data This dataset covers enclosure studies that examined salmonid growth rates in the Sacramento River and focused on assessing effectiveness of salmonid habitat improvement projects. Data was collected in July and August 2019 from project sites, constructed habitat project sites, and control sites where no treatment is planned. Six enclosures with juvenile Fall Run Chinook salmon from Coleman National Fish Hatchery were placed in each habitat type. Fish growth was tracked for approximately 6.5 weeks. Annual reports summarize the survey findings. Enclosure Study – Gut Contents Data This dataset covers enclosure studies that examined salmonid growth rates in the Sacramento River and focused on assessing effectiveness of salmonid habitat improvement projects. Data was collected in July and August 2019 from project sites, constructed habitat project sites, and control sites where no treatment is planned. Six enclosures with juvenile Fall Run Chinook salmon from Coleman National Fish Hatchery were placed in each habitat type. Enclosures remained in the river for approximately 6.5 weeks. At the end of the study, fish were euthanized, and we dissected their guts and enumerated the taxa found. Annual reports summarize the survey findings. Microhabitat Use Data This dataset covers salmonid microhabitat use conducted in the Sacramento River and focused on assessing effectiveness of salmonid habitat improvement projects. Surveys are conducted roughly monthly and include pre-project sites, constructed habitat project sites, and control sites where no treatment is planned. Based upon habitat inventory data, annually identify which habitat units within each side channel will be selected for the collectio
Habitat use, consumption, and growth by slimy sculpin (Cottus cognatus) held under different levels of temperature at Toolik Field Station 2019
We tested effects of temperature (12 and 19.3 degrees C; 27 days) on habitat use, consumption, and growth of slimy sculpin (Cottus cognatus). To measure temperature selection by sculpin, we connected two 5.7 L tanks with a PVC pipe that was passable by sculpin (n = 12 tanks). We heated one side of the tank to 12 °C and the other to 19.3 °C using aquarium heaters.
May to July 2018 ground control points GPS coordinates of tidal marsh and tidal forest plant species to be used as ground control points 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 control points (GCP) and ground reference data for habitat mapping. GCPs for tidal marsh (salt, brackish, tidal fresh) and tidal fresh forest vegetation species were acquired. A real time kinematic (RTK) GPS survey of GPS coordinates and ground elevations for tidal marsh vegetation was carried out in May of June of 2018. A handheld GPS was used to collect GPS coordinates for tidal forest plant species in July of 2018. A total of 101 GCPs were collected in tidal habitats, with 26 in salt, 28 in brackish and 29 in tidal fresh marsh, and another 18 in tidal fresh forest. 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.
Hubbard Brook Wildlife Monitoring Project: Assessing wildlife population presence, activity and habitat use through continual camera trap monitoring, 2018
Monitoring of wildlife at Hubbard Brook is essential to understand how these species are responding to forest and environmental condition over time, while also placing those wildlife species in the context of ecosystem structural and functional attributes. The presence and persistence of wildlife species common to an area can indicate suitable habitat conditions as well as refugia for less common species. Changes in species presence and activity, such as fewer to no sightings, may point to shifting conditions not suitable to the species missing from the area. Camera trap monitoring allows for continuous, non-obtrusive observation of many different species of wildlife and can be used as part of our understanding of current suitability of habitat condition. To better understand integrated forest condition, we established a camera trap network located at the Hubbard Brook Experimental Forest in the White Mountains of central New Hampshire. The cameras have logged over 1,500 wildlife observations, confirming the presence of many species, including those not previously reported (pine marten and river otter). A total of 15 mammal species have been detected and have also been effective at detecting some bird species, including the Northern Harrier. Natural history observations have provided insight into the lives of the species detected, including reproduction (Bull moose following cow during rut, moose calves, deer fawns), predation (red fox with snow-shoe hare) and presence of parasites (winter ticks on moose with hairless shoulders). 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.
Data: "Using butterfly survey data to model habitat associations in urban developments", JEJ Cooper et al., (2023)
<p>This data package has been used to examine the responses of UK butterfly species </p> <p>to different features of the urban environment. 'JC_WCBSmodel.Rdata' presents the</p> <p>butterfly abundance data, and supporting information about </p> <p>species and sites. This data can be fed through the script '04_model_builder.R', to </p> <p>produce the models reported in the research article. '00_functions.R' is a script </p> <p>containing functions which support the modelling process, which is loaded as part of </p> <p>the 04_model_builder script. </p> <p> </p> <p>Summaries of the resulting models are an output of that script - </p> <p>'Butterfly_GAM_Outputs.xlsx'. These are represented graphically in the manuscript, </p> <p>using scripts '06_01_Map'.R:'06_03_Cross_Validation'. '06_04_Model_Metric.R' </p> <p>is a further summary of the .xlsx file, found in the Supplementary Materials. </p> <p>'06_05_graphic_4_twitter.R' produces a condensed version of the figure resulting </p> <p>from the script '06_02_Metric_Summary.R'</p> <p> </p> <p>Dataset descriptions are found in the attached readme.txt</p> <p>........................................................................................</p> <p>We would also greatly appreciate if you could fill out <a href="https://forms.gle/DCc58VXpdmqnTmTk8" target="_blank" rel="noopener">this very short form</a> to tell us how you intend to use these data. Thanks in advance!</p>
"Agricultural trade and its impacts on cropland use and the global loss of species habitat." - Supplementary data
<p>This dataset and code is part of the following publication:<br> Schwarzmueller, F. & Kastner, T (2022), Agricultural trade and its impact on cropland use<br> and the global loss of species' habitats. Sustainability Science, doi: 10.1007/s11625-022-01138-7<br> </p> <p>There are three zip-folders accompanying this publication:</p> <p>Code.zip contains all the R-Scripts and input files neccessary for the calculation that were written by the authors.</p> <p>Data.zip contains the FAO-input data (as dowloaded in 2021). This exact data is not available anymore from the FAOSTAT website, which is why we included it in this repository.</p> <p>TradeMatrixFeed_import_dry_matter_1986-2013.zip contains the results from the calculation as shown in the paper.</p>
Data from: Understanding the Influence of Check Dam and Season on Habitat Use to Develop Habitat Suitability Criteria for Overwintering Tadpoles of Nanorana spp.
<p>Dataset for the article: Understanding the Influence of Check Dam and Season on Habitat Use to Develop Habitat Suitability Criteria for Overwintering Tadpoles of <em>Nanorana</em> spp.</p> <p>See readme.txt for details.</p>
Using Biodiversity Data to Assess Species-Habitat Relationships in Glacier National Park, Montana
Biodiversity surveys are becoming increasingly popular. However, standard analysis techniques for these data have not yet been developed. This paper explores the use of multivariate ordination techniques for assessing species-habitat relationships using biodiversity data. The research was conducted in Glacier National Park, Montana, and birds and butterflies were chosen as the taxonomic groups of study. Biodiversity assessment sites were established through a range of habitats and monitored from 1987 through 1989. Presence/absence sampling over the total number of sampling sites was used to classify species commonness and rarity. Approximately 86% of the historically recorded butterflies and 70% of the historically recorded bird species have been observed in the 3 yr of sampling. During the 3 yr of this study there was a striking continuity of species richness per site. There was also a striking overlap between the sites that support high species diversity and sites that support rare species. Principal components analysis and cluster analysis worked well in discerning species-habitat relationships. Elevation, structural diversity of the site, and moisture were the major factors explaining species distributions. A chi-square analysis also provided some insights into species-habitat relationships, showing birds were more habitat specific than butterflies. Habitat diversity analyses demonstrated a positive but non-significant correlation between remotely sense spectral-class diversity of a site and species richness for both birds and butterflies. Aspect, slope and elevation diversity had a negative or negligible relationship with species richness.
Trophic Interactions, Habitat Use, and Pollution Loads of Bottlenose Dolphins (Tursiops Truncatus) in the Florida Coastal Everglades, Florida, USA, 2013-2019
Cetaceans can feed at upper trophic levels and occur from freshwater to open-ocean ecosystems. Due to their abundance, mobility, and high metabolic rates, they have the potential to affect the structure and function of ecosystems through both top-down and bottom-up pathways. To better understand what ecological roles they may play in a system, it is important to understand patterns and drivers of their abundance, habitat use, and trophic interactions. I investigated the trophic interactions and pollutant exposure of common bottlenose dolphins (Tursiops truncatus) of the Florida Coastal Everglades. Based on bulk stable isotope analysis of tissue samples collected using biopsy sampling, it appears that despite their high mobility, bottlenose dolphins restrict their foraging within the habitats where they were sampled. Trophic position and foraging locations affected exposure to pollutants, with high levels of mercury found in dolphins estimated to forage at higher trophic levels and feeding within an inland bay. Mercury levels also varied with age and sex. Dolphins and their prey both contained substantial mercury levels and dolphins’ health could be impacted by this exposure, but the selenium levels we measured might counteract these negative effects.
Fig. 4 in Disruptive coloration and habitat use by seahorses
Fig. 4. Plain-colored (Left column) seahorses occupy similar background color, while banded disruptive seahorses (Right column) occupy more diverse habitats.
Fig. 2 in Discrimination of habitat use between two sympatric species of mullets, Mugil curema and Mugil liza (Mugiliformes: Mugilidae) in the rio Tramandaí Estuary, determined by otolith chemistry
Fig. 2. Means and standard deviations (SD) of (a) Sr86:Ca43 (mmol.mol-1); and (b) Ba137:Ca43 ratio (µmol.mol-1) in otoliths of the inner 20 measurements (core) and the outer 20 measurements (edge) of Mugil curema and M. liza caught in the Tramandaí River Estuary, Brazil. Different letters within a spruce stand denote significant differences between species (Mann-Whitney U test, p<0.05).
Fig. 4 in Discrimination of habitat use between two sympatric species of mullets, Mugil curema and Mugil liza (Mugiliformes: Mugilidae) in the rio Tramandaí Estuary, determined by otolith chemistry
Fig. 4. Otolith transects of Mugil liza measured by LA-ICP-MS from the core to the edge. Ba137:Ca43 (line) and Sr86:Ca43 (dashed line). The identification code and total length (mm) of each fish are indicated on the graph.
Fig. 3 in Discrimination of habitat use between two sympatric species of mullets, Mugil curema and Mugil liza (Mugiliformes: Mugilidae) in the rio Tramandaí Estuary, determined by otolith chemistry
Fig. 3. Otolithtransectsof Mugilcurema measuredbyLA-ICP-MSfromthecoretotheedge. 43 (line) 86 43 (dashedline). Theidentificationcodeand totallength (mm) ofeachfishareindicatedonthegraph.
Data from : Classifying wetland‐related land cover types and habitats using fine‐scale lidar metrics derived from country‐wide Airborne Laser Scanning
<p>This data repository contains the processed lidar metrics for characterizing the habitat structure for classifying main land cover and habitat types in the Lauwersmeer area in the northern part of the Netherlands in the province of Groningen (5754 ha). The lidar metrics were derived from Airborne Laser Scanning (ALS) data using the Actueel Hoogtebestand Nederland 2 (AHN2) openly available dataset from https://www.pdok.nl/. </p> <p>The derived lidar metrics saved in *.grd file format and contain 32 bands. Each band represents a lidar metric and the water surface was masked out in the dataset. The *l1* in the file name indicates that the file was used for level 1 (wetland) classification and *l23* used for level 2 (land cover types within wetland) and level 3 (reedbed habitats) classification. The lidar metrics were calculated using lidR (<a href="https://github.com/Jean-Romain/lidR">https://github.com/Jean-Romain/lidR</a>) software package. Further details related to the lidar metrics extraction can be found at <a href="https://github.com/eEcoLiDAR/PhDPaper1_Classifying_wetland_habitats">https://github.com/eEcoLiDAR/PhDPaper1_Classifying_wetland_habitats</a> Github repository.</p> <p> </p>
ScienceDex guides
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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.