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549 results for “habitat‐use”
Data from: The temporal window of ecological adaptation in postglacial lakes: a comparison of head morphology, trophic position and habitat use in Norwegian threespine stickleback populations
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Patterns of island fox habitat use in sand dune habitat on San Clemente Island
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Functional traits and habitat use: investigating community assembly in a montane community (Carabidae: Nebria)
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Congruence among multiple indices of habitat preference for species facing human-induced rapid environmental change: A case study using the Brewer’s sparrow
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Spatial and temporal patterns of habitat use and availability in upper Coweeta Creek from 1996 to 1998
I collect data describing total depth, mean current velocity and substrate characteristics (% - silt, debris, sand, gravel, cobble, boulder and bedrock) at 100 random points along 1 m transects within each 100 m site. Data are collected seasonally to investigate spatial and temporal patterns of habitat variability in upper Coweeta Creek. Flow data will be used to elucidate whether changes in habitat characteristics are correlated with high flow events.
Data from: Habitat use and seed removal by invasive rats (Rattus rattus) in disturbed and undisturbed rainforest, Puerto Rico
Despite frequent occurrences of invasive rats (Rattus spp.) on islands, their known effects on forests are limited. Where invasive rats have been studied, they generally have significant negative impacts on native plants, birds, and other animals. This study aimed to determine invasive rat distribution and effects on native plant populations via short-term seed removal trials in tropical rain forest habitats in the Luquillo Experimental Forest, Puerto Rico. To address the first objective, we used tracking tunnels (inked and baited cards inside tunnels enabling animal visitors' foot prints to be identified) placed on the ground and in the lower canopy within disturbed (treefall gaps, hurricane plots, stream edges) and undisturbed (continuous forest) habitats. We found that rats are present in all habitats tested. Secondly, we compared seed removal of four native tree species (Guarea guidonia, Buchenavia capitata, Tetragastris balsamifera, and Prestoea acuminata) between vertebrate-excluded and free-access treatments in the same disturbed and undisturbed habitats. Trail cameras were used to identify animals responsible for seed contact and removal. Black rats (R. rattus) were responsible for 65.1% of the interactions with seeds, of which 28.6% were confirmed seed removals. Two plant species had significantly more seeds removed in disturbed (gaps) than undisturbed forest. Prestoea acuminata had the lowest seed removal (9% in 10 d), whereas all other species had >30% removal. Black rats are likely influencing fates of seeds on the forest floor, and possibly forest community composition, through dispersal or predation. Further understanding of rat-plant interactions may be useful for formulating conservation strategies.
Data: Assessing year-round habitat use by migratory sea ducks in a multi-species context reveals seasonal variation in habitat selection and partitioning
<p>This data file consists of state-space model-derived locations and individual data used to analyze transmitter effects for sea ducks in Eastern North America and is associated with the manuscript "Assessing year-round habitat use by migratory sea ducks in a multi-species context reveals seasonal variation in habitat selection and partitioning" published in Ecography. Columns are organized as follows:</p> <p>id - unique identifier</p> <p>species - species from which the centroid was obtained (BLSC = black scoter, COEI = common eider, LTDU = long-tailed duck, SUSC = surf scoter, WWSC = white-winged scoter)</p> <p>date - date of location (mm/dd/yy)</p> <p>jday - Julian date of location</p> <p>year - calendar year of location</p> <p>lon - longitude of location</p> <p>lat - latitude of location</p> <p>b - average assignment of location to either migrant (1) or resident (2) across all runs of the state-space model</p> <p>b.5 - most probable behavioral category based on average state assignment (1 = b ≤ 1.5 ; 2 = b > 1.5)</p> <p>sex - sex of individual (M = male, F = female)</p> <p>age - age of individual (HY = hatch year, SY = second year, TY = third year, ASY = after second year, ATY = after third year, AHY = after hatch year</p> <p>capture_reg - general area where individual was captured</p> <p>capture_subreg - specific region within capture region where individual was captured</p> <p>stage - period of the annual cycle to which the centroid belongs (W = winter, B = breeding, S = spring staging, M = fall staging and molt, WM = winter migration, BM = breeding migration, MM = molt migration, SM = spring migration)</p> <p>site - position of centroid within season (i.e., W1 = first site occupied during winter, W2 = second site occupied, etc.)</p> <p>cycle - number of annual cycles following transmitter attachment (1 = first cycle after attachment, 2 = second cycle after attachment, etc.)</p> <p>season - season of annual cycle in which centroid occurred (W = winter, F = fall, B = breeding, S = spring)</p>
Data from: Testing range-limit hypotheses using range-wide habitat suitability and occupancy for the scarlet monkeyflower (Erythranthe cardinalis)
Determining the causes of geographic range limits is a fundamental problem in ecology, evolution, and conservation biology. Range limits arise due to fitness and dispersal limitation, which yield contrasting predictions about habitat suitability and occupancy of suitable habitat across geographic ranges. If a range edge is limited primarily by fitness, occupancy of suitable habitat should be high, habitat suitability should decline towards the edge, and no suitable habitat should exist beyond it. In contrast, a range edge limited primarily by dispersal should have unoccupied but suitable habitat at and beyond the edge. We built ecological niche models relating occurrence records for the scarlet monkeyflower (Erythranthe cardinalis) to climatic variables, and applied these models to independent data from systematic, range-wide surveys of presence and absence to estimate the availability and occupancy of climatically suitable habitat. We found that fitness limitation predominated over dispersal limitation, but dispersal limitation also played a role at the poleward edge. These results are consistent with the hypothesis that dispersal limitation is more important along shallow environmental gradients and also suggest that synergy between dispersal and fitness limitation can contribute to colonization failure. The framework used here is validated by independent data and could be readily applied to inferring causes of range limits in many other species.
Data from: Sora (Porzana carolina) autumn migration habitat use
Palustrine wetland management across the United States is often conducted under a moist soil management framework aimed at providing energetic resources for non-breeding waterfowl. Moist soil management techniques typically include seasonal water-level manipulations and mechanical soil disturbance to create conditions conducive to germination and growth of early successional, seed-producing wetland plants. The assumption is that providing stopover and wintering habitat for non-breeding waterfowl will also accommodate life history needs of a broader suite of migratory waterbirds including shorebirds, wading birds, and marsh birds. Although studies of wetlands provide some evidence to support this assumption for shorebirds and wading birds, there is less information on how other marshbirds, respond. Sora (Porzana carolina) are a species of migratory rail that depends on wetlands year round as it migrates across North America. It is a species for which the consequences of wetland management decisions directed toward non-breeding waterfowl, is unknown. We conducted nocturnal surveys on 10 public properties in Missouri, USA during autumn migration from 2012-2016 to examine Sora habitat use in wetland impoundments managed to enhance production of moist soil vegetation. We found a positive relationship with Sora presence and mean water depth and annual moist soil vegetation; Sora used, on average, deeper water than was available across surveyed impoundments and used locations with a higher percentage of annual moist soil vegetation than was available. We found a negative relationship with Sora use and upland vegetation, woody vegetation, and open water. We found Sora using deeper water than have previously been reported for autumn migration and that moist soil management techniques used on Missouri's intensively-managed public wetland areas may be compatible with Sora autumn migration stopover habitat requirements.
Data from: The relative importance of green infrastructure as refuge habitat for pollinators increases with local land-use intensity
<p>1. Agricultural expansion and intensification have resulted in strong declines in farmland biodiversity across Europe. In many intensively farmed landscapes, linear landscape elements such as field boundaries, road verges and ditch banks are the main remaining green infrastructures providing refuge for biodiversity, and as such play a pivotal role in agri-environmental policies aiming at mitigating biodiversity loss. Yet, while we have a fairly good understanding of how agricultural intensification influences biodiversity on farmland, little is known about whether and how local land-use intensity affects biodiversity in nearby linear landscape elements and how this affects their role as biodiversity refuge.</p> <p>2. Focussing on pollinating insects, we examined the effects of local land-use intensity on biodiversity in agricultural fields and adjacent green infrastructures. In an intensively farmed area in South-Western France, we selected 23 agricultural grasslands and nearby field boundaries along a gradient in grassland cutting frequency which acted as a proxy for land-use intensity. We analysed how grassland cutting frequency affects species richness, abundance and community composition of wild bees and hoverflies in the grasslands and neighbouring field boundaries, and whether these effects differ across habitat types and species groups.</p> <p>3. Grassland cutting frequency negatively affected pollinator species richness and abundance in the grasslands, whereas pollinators in the neighbouring field boundaries were unaffected. These responses reflected the effects of cutting frequency on floral resources, with flower cover and richness decreasing in grasslands but not in field boundaries. As a result, the proportion of the local pollinator community supported by field boundaries increased with the increasing cutting frequency of the adjacent grassland.</p> <p>4. Common and rare pollinator species generally showed similar responses. Furthermore, communities of plants and pollinators in field boundaries next to intensively farmed grasslands were fairly similar to those next to extensively farmed ones.</p> <p>5. Synthesis and applications. Our results suggest that, as nearby land-use intensifies, flower-rich field boundaries become increasingly important as pollinator refuge habitats. Conserving field boundaries and other green infrastructures, and maintaining or enhancing their quality, therefore constitute important tools to conserve and promote pollinators in intensively farmed landscapes.</p>
Data from: Divergent habitat use of two urban lizard species
Faunal responses to anthropogenic habitat modification represent an important aspect of global change. In Puerto Rico, two species of arboreal lizard, Anolis cristatellus and A. stratulus, are commonly encountered in urban areas, yet seem to use the urban habitat in different ways. In this study, we quantified differences in habitat use between these two species in an urban setting. For each species, we measured habitat use and preference, and the niche space of each taxon, with respect to manmade features of the urban environment. To measure niche space of these species in an urban environment, we collected data from a total of six urban sites across four different municipalities on the island of Puerto Rico. We quantified relative abundance of both species, their habitat use, and the available habitat in the environment to measure both microhabitat preference in an urban setting, as well as niche partitioning between the two different lizards. Overall, we found that the two species utilize different portions of the urban habitat. Anolis stratulus tends to use more "natural" portions of the urban environment (i.e., trees and other cultivated vegetation), whereas A. cristatellus more frequently uses anthropogenic structures. We also found that aspects of habitat discrimination in urban areas mirror a pattern measured in prior studies for forested sites in which A. stratulus was found to perch higher than A. cristatellus and preferred lower temperatures and greater canopy cover. In our study, we found that the multivariate niche space occupied by A. stratulus did not differ from the available niche space in natural portions of the urban environment and in turn represented a subset of the niche space occupied by A. cristatellus. The unique niche space occupied by A. cristatellus corresponds to manmade aspects of the urban environment generally not utilized by A. stratulus. Our results demonstrate that some species are merely tolerant of urbanization while others utilize urban habitats in novel ways. This finding has implications for long-term persistence in urban habitats and suggests that loss of natural habitat elements may lead to nonrandom species extirpations as urbanization intensifies.
Data from: Climatic variation modulates the indirect effects of large herbivores on small-mammal habitat use
Large mammalian herbivores (LMH) strongly shape the composition and architecture of plant communities. A growing literature shows that negative direct effects of LMH on vegetation frequently propagate to suppress the abundance of smaller consumers. Indirect effects of LMH on the behaviour of these consumers, however, have received comparatively little attention despite their potential ecological significance. We sought to understand (i) how LMH indirectly shape small-mammal habitat use by altering the density and distribution of understorey plants; (ii) how these effects vary with climatic context (here, seasonality in rainfall); and (iii) the extent to which behavioural responses of small mammals are contingent upon small-mammal density. We tested the effects of a diverse LMH community on small-mammal habitat use using 4 years of spatially explicit small-mammal trapping and vegetation data from the UHURU Experiment, a replicated set of LMH exclosures in semi-arid Kenyan savanna. Small-mammal habitat use was positively associated with tree density and negatively associated with bare (unvegetated) patches in all plots and seasons. In the presence of LMH, and especially during the dry season, small mammals consistently selected tree cover and avoided bare patches. In contrast, when LMH were excluded, small mammals were weakly associated with tree cover and did not avoid bare patches as strongly. These behavioural responses of small mammals were largely unaffected by changes in small-mammal density associated with LMH exclusion. Our results show that LMH indirectly affect small-mammal behaviour, and that these effects are influenced by climate and can arise via density-independent mechanisms. This raises the possibility that anthropogenic LMH declines might interact with changing patterns of rainfall to alter small-mammal distribution and behaviour, independent of numerical responses by small mammals to these perturbations. For example, increased rainfall in East Africa (as predicted in many recent climate-model simulations) may relax constraints on small-mammal distribution where LMH are rare or absent, whereas increased aridity and/or drought frequency may tighten them.
The interplay between habitat use, morphology and locomotion in subterranean crustaceans of the genus Niphargus
<p>Locomotion is an important, fitness-related functional trait. Environment selects for type of locomotion and shapes the morphology of locomotion-related traits such as body size and appendages. In subterranean aquatic arthropods, these traits are subjected to multiple, at times opposing selection pressures. Darkness selects for enhanced mechano- and chemosensory systems and hence elongation of appendages. Conversely, water currents have been shown to favor short appendages. However, no study has addressed the variation in locomotion of invertebrates inhabiting cave streams and cave lakes, or questioned the relationship between species' morphology and locomotion. To fill this knowledge gap, we studied the interplay between habitat use, morphology and locomotion in amphipods of the subterranean genus Niphargus. Previous studies showed that lake and stream species differ in morphology. Namely, lake species are large, stout and long-legged, whereas stream species are small, slender and short-legged. We here compared locomotion mode and speed between three lake and five stream species. In addition, we tested whether morphology predicts locomotion. We found that the stream species lie on their body sides and move using slow crawling or tail-flipping. The species inhabiting lakes move comparably faster, and use a variety of locomotion modes. Noteworthy, one of the lake species almost exclusively moves in an upright or semi-upright position that resembles walking. Body size and relative length of appendages predict locomotion mode and speed in all species. We propose that integrating locomotion in the studies of subterranean species might improve our understanding of their morphological evolution. </p>
Barn Swallow (Hirundo rustica) fledglings use crop habitat more frequently in relation to its availability than pasture and other habitat types
Populations of birds that forage on aerial insects have been declining across North America for several decades, but the main causes of and reasons for geographical variation in these declines remains unclear. We examined the habitat use and survival of post-fledging Barn Swallows (Hirundo rustica), near Vancouver, BC, Canada using VHF radio telemetry. We predicted that fledgling Barn Swallows hatched in higher quality natal habitat (pasture) would fledge at higher quality, stay closest to the nest, disproportionately use higher-quality habitat during the post-fledge stage and have higher survival rates in the region. Contrary to our predictions, we found that natal habitat (crop, pasture or non-agriculture) had no effect on fledgling quality or movement distance. Barn Swallow fledglings used crop habitat more frequently in relation to its availability than other habitat types, including pasture. Barn Swallows had low post-fledging survival rates (0.44; 95% CI: 0.35-0.57), which could negatively influence the population trend of the species in this region. While natal habitat had only minor effects, crop habitat appears to be important for fledgling Barn Swallows and therefore a decline in this habitat type could have further negative implications for an already declining species.
Data from: Ultra-fine scale spatially-integrated mapping of habitat and occupancy using structure-from-motion
Organisms respond to and often simultaneously modify their environment. While these interactions are apparent at the landscape extent, the driving mechanisms often occur at very fine spatial scales. Structure-from-Motion (SfM), a computer vision technique, allows the simultaneous mapping of organisms and fine scale habitat, and will greatly improve our understanding of habitat suitability, ecophysiology, and the bi-directional relationship between geomorphology and habitat use. SfM can be used to create high-resolution (centimeter-scale) three-dimensional (3D) habitat models at low cost. These models can capture the abiotic conditions formed by terrain and simultaneously record the position of individual organisms within that terrain. While coloniality is common in seabird species, we have a poor understanding of the extent to which dense breeding aggregations are driven by fine-scale active aggregation or limited suitable habitat. We demonstrate the use of SfM for fine-scale habitat suitability by reconstructing the locations of nests in a gentoo penguin colony and fitting models that explicitly account for conspecific attraction. The resulting digital elevation models (DEMs) are used as covariates in an inhomogeneous hybrid point process model. We find that gentoo penguin nest site selection is a function of the topography of the landscape, but that nests are far more aggregated than would be expected based on terrain alone, suggesting a strong role of behavioral aggregation in driving coloniality in this species. This integrated mapping of organisms and fine scale habitat will greatly improve our understanding of fine-scale habitat suitability, ecophysiology, and the complex bi-directional relationship between geomorphology and habitat use.
Fig. 2 in Natural-Licks Use By Orangutans And Conservation Of Their Habitats In Bornean Tropical Production Forest
Fig. 2. Two pairs of females with infants drink the seepage water at a natural-lick.
Fig. 6 in Natural-Licks Use By Orangutans And Conservation Of Their Habitats In Bornean Tropical Production Forest
Fig. 6. Visitation time of each orangutan class to the naturallicks.
Fig. 4 in Natural-Licks Use By Orangutans And Conservation Of Their Habitats In Bornean Tropical Production Forest
Fig. 4. Visiting proportion of each orangutan class: flanged male, female with infant, and others.
Fig. 3 in Natural-Licks Use By Orangutans And Conservation Of Their Habitats In Bornean Tropical Production Forest
Fig. 3. Proportion of visitation frequency of top 3 species among the natural-licks.
Fig. 5 in Natural-Licks Use By Orangutans And Conservation Of Their Habitats In Bornean Tropical Production Forest
Fig. 5. Duration of the visit of each orangutan class to the naturallicks.
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.