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76 results for “habitat shifts”
Supplemental Information to Climate-driven habitat shifts of high-ranked prey species structure Late Upper Paleolithic hunting
<p>The data provided here are the supplemental information accompanying Yaworsky et al, 2023 in the journal <em>Scientific Reports</em>. These data represent the following, which are referenced in the published work at DOI: 10.1038/s41598-023-31085-x.</p> <p><strong>Below is the legend for the Supplementary Information</strong>, including how it is referenced within the text of the publication, the file name, and a brief description. More thorough descriptions of the data can be found within the publication in <em>Scientific Reports</em>.</p> <p><strong>Supplementary 1</strong> – <em>UpperPaleoDietV4.html</em> – HTML document of the analyses performed and presented in the paper. This is a Markdown document compiled in R with R code chunks and descriptions.</p> <p><strong>Supplementary 2</strong> – <em>Support Information 2.docx</em> – Word document containing supplementary tables 2 and 3.</p> <p><strong>Supplementary 3</strong> – <em>ArchaeoloigcalDataset_v8.csv</em> – Archaeological data referenced in the Material and Methods. These data are necessary for running the code presented in SI 1.</p> <p><strong>Supplementary 4</strong> – <em>EuroUpperPaleoFaunas_v6.csv</em> – Zooarchaeological data referenced in the Material and Methods. These data are necessary for running the code presented in SI 1.</p> <p><strong>Supplementary 5 </strong>– <em>Lupo2016.csv</em> – Data of Arficant fauna weight derived from table in Lupo and Schmitt 2016 (Table 2). These data are necessary for running the code presented in SI 1.</p> <p><strong>Supplementary 6</strong> – <em>PushkinaRaia_FaunaWeights.csv</em> – Data of Pleistocene fauna weights derived from table in Pushkina and Raia 2008 (Table 1). These data are necessary for running the code presented in SI 1.</p> <p><strong>Supplementary 7</strong> – <em>environmental_BG.csv</em> – Data representing background environmental conditions derived from the CHELSA TRaCE21k data. These data are necessary for running the code in SI 1.</p> <p>For more information on the data, methods, and results, please see the main paper. </p> <p> </p> <p> </p>
Range shifts of overwintering birds depend on habitat type, snow conditions and habitat specialization
<p>Data and R code accompanying the publication "Range shifts of overwintering birds depend on habitat type, snow conditions and habitat specialization"</p> <p>Bosco L, Xu Y, Deshpande P, Lehikoinen A</p> <p>2022</p> <p>---------</p> <p>The data and code to calculate range shifts based on the center of gravity are provided here.</p> <p>The RData files contains raw data from the winter bird counts with added average snow depth values downloaded from open source databases (described in the paper), 100x100km grid info (grid ID, centroid coordinates and average (geographical) coordinates).</p> <p>The csv file contains the route lengths from the winter bird count transects per habitat type.</p> <p>The R file contains the R code used to clean the data (see methods in the publication) and calculate the habitat specific center of gravity (based on bird densities) which were used to calculate shift direction and distance.</p>
Latitudinal core habitat prediction data for the manuscript: "Seascape topography slows predicted range shifts in fish under climate change"
<p>Latitudinal locations of core environmental habitat for yellowtail kingfish (<em>Seriola lalandi</em>), Australian bonito (<em>Sarda australis</em>), Australian spotted mackerel (<em>Scomberomorus munroi</em>), narrow-barred Spanish mackerel (<em>Scomberomorus commerson</em>) and common dolphinfish (<em>Coryphaena hippurus</em>) nearshore of the continental shelf break (i.e. 200-m isobath) within 145 – 160°E, 15 – 45°S and between years 1998 – 2018.</p>
Data for: Speciation in kleptoparasites of oak gall wasps often correlates with shifts into new tree habitats, tree organs, or gall morphospace
<p><span>Host shifts to new plants can drive speciation for plant-feeding insects, but how commonly do host shifts also drive diversification for the parasites of those same insects? Oak gall wasps induce galls on oak trees, and shifts to novel tree hosts and new tree organs have been implicated as drivers of oak gall wasp speciation. Gall wasps are themselves attacked by many insect parasites, which must find their hosts on the correct tree species and organ, but which also must navigate the morphologically variable galls with which they interact. Thus, we ask whether host shifts to new trees, organs, or gall morphologies correlate with gall parasite diversification. We delimit species and infer phylogenies for two genera of gall kleptoparasites, <em>Synergus</em> and <em>Ceroptres</em>, reared from a variety of North American oak galls. We find that most species were reared from galls induced by just one gall wasp species, and no parasite species was reared from galls of more than four species. Most kleptoparasite divergence events correlate with shifts to non-ancestral galls. These shifts often involved changes in tree habitat, gall location, and gall morphology. Host shifts are thus implicated in driving diversification for both oak gall wasps and their kleptoparasitic associates.</span></p>
F I G U R E 2 in Movement and habitat shift responses of juvenile Atlantic Salmon (Salmo salar) to annually permanent stream flooding
F I G U R E 2 Mahers River study reach, Newfoundland, showing the habitat conditions before (riffle run) and after (pool) annual flooding.
F I G U R E 1 in Movement and habitat shift responses of juvenile Atlantic Salmon (Salmo salar) to annually permanent stream flooding
F I G U R E 1 Mahers River and North Arm River, Newfoundland, Canada. The seasonally created pool (Flooded Pool reach) is located within Mahers River. Two control reaches were located in Mahers River; one immediately upriver of the created pool habitat (Riffle Above Pool reach) and another approximate 3 km upstream (Mahers Control reach) and two additional control reaches were located in the nearby North Arm River (North Arm 1 and 2).
Data from: Rapid shift in benthic assemblages following coral bleaching at an upper mesophotic habitat in Taiwan
<p>Mesophotic coral ecosystems (MCEs; typically, 30–150 m depths) have traditionally been considered potential refuges for shallow-water organisms, but recent evidence suggests that this role is context-dependent. Here, we document a singular habitat at the upper mesophotic depth (- 30 m) in Xiaoliuqiu, Taiwan, and assess the changes in the benthic assemblage one year after a heatwave affected the reefs. In the habitat studied, abundant branching depth-specialist corals were found free-living and thriving on the sandy-rubble bottom amidst dense filamentous turf algae. In 2022, 63.6% of the corals were observed bleached, which was associated with severe heat stress affecting shallow reefs. The dominant coral at the time, <em>Acropora tenella</em>, suffered the most from the bleaching, with only 9.7% of its population remaining healthy. After one year, there was a noticeable shift in dominance from <em>A. tenella</em> to the previously cryptic <em>Anacropora</em> spp. without an obvious change in coral cover. We hypothesize that this rapid shift is driven by <em>Anacropora</em> spp., benefiting from the dense canopy provided by <em>A. tenella</em>. This suggests that the composition of understory organisms may play an important role in the resilience of some reefs affected by disturbance. The characteristics of this habitat, which consists mainly of deep-water specialists, and its susceptibility to stressors indicate that this habitat is unlikely to serve as a refuge for most shallow-water taxa. Our findings reinforce that the effectiveness of MCEs as refuges is not universal, and emphasize the importance of incorporating these unique habitats into conservation strategies and gaining a deeper understanding of their functions before they are lost.</p>
Fig. 4 in Ticks on the move-climate change-induced range shifts of three tick species in Europe: current and future habitat suitability for Ixodes ricinus in comparison with Dermacentor reticulatus and Dermacentor marginatus
Fig. 4 Area projected as suitable or unsutable under current and future (2081–2100) climatic conditions (km2) for the three tick species in comparison. a Ixodes ricinus. b Dermacentor reticulatus. c D. marginatus. The corresponding maps are shown in Figs. 1–3 in the main document. Future suitable conditions refers to the area (km2) projected as unsuitable under current climatic conditions but suitable under future climatic conditions (i.e., potential new range). Continuing suitable conditions refers to area (km2) projected as suitable under current climatic conditions as well as under future climatic conditions (i.e., stable presence). Continuing unsuitable conditions refers to area (km 2) projected as unsuitable under current climatic conditions as well as under future climatic conditions (i.e. stable absence). Future unsuitable conditions refers to the area (km.2) projected as suitable under current climatic conditions but unsuitable under future climatic conditions (i.e., potential extinction)
Fig. 2 Projected future changes for Dermacentor reticulatus until 2080–2100. a SSP 126. b SSP 245. c SSP 370. d SSP 585 in Ticks on the move-climate change-induced range shifts of three tick species in Europe: current and future habitat suitability for Ixodes ricinus in comparison with Dermacentor reticulatus and Dermacentor marginatus
Fig. 2 Projected future changes for Dermacentor reticulatus until 2080–2100. a SSP 126. b SSP 245. c SSP 370. d SSP 585. In dark blue: area projected as suitable under current climatic conditions but unsuitable under future climatic conditions (i.e., potential extinction). In light blue: area projected as unsuitable under current climatic conditions as well as under future climatic conditions (i.e., stable absence). In orange: area projected as suitable under current climatic conditions as well as under future climatic conditions (i.e., stable range). In red: area projected as unsuitable under current climatic conditions but suitable under future climatic conditions (i.e., potential new range). AUC = 0.8333 (average over 10 replicates using cross-validation, standard deviation = 0.001113603). Threshold to transform the logistic model output: 0.3816 (10% omission rate threshold). Maps were built using ESRI ArcGIS (Release 10.7, www.esri.com). Projection: Europe Albers Equal Area Conic
Fig. 2 Projected future changes for Dermacentor reticulatus until 2080–2100. a SSP 126. b SSP 245. c SSP 370. d SSP 585 in Ticks on the move-climate change-induced range shifts of three tick species in Europe: current and future habitat suitability for Ixodes ricinus in comparison with Dermacentor reticulatus and Dermacentor marginatus
Fig. 2 Projected future changes for Dermacentor reticulatus until 2080–2100. a SSP 126. b SSP 245. c SSP 370. d SSP 585. In dark blue: area projected as suitable under current climatic conditions but unsuitable under future climatic conditions (i.e., potential extinction). In light blue: area projected as unsuitable under current climatic conditions as well as under future climatic conditions (i.e., stable absence). In orange: area projected as suitable under current climatic conditions as well as under future climatic conditions (i.e., stable
Fig. 4 in Ticks on the move-climate change-induced range shifts of three tick species in Europe: current and future habitat suitability for Ixodes ricinus in comparison with Dermacentor reticulatus and Dermacentor marginatus
Fig. 4 Area projected as suitable or unsutable under current and future (2081–2100) climatic conditions (km2) for the three tick species in comparison. a Ixodes ricinus. b Dermacentor reticulatus. c D. marginatus. The corresponding maps are shown in Figs. 1–3 in the main document. Future suitable conditions refers to the area (km2) projected as unsuitable under current climatic conditions but suitable under future climatic conditions (i.e., potential new range). Continuing suitable conditions refers to area (km2) projected as suitable under
Fig. 1 Projected future changes for Ixodes ricinus until 2081–2100. a SSP 126. b SSP 245. c SSP 370. d SSP 585 in Ticks on the move-climate change-induced range shifts of three tick species in Europe: current and future habitat suitability for Ixodes ricinus in comparison with Dermacentor reticulatus and Dermacentor marginatus
Fig. 1 Projected future changes for Ixodes ricinus until 2081–2100. a SSP 126. b SSP 245. c SSP 370. d SSP 585. In dark blue: area projected as suitable under current climatic conditions but unsuitable under future climatic conditions (i.e., potential extinction). In light blue: area projected as unsuitable under current climatic conditions as well as under future climatic conditions (i.e., stable absence). In orange: area projected as suitable under current climatic conditions as well as under future climatic conditions (i.e., stable range). In red:
Fig. 5 in Ticks on the move-climate change-induced range shifts of three tick species in Europe: current and future habitat suitability for Ixodes ricinus in comparison with Dermacentor reticulatus and Dermacentor marginatus
Fig. 5 Potential co-occurrence under current and future climatic conditions. a Under near current climatic conditions (1970–2000). b Under projected future climatic conditions (exemplarily for SSP 245) for the period 2041–2060. c Under projected future climatic conditions (SSP 245) for the period 2081–2100. Colors indicate areas where climatic suitability is projected for the respective species; for non-mentioned species ("none of them"), the area is climatically unsuitable according to the modelling results. The thresholds to transform the logistic model output (10% omission rate threshold) are as follows: 0.3368 for Ixodes ricinus, 0.3816 for Dermacentor reticulatus, and 0.4298 for D. marginatus. Maps were built using ESRI Arc-GIS (Release 10.7, www.esri.com). Projection: Europe Albers Equal Area Conic. (A hatch-based version of this figure is additionally provided in the Supplementary Material: Figure S11.)
Fig. 3 Projected future changes for Dermacentor marginatus until 2080–2100. a SSP 126. b SSP 245. c SSP 370. d SSP 585 in Ticks on the move-climate change-induced range shifts of three tick species in Europe: current and future habitat suitability for Ixodes ricinus in comparison with Dermacentor reticulatus and Dermacentor marginatus
Fig. 3 Projected future changes for Dermacentor marginatus until 2080–2100. a SSP 126. b SSP 245. c SSP 370. d SSP 585. In dark blue: area projected as suitable under current climatic conditions but unsuitable under future climatic conditions (i.e., potential extinction). In light blue: area projected as unsuitable under current climatic conditions as well as under future climatic conditions (i.e., stable absence). In orange: area projected as suitable under current climatic conditions as well as under future climatic conditions (i.e., stable range). In red: area projected as unsuitable under current climatic conditions but suitable under future climatic conditions (i.e., potential new range). AUC = 0.8229 (average over 10 replicates using cross-validation, standard deviation = 0.001121953). Threshold to transform the logistic model output: 0.4298 (10% omission rate threshold). Maps were built using ESRI ArcGIS (Release 10.7, www.esri.com). Projection: Europe Albers Equal Area Conic
Data from: "Shift in habitat selection during natal dispersal in a long-lived raptor species"
<p><strong>Abstract</strong></p> <p>Animals select their habitat along environmental gradients, but the mechanisms that constrain the ecological requirements of an individual can differ between life stages. Dispersal is a key demographic process that determines gene flow and alters species distributions, yet few empirical studies have examined whether habitat selection in animals is changing during dispersal. In this study, we examined changes in habitat preferences during natal dispersal of red kites (<em>Milvus milvus</em>), a European raptor species. By deploying solar-powered GPS-GSM transmitters on nestlings, we continuously tracked individuals up to six years (2015-2020), from fledging to settlement. We applied habitat selection functions to the tracking data using hierarchical generalized additive models, a flexible method which combines individual- and population-level inference, while allowing for the contrast of the prospecting and settlement phases. During the prospecting phase (n = 204 birds), individuals were less responsive to their environment than during the settlement phase, resulting in a predicted wide distribution in Western Europe. During the settlement phase, individuals (n = 78 birds) selected a narrower range of environmental gradients, while avoiding areas of high elevation, steep topographic slopes, high human population density and highly heterogeneous landscapes. During this phase, individuals were also more philopatric, i.e., they were more inclined to choose an environment closer to their natal area, than during the prospecting phase. Suitable habitats predicted during settlement were much more spatially contrasted than during prospecting. Our study provides empirical evidence that habitat selection changes across natal dispersal phases in a long-lived species, indicating that species conservation strategies should account for different environmental constraints before and after settlement. Furthermore, our findings underscore the importance of long-term tracking data, with sufficient sample size, to study the link between habitat selection and natal dispersal.</p>
Data for: Speciation in kleptoparasites of oak gall wasps often correlates with shifts into new tree habitats, tree organs, or gall morphospace
Open the record for dataset details and reuse information.
Remote sensing and GPS tracking reveal temporal shifts in habitat use in nonbreeding Black-tailed Godwits
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Data from: Rapid shift in benthic assemblages following coral bleaching at an upper mesophotic habitat in Taiwan
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Data from: Paleotemperatures and recurrent habitat shifts drive diversification of treefrogs across distinct biodiversity hotspots in sub-Amazonian South America
<p><strong>Aim</strong>: We investigate the biogeographic history and diversification in a treefrog lineage distributed in contrasting (open and forested) ecoregions of South America, including three biodiversity hotspots. We evaluate the role of dispersal and whether other factors such as diversity-dependence or paleotemperatures could explain the diversification pattern for this group. Especially focusing on the savanna endemics, we illuminate on processes governing the species assembly and evolution of the Cerrado savanna.</p> <p><strong>Location</strong>: South American ecoregions south of the Amazon (e.g. Atlantic Forest, Cerrado, Araucaria Forest, Pampas, Central and Southern Andes).</p> <p><strong>Taxon</strong>: Boana pulchella group.</p> <p><strong>Methods</strong>: We built the most complete time-calibrated phylogeny for the group to date. We then reconstructed ancestral ranges using the dispersal-extinction-cladogenesis (DEC) model comparing different dispersal scenarios considering distance, adjacency and ecological similarity among regions. A center-of-origin hypothesis in forest versus open ecoregions was also tested. Using biogeographical stochastic mapping, we additionally estimated the contribution of range shifts across different biomes. Lastly, we evaluated several diversification models, including the effect of time, diversity-dependence and temperature-dependence on speciation and extinction rates.</p> <p><strong>Results</strong>: The Boana pulchella group originated during the Early Miocene (~17.5 MYA) and underwent high speciation rates during the Middle Miocene Climatic Optimum, with a decreasing trend following the Miocene Climatic Transition. We found no support for a single ecoregion acting as a center of origin and diversification; instead, we inferred recurrent range shifts with dispersal among dissimilar adjacent ecoregions. Speciation linearly dependent on paleotemperatures, with either no or very low constant extinction rates, best explained the slowdown diversification pattern.</p> <p><strong>Main Conclusions</strong>: Our results support a species assembly of Cerrado savanna in South America during the Miocene with intermittent interchange with rainforest habitats. Past climate changes impacted the rate new species originated with apparently no impact on extinction. Finally, the repeated habitat shifts among open/dry and forested/humid ecoregions, rather than long-term in-situ diversification in single areas, highlights the very dynamic historical interchange between contrasting habitats in South America, possibly contributing to its high species diversity.</p>
Oceanographic habitat location data to support range shift analyses for the manuscript: "Climate-driven range shifts are rapid yet variable among recreationally important coastal-pelagic fishes"
<p>This data file contains the latitudinal location of suitable oceanographic habitat for a suite of coastal-pelagic fishes off eastern Australia at monthly time-steps between 1998 and 2018. Please refer to the manuscript "Climate-driven range shifts are rapid yet variable among recreationally important coastal-pelagic fishes" for a full description of the methodologies applied to derive these data.</p>
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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.
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DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
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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.