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104 results for “Animal Ecology”
Coral growth data for the research article "Reconstruction of long-term sub-lethal effects of warming on a temperate coral in a climate change hotspot" in Journal of Animal Ecology
<p>This repository contains the coral growth data files used to generate the results for the following article:</p> <p> </p> <p>MJ. Vergotti, JP. D’Olivo, T. Brachert, P. Capdevila, J. Garrabou, C. Linares, P. Spreter, DK. Kersting (2024) Reconstruction of long-term sub-lethal effects of warming on a temperate coral in a climate change hot-spot. <em>Journal of Animal Ecology</em>. https://besjournals.onlinelibrary.wiley.com/doi/10.1111/1365-2656.14225</p> <p> </p> <p><strong>Abstract: </strong>The impact of warming on zooxanthellate corals is widespread, from tropical to temperate seas, with their associated mortalities causing global concern. The temperate coral <em>Cladocora caespitosa</em> is the only zooxanthellate coral with reef-building capacity in the Mediterranean Sea, a climate change hotspot with warming rates triple the global average. Over the past two decades, <em>C. caespitosa</em> populations have suffered severe mortality events associated with marine heatwaves (MHWs). However, with monitoring efforts beginning, at best, in the 2000s, the occurrence of MHWs before to that period, as well as the sub-lethal effects of these events remain poorly understood. Here we use sclerochronology to reconstruct the histories of past stress events and long-term sub-lethal effects on <em>C. caespitosa</em> in three locations within the NW Mediterranean Sea, each with different environmental conditions. Skeletal extension, density and calcification rates were compared to the <em>in situ</em> seawater temperature of each site to assess their relationship. Additionally, we assessed the occurrence of skeletal growth anomalies to reconstruct stress events between 1991 and 2021, a period that encompasses the onset and evolution of warming-related mass mortality events in the NW Mediterranean Sea. Our results reveal a positive association between calcification and temperature, following a latitudinal temperature gradient. However, the evolution of the likelihood distribution of growth rates in the warmest site (Columbretes Islands) since the 1990s indicates a decrease in linear extension and calcification rates during the most recent years. With the increase in the frequency of MHWs and growth anomalies during the last decade, this decline suggests a recurrence in physiological stress events. These results unravel information on the long-term impacts of warming on coral growth and highlight the potential of applying sclerochronology to reconstruct sub-lethal effects of warming using <em>C. caespitosa</em>. </p> <p> </p> <p> </p> <p><strong>Funding</strong>: This research is supported by the Horizon 2020 program of research and innovation of the European Union under the MaCoBioS grant agreement, by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation, project no. 401447620) and by the Spanish Ministry of Science, Innovation and Universities under the project UndResCoral (project no. PID2022-137539OA-C22). D.K.K. was supported by a Ramon y Cajal postdoctoral grant funded by the Ministry of Science and Innovation (PEICTI 2021–2023; grant no. RYC2021-033576-I). C.L. acknowledges the support by ICREA Academia. J.G. acknowledges the grant “Severo Ochoa Centre of Excellence” accreditation (CEX2019-000928-S) funded by AEI 10.13039/501100011033.</p>
Fig. 1 in A Pasture Of Big Ungulate Animals As Key Ecological Factor Influencing On The Fluctuation Of Natural Habitat Of Steppe Herbivorous Mammals
Fig. 1. The steppe marmot quantity dynamics in the 20th century (cattle against the steppe marmot) of the Chertkovskiy Region of Rostov.
Data from: A hierarchical model for jointly assessing ecological and anthropogenic impacts on animal demography
<p>1. The management of sustainable harvest of animal populations is of great ecological and conservation importance. Development of formal quantitative tools to estimate and mitigate the impacts of harvest on animal populations has positively impacted conservation efforts.</p> <p>2. The vast majority of existing harvest models, however, do not simultaneously estimate ecological and harvest impacts on demographic parameters and population trends. Given that the impacts of ecological drivers are often equal to or greater than the effects of harvest, and can covary with harvest, this disconnect has the potential to lead to flawed inference.</p> <p>3. In this study, we used Bayesian hierarchical models and a 43-year capture-mark-recovery dataset from 404,241 female mallards (Anas platyrhynchos) released in the North American midcontinent to estimate mallard demographic parameters. Further, we model the dynamics of waterfowl hunters and habitat, and the direct and indirect effects of anthropogenic and ecological processes on mallard demographic parameters.</p> <p>4. We demonstrate that density-dependence, habitat conditions, and harvest can simultaneously impact demographic parameters of female mallards, and discuss implications for existing and future harvest management models.</p> <p>5. Our results demonstrate the importance of controlling for multicollinearity among demographic drivers in harvest management models, and provide evidence for multiple mechanisms that lead to partial compensation of mallard harvest. We provide a novel model structure to assess these relationships that may allow for improved inference and prediction in future iterations of harvest management models across taxa.</p>
Vegetation and vantage point influence visibility across diverse ecosystems: implications for animal ecology
<p class="MsoNormal"><span>Visual information can influence animal behavior and habitat use in diverse ways. Visibility is the property that relates 3D habitat structure to accessibility of visual information. Despite the importance of visibility in animal ecology, this property remains largely unstudied. Our objective was to assess how habitat structure from diverse environments and animal position within that structure can influence visibility. We gathered terrestrial lidar data (1 cm at 10 m) in four ecosystems (forest, shrub-steppe, prairie, and desert) to characterize viewsheds (i.e., estimates of visibility based on spatially explicit sightlines) from multiple vantage points. Both ecosystem-specific structure and animal position influenced potential viewsheds. Generally, as height of the vantage point above the ground increased, viewshed extent also increased, but the relationships were not linear.<span> </span>In low-structure ecosystems (prairie, shrub-steppe, and desert), variability in viewsheds decreased as vantage points increased to heights above the vegetation canopy. In the forest, however, variation in viewsheds was highest at intermediate heights, and markedly lower at the lowest and highest vantage points. These patterns are likely linked to the amount, heterogeneity, and distribution of vegetation structure occluding sightlines. Our work is the first to apply a new method that can be used to estimate viewshed properties relevant to animals (i.e., viewshed extent and variability). We demonstrate that these properties differ across terrestrial landscapes in complex ways that likely influence many facets of animal ecology and behavior.<span> </span></span></p>
Ressources - Video games as a tool for ecological learning : the case of Animal Crossing - COROLLER & FLINOIS - 2023
<p>The present repository includes : </p> <ol> <li>Survey answers - 200 people, anonymized. Quizz about animals and vegetals that are and are not present in the game ANIMAL CROSSING NEW HORIZONS. Personal questions (age,, gender, location). Self assesment of "Naturalistic Fiber". At the end, question about the video game Animal CROSSING, and then free space</li> <li>Translated R code, based on the present dataset. Runs figures and tests used in our paper "Video games as a tool for ecological learning : the case of "Animal Crossing : New Horizons" during Covid-19 quarantine"</li> <li>The survey itself is available (in french unfortunately) at the following link : <a href="https://forms.gle/GgwULMcg8KnBqDt26">https://forms.gle/GgwULMcg8KnBqDt26</a>,<br> if the link is broken, please don't hesitate to contact me</li> <li>Nintendo Game Content guide at the following link : <a href="https://www.nintendo.co.jp/networkservice_guideline/en/index.html">https://www.nintendo.co.jp/networkservice_guideline/en/index.html</a></li> <li>Appendix (S1 : table of raw datas ; S2 : Normal and QQ plots)</li> <li>Approval of Ethical Research Committee of Université de Sherbrooke (Canada, QC)<br> </li> </ol> <blockquote> <p><em>" [...] furthermore, after reviewing the application for review, no ethical issues were identified by the committee.The committee notes that:The data were collected from a population of individuals who do not a priori present the characteristics of a vulnerable population; The risks associated with participation in the research are minimal; The data collected are anonymous; Individuals have been informed that the data may be used for scientific purposes; However, we remind you that in the future, any research project, as defined in the policy, must be approved by the research ethics committee before proceeding with the collection of data. Therefore, please accept this letter in lieu of an ethics certificate from the </em><em>Research Ethics Board - Education and Social Sciences of the Université de Sherbrooke. This letter may be used when submitting for publication or presentation of the results of this study or for any results of this study or for any other request related to the ethical approval of this project. "</em></p> <p><em>Mme Ariane Tessier<br> Coordonnatrice à l'éthique de la recherche - Université de Sherbrooke, CA QC</em></p> </blockquote> <p>If you have any problem with the present ressources, or if you want to work and publish works containing these datas, please contact me at : <br> simoncoroller.biologie@gmail.com CC : Simon.Coroller@usherbrooke.ca</p> <p>I would gladly discuss with you ! </p> <p>Best wishes.<br> <br> COROLLER & FLINOIS</p> <p> </p>
Vegetation and vantage point influence visibility across diverse ecosystems: implications for animal ecology
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Quantifying animal social behaviour with ecological field methods
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Data from: A hierarchical model for jointly assessing ecological and anthropogenic impacts on animal demography
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Universal metabolic constraints shape the evolutionary ecology of diving in animals
<p>Diving as a lifestyle has evolved on multiple occasions when air-breathing terrestrial animals invaded the aquatic realm, and diving performance shapes the ecology and behaviour of all air-breathing aquatic taxa, from small insects to great whales. Using the largest dataset yet assembled, we show that maximum dive duration increases predictably with body mass in both ectotherms and endotherms. Compared to endotherms, ectotherms can remain submerged for longer, but the mass scaling relationship for dive duration is much steeper in endotherms than in ectotherms. These differences in diving allometry can be fully explained by inherent differences between the two groups in their metabolic rate and how metabolism scales with body mass and temperature. Therefore, we suggest that similar constraints on oxygen storage and usage have shaped the evolutionary ecology of diving in all air-breathing animals, irrespective of their evolutionary history and metabolic mode. The steeper scaling relationship between body mass and dive duration in endotherms not only helps explain why the largest extant vertebrate divers are endothermic rather than ectothermic, but also fits well with the emerging consensus that large extinct tetrapod divers (e.g. plesiosaurs, ichthyosaurs and mosasaurs) were endothermic.</p>
Dataset supplementing Lichtenberg et al. (2017) Foraging traits modulate stingless bee community disassembly under forest loss. Journal of Animal Ecology
<p>This dataset contains data and scripts that supplement the publication</p> <p>Lichtenberg et al. (2017) Foraging traits modulate stingless bee community disassembly under forest loss. Journal of Animal Ecology. DOI 10.1111/1365-2656.12747.</p> <p> </p> <p>Please cite the above article if you use any of the included data or code.</p> <p> </p> <p>Files are described in README.md.</p>
Behavioural ecology meets oncology: quantifying the recovery of animal behaviour to a transient exposure to a cancer risk factor
<p>Wildlife is increasingly exposed to sublethal transient cancer risk factors, including mutagenic substances, which activate their anti-cancer defences, promote tumourigenesis, and may negatively impact populations. Little is known about how exposure to cancer risk factors impacts the behaviour of wildlife. Here, we investigated the effects of a sublethal, short-term exposure to a carcinogen at environmentally relevant concentrations on the activity patterns of wild <em>Girardia tigrina</em> planaria during a two-phase experiment, consisting of a 7-day exposure to cadmium period followed by a 7-day recovery period. To comprehensively explore the effects of the exposure on activity patterns, we employed the double hierarchical generalized linear model framework which explicitly models residual intraindividual variability in addition to the mean and variance of the population. We found that exposed planaria were less active compared to unexposed individuals and were able to recover to pre-exposure activity levels albeit with a reduced variance in activity at the start of the recovery phase. Planaria showing high activity levels were less predictable with larger daily activity variations and higher residual variance. Thus, the shift in behavioural variability induced by an exposure to a cancer risk factor can be quantified using advanced tools from the field of behavioural ecology. This is required to understand how tumourous processes affect the ecology of species.</p>
Fig. 2 in A Pasture Of Big Ungulate Animals As Key Ecological Factor Influencing On The Fluctuation Of Natural Habitat Of Steppe Herbivorous Mammals
Fig. 2. The steppe marmot quantity dynamics in the 20–21th century (cattle vs the steppe marmot).
Data from: New perspectives on soil animal trophic ecology through the lens of C and N stable isotope ratios of oribatid mites
<p>Knowledge of the trophic ecology of soil animals is important for understanding their high alpha diversity as well as their functional role in soil food webs and systems. In the last 20 years, the analysis of natural variations in stable isotope ratios (<sup>15</sup>N/<sup>14</sup>N, <sup>13</sup>C/<sup>12</sup>C) has revolutionized our view on soil animal trophic ecology. Here, we review the state of the art of the trophic ecology of a highly abundant and diverse soil animal taxon, oribatid mites (Oribatida), investigated by stable isotope analyses. The review is based on 25 papers reporting stable isotope data of 292 oribatid mite taxa from 30 different sites. Four main findings emerged. (1) Oribatid mites cluster into six trophic groups, i.e. moss feeders, lichen feeders, primary decomposers, fungal feeders/secondary decomposers, predators/scavengers and marine algal feeders, plus one additional group, which incorporates CaCO<sub>3</sub> in their cuticle for defence but still belongs to the fungal feeders/secondary decomposers group. (2) Of the 292 species studied 43.7% were classified as fungal feeders/secondary decomposers, 27.0% as primary decomposers and 15.7% as predators/scavengers, only few species include CaCO<sub>3</sub> into their skeleton (6.1%), feed on lichens (4.9%), mosses (2.1%) or marine algae (0.7%). (3) In about one-third of the species studied the trophic niche was constant or varied little between sites or habitats, but in two-thirds of the species, their trophic niche varied between habitats, with some species even shifting trophic levels, indicating trophic plasticity. (4) When aggregated at higher taxonomic level oribatid mite species clustered in only three instead of six trophic groups. This indicates that species within the same high-level taxon often belong to different trophic groups, for example, because feeding habits evolved convergently. Therefore, to accurately reflect the trophic ecology of oribatid mites their stable isotope signatures need to be analysed at the species level. However, stable isotope analyses also have limitations, e.g. feeding on bacteria and fungi cannot be separated, and the same is true for feeding on ectomycorrhizal and arbuscular mycorrhizal fungi. Other methods such as fatty acid, amino acid and molecular gut content analyses as well as microbiome analyses may complement stable isotope studies and resolve oribatid mite trophic niche differentiation at a higher resolution. This will contribute to a better understanding of the local coexistence of large numbers of species in soil. Finally, we provide perspectives on how to integrate microarthropods into soil food webs using stable isotope and other methods allowing deeper insight into their<br>trophic structure.</p>
Bringing light onto the Raunkiæran shortfall: A comprehensive review of traits used in functional animal ecology
<p>Trait-based approaches elucidate the mechanisms underlying biodiversity response to, or effects on, the environment. Nevertheless, the Raunkiæran shortfall – the dearth of knowledge on species traits and their functionality – presents a challenge in the application of these approaches. We conducted a systematic review to investigate the trends and gaps in trait-based animal ecology in terms of taxonomic resolution, trait selection, ecosystem type, and geographical region. In addition, we suggest a set of crucial steps to guide trait selection and aid future research to conduct within and cross-taxon comparisons. We identified 1,655 articles using virtually all animal groups published from 1999 to 2020. Studies were concentrated in vertebrates, terrestrial habitats, and the Palearctic realm, and mostly investigated trophic and habitat dimensions. Additionally, they focused on response traits (79.4%) and largely ignored intraspecific variation (94.6%). Almost 36% of the datasets did not provide the rationale behind the selection of morphological traits. The main limitations of trait-based animal ecology were the use of trait averages and a rare inclusion of intraspecific variability. Nearly one-fifth of the studies based only on response traits conclude that trait diversity impacts ecosystem processes or services without justifying the connection between them or measuring them. We propose a guide for standardising trait collection that includes: (i) determining the type of trait and the mechanism linking the trait to the environment, ecosystem, or the correlation between the environment, trait, and ecosystem, (ii) using a "periodic table of niches" to select the appropriate niche dimension to support a mechanistic trait selection, and (iii) selecting the relevant traits for each retained niche dimension. By addressing these gaps, trait-based animal ecology can become more predictive. This implies that future research will likely focus on collaborating to understand how environmental changes impact animals and their capacity to provide ecosystem services and goods.</p>
Data from: New perspectives on soil animal trophic ecology through the lens of C and N stable isotope ratios of oribatid mites
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Bringing light onto the Raunkiæran shortfall: A comprehensive review of traits used in functional animal ecology
Open the record for dataset details and reuse information.
Species richness and speciation rates for all terrestrial animals emerge from a synthesis of ecological theories
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Universal metabolic constraints shape the evolutionary ecology of diving in animals
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Behavioural ecology meets oncology: quantifying the recovery of animal behaviour to a transient exposure to a cancer risk factor
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Data from - Ecological insights from three decades of animal movement tracking across a changing Arctic
<p>We provide here the data used in analysis of 3 test cases, presented in the manuscript "Ecological insights from three decades of animal movement tracking across a changing Arctic". We utilized the new Arctic Animal Movement Archive (AAMA), a growing collection of 201 standardized terrestrial and marine animal tracking studies from 1991–present. The AAMA supports public data discovery, preserves fundamental baseline data for the future, and facilitates efficient, collaborative data analysis. With three AAMA-based case studies, we document climatic influences on the migration phenology of eagles, geographic differences in adaptive response of caribou reproductive phenology to climate change, and species-specific changes in terrestrial mammal movement rates in response to increasing temperature. </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.