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30,334 results for “Responsiveness”
MeshRIR: Dataset of Room Impulse Responses on Meshed Grid Points
<p>MeshRIR is a dataset of acoustic room impulse responses (RIRs) at finely meshed grid points. Two subdatasets are currently available: one consists of IRs in a 3D cuboidal region from a single source, and the other consists of IRs in a 2D square region from an array of 32 sources. This dataset is suitable for evaluating sound field analysis and synthesis methods. </p> <p>See the link below for the details:</p> <p><a href="https://sh01k.github.io/MeshRIR/">https://sh01k.github.io/MeshRIR/</a></p>
Data from: Coral hypoxia response curve analysis
<p>Oxygen (O<sub>2</sub>) availability is essential for healthy coral reef functioning, yet how continued loss of dissolved O<sub>2</sub> via ocean deoxygenation impacts performance of reef building corals remains unclear. Here we examine how intra-colony spatial geometry of important Great Barrier Reef (GBR) coral species <em>Acropora</em> may influence variation in hypoxic thresholds for upregulation, to better understand capacity to tolerate future reductions in O<sub>2</sub> availability. We first evaluate application of more streamlined models used to parameterise Hypoxia Response Curve data, models that have been used historically to identify variable oxyregulatory capacity. Using closed-system respirometry to analyse O<sub>2</sub> drawdown rate, we show that a 2-parameter model returns similar outputs as previous 12<sup>th</sup> order models for descriptive statistics such as the average oxyregulation capacity (T<sub>pos</sub>) and the ambient O<sub>2</sub> level at which the coral exerts maximum regulation effort (P<sub>cmax</sub>), for diverse <em>Acropora</em> species<em>. </em>Following an experiment to evaluate whether stress induced by coral fragmentation for respirometry affected O<sub>2</sub> drawdown rate, we subsequently identify differences in hypoxic response for the interior and exterior colony locations for the species <em>Acropora abrotanoides</em>, <em>Acropora cf. microphthalma</em>, and <em>Acropora elseyi</em>. Average regulation capacity across species was greater (0.78 to 1.03 ± SE 0.08) at the colony interior compared to exterior (0.60 to 0.85 ± SE 0.08). Moreover, P<sub>cmax</sub> occurred at relatively low <em>p</em>O<sub>2</sub> of <30% (± 1.24; SE) air saturation for all species, across the colony. When compared against ambient O<sub>2</sub> availability, these factors corresponded to differences in mean intra-colony oxyregulation, suggesting that lower variation in dissolved O<sub>2</sub> corresponds with higher capacity for oxyregulation. Collectively our data shows that intra-colony spatial variation affects coral oxyregulation hypoxic thresholds, potentially driving differences in <em>Acropora </em>oxyregulatory capacity.</p>
Dataset for the submitted manuscript titled 'Response of Southern Ocean Resource Stress in a Changing Climate'
<p>Netcdf output files of Primary Production, carbon export, Fe and Mn limitations, and deficiencies from PISCES-QUOTA model with Mn limitation (described in Anugerahanti and Tagliabue, 2023) forced by historical IPSL CM5A climate model simulation (1850-2005) and RCP8.5 high emission IPSL CM5A simulation (2005-2100) on the ORCA2 grid, as described and discussed in Anugerahanti and Tagliabue, in the manuscript submitted for Geophysical Research Letters. Due to the large size of the files, this has been collated to only contain surface/ upper 100m south of 40S. </p>
Fig 1 in Different responses of epigeic beetles to heavy metal contamination depending on functional traits at the family level
Fig 1. Diagram of non-metric multidimensional scaling of beetle assemblages classified to three groups of contamination (square- almost uncontaminated sites, circle- moderately contaminated sites, diamond- highly contaminated sites)
Fig 2 in Different responses of epigeic beetles to heavy metal contamination depending on functional traits at the family level
Fig 2. Mean total density ± SE of the most frequently occurring groups of beetles in three classes of contaminations along the season (circle- almost uncontaminated sites, square- moderately contaminated sites, triangle- highly contaminated sites).
Data from: Annual species' experimental germination responses to light and temperature do not correspond with their microhabitat associations in the field
<p>Annual species have evolved sets of germination cues that are thought to be predictive of the post-germination environment. In naturally patchy environments, germination microsites often vary considerably in the amount of light they receive and in the diurnal temperature fluctuations they experience. However, whether species' differential germination responses to light and temperature are associated with their spatial patterns of occurrence remains largely untested.</p> <p>We surveyed species' occurrences in annual plant communities in 150 quadrats across gradients of canopy cover and litter cover. Nineteen species recorded in this survey were then included in a germination experiment that manipulated (1) Light vs. Dark (12h light or continuous dark) approximating seeds near the soil surface versus those covered by litter and (2) Cold vs. Warm temperature regimes (7/18 °C and 7/24 °C) approximating diurnal fluctuations experienced in shaded versus sun-exposed microsites, respectively.</p> <p>In the germination experiment, six species had highest germination probabilities in the Light treatment (regardless of temperature), five in <em>Cold</em> + <em>Light</em>, one in <em>Warm</em> + <em>Light</em>, two were indifferent to the treatments, and four did not germinate at all. Binomial linear mixed-effects models showed that species' maximum responses to light and temperature did not explain their spatial distributions along canopy cover and litter cover gradients, contrary to theoretical expectations of germination being a strong driver of species' occurrences.</p> <p>Despite variation in species' responses to experimental treatments, no association was found with their field microsite associations. Germination strategies in our system were wider than expected for Mediterranean systems. Our results support that germination cues are not strong drivers of microhabitat associations in this system.</p>
Spatiotemporally distinct responses to mechanical forces shape the developing seed of Arabidopsis
<p><span>Source Data File related to the manuscript:</span></p> <p><a name="_Hlk141697088"></a><span> </span></p> <p><span>Spatiotemporally distinct responses to mechanical forces</span></p> <p><span>shape the developing seed of Arabidopsis</span></p> <p> </p> <p><span>See Description Dataset file for full description</span></p> <p><span> </span></p>
Accounting for nonlinear responses to traits improves range shift predictions
<p>Accurately predicting species' range shifts in response to environmental change is paramount for understanding ecological processes and global change. In synthetic analyses, traits emerge as significant but weak predictors of species' range shifts across recent climate change. These studies assume linear responses to traits, while detailed empirical work often reveals trait responses that are unimodal and contain thresholds or other nonlinearities. We hypothesize that the use of linear modeling approaches fails to capture these nonlinearities and therefore may be under-powering traits to predict range shifts. We evaluate the predictive performance of approaches that can capture nonlinear relationships (ridge-regularized linear regression, support vector regression with linear and nonlinear kernels, and random forests). We apply our models using six multi-decadal range shift datasets for plants, moths, marine fish, birds, and small mammals. We show that nonlinear approaches can perform better than least-squares linear modeling in reproducing historical range shifts. Consistent with expectations, we identify dispersal and climatic niche traits as primary determinants of distribution shifts. Traits identified as important predictors and the direction of trait effects are generally consistent across models but there are notable exceptions. Among important predictors, there are more consistent responses to climatic niches than dispersal ability. Modest improvements in predictability when accounting for nonlinearities and interactions and the overall low amount of variance accounted for by trait predictors suggest limits to trait-based statistical predictive frameworks.</p>
FIGURE 3 in Body shape and robustness response to water flow during development of brown trout Salmo trutta parr
FIGURE 3 Mass–standard length (M–LS) relationships (MLR) determined for exercised () and control () Salmo trutta cohorts over 0–32 weeks from treatment initiation. Each cohort included LS00 individuals (n = 6) as a common origin
F I G U R E 2 in Effects of dietary hydrolysate supplementation on growth, body composition, hematological responses, and liver histology of juvenile giant trevally (Caranx ignobilis Forsskal, 1775)
F I G U R E 2 Somatic indexes and condition factor of giant trevally fed experimental diets for 8 weeks. ns, nonsignificant. Different subscript letters indicate differences among treatments.
FIGURE 1 in Body shape and robustness response to water flow during development of brown trout Salmo trutta parr
FIGURE 1 (a) Landmark positions () on Salmo trutta parr that were digitised twice and then averaged to minimize measurement error. (b) Shape changes associated with principal components (PCs) 1–3. PCs were derived from a between-group PC analysis of Procrustes superimposed landmarks., Consensus shape with numbered landmark positions;, Shape changes associated with each PC. Shape changes are scaled to observed PC scores: Left hand side shape changes (back outlines) are scaled to the minimum value observed across the sample on each respective PC (shown below the image) and right hand side shape changes (black outlines) are scaled to the maximum value observed across the sample on each respective PC. PC1 describes a change in head size, PC2 describes dorso-ventral arching of the body and PC3 describes changes in overall robustness and body depth
F I G U R E 1 in Effects of dietary hydrolysate supplementation on growth, body composition, hematological responses, and liver histology of juvenile giant trevally (Caranx ignobilis Forsskal, 1775)
F I G U R E 1 The quadratic regression for the specific growth rate (SGR) of juvenile giant trevally and dietary fish protein hydrolysate (FPH) supplementation. SH, shrimp hydrolysate; TH, tuna hydrolysate.
F I G U R E 5 in Effects of dietary hydrolysate supplementation on growth, body composition, hematological responses, and liver histology of juvenile giant trevally (Caranx ignobilis Forsskal, 1775)
F I G U R E 5 Liver microscopy of giant trevally fed fish protein hydrolysate (FPH) for 8 weeks (scale bar = 50 μm, 400 magnification). Stained with hematoxylin and eosin.
Caudal fin area: body length ratio (A:L 2; mean..) FIGURE 5 CF s S E measured from photographs of Salmo trutta parr at 20 and 32 weeks after exercise treatment initiation. A:L 2 values between the two CF s groups were significantly different (Welch's two sample t- test p <0.05) in Body shape and robustness response to water flow during development of brown trout Salmo trutta parr
Caudal fin area: body length ratio (A:L 2; mean..) FIGURE 5 CF s S E measured from photographs of Salmo trutta parr at 20 and 32 weeks after exercise treatment initiation. A:L 2 values between the two CF s groups were significantly different (Welch's two sample t- test p <0.05)
A re-analysis of an existing Drosophila melanogaster dataset reveals a new set of genes involved in post-mating response
<p>The figures and tables presented here are part of a manuscript submitted for publication by Chloe J. Bennett and Rodolfo Aramayo entitled:</p> <p><strong>"A re-Analysis of an existing <em>Drosophila melanogaster</em> dataset reveals a new set of genes involved in post-mating response"</strong></p> <p><strong>Abstract</strong></p> <p>RNA sequencing (RNA-seq) is a commonly used method to identify changes in gene expression between two conditions. The analysis of RNA-seq output is complicated, with the possibility of getting different results from the same raw data. We developed and deployed four parallel pipelines to reanalyze an existing dataset of two female Drosophila melanogaster tissue types before and after mating. The Drosophila post-mating response (PMR) is a well-characterized suite of changes that occur after mating, accompanied by a flux in gene expression. In comparing our study with the previous analysis of this dataset, we find our results to be more stringent, though we do identify a number of significant genes not found before. We also found variation among our own separate experiments, with gene-to-transcript isoform number and index building playing important roles in outcome. Finally, we identified a set of genes found by our pipeline that were not identified by the previous study and proposed potential roles for these genes in post-mating biology. Together, this work presents a critique of current RNA-seq analysis techniques and proposes multiple workflow adjustments that can increase the sensitivity, specificity, and stringency of differential gene expression studies.</p>
Fig. 3 in Prairie dog responses to vector control and vaccination during an initial Yersinia pestis invasion
Fig. 3. Predicted re-encounter rates (95% confidence intervals [CIs]) over a single trapping interval (2007–2008) for adult female and male black-tailed prairie dogs inoculated at Conata Basin, South Dakota in 2007 with F1–V fusion protein vaccine or placebo on the no dust and dusted plots (the latter with flea control). Sample sizes are depicted above the 95% CIs.
Fig. 1 in Prairie dog responses to vector control and vaccination during an initial Yersinia pestis invasion
Fig. 1. Categories of flea vector control (deltamethrin dust) and F1–V fusion protein plague vaccination (V = vaccine, P = placebo, N = no inoculation) used for analyses of black-tailed prairie dog annual re-encounter rates (2007–2008 and 2008–2009) at Conata Basin, South Dakota. Annual re-encounter rates were compared for subsets of animals, here each enclosed by unique rectangles. Sample sizes are depicted in subsequent figures with results from multivariate analyses.
Fig. 5 in Prairie dog responses to vector control and vaccination during an initial Yersinia pestis invasion
Fig. 5. Predicted re-encounter rates (95% confidence intervals [CIs]) over a single trapping interval 2007–2008 for non-inoculated adult and juvenile blacktailed prairie dogs on the no dust and dusted plots (the latter with flea control) at Conata Basin, South Dakota. Sample sizes are depicted above the 95% CIs.
Fig. 2 in Prairie dog responses to vector control and vaccination during an initial Yersinia pestis invasion
Fig. 2. Predicted flea parasitism (95% confidence intervals [CIs]) on blacktailed prairie dogs at the no dust and dusted plots, 2007–2008 at Conata Basin, South Dakota (prevalence on the left, intensity on the right). Prairie dog burrows on the dusted plots were treated annually with deltamethrin dust at ~4–6 g per burrow. Model predictions adjust (i.e., control) for year and Julian day (adjusted here as year 2008, and Julian day 212 for prevalence and 200 for intensity). Flea intensity data were log-transformed (log10) for analysis; hence, predicted flea intensity and 95% CIs could extend below 0. Sample sizes are depicted above the 95% CIs.
Fig. 4 in Prairie dog responses to vector control and vaccination during an initial Yersinia pestis invasion
Fig. 4. Predicted re-encounter rates (95% confidence intervals [CIs]) over two trapping intervals (2007–2008 and 2008–2009) for adult female and male black-tailed prairie dogs in Conata Basin, South Dakota inoculated in 2007 or 2008 with F1–V fusion protein vaccine or placebo on the dusted plots (with flea control). Sample sizes are depicted above or below the 95% CIs.
ScienceDex guides
Understand access before you commit
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.