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1,157 results for “Limited data”
Data from: When should species richness be energy limited, and how would we know?
Energetic constraints are fundamental to ecology and evolution, and empirical relationships between species richness and estimates of available energy (i.e. resources) have led some to suggest that richness is energetically constrained. However, the mechanism linking energy with richness is rarely specified and predictions of secondary patterns consistent with energy-constrained richness are lacking. Here, we lay out the necessary and sufficient assumptions of a causal relationship linking energy gradients to richness gradients. We then describe an eco-evolutionary simulation model that combines spatially explicit diversification with trait evolution, resource availability and assemblage-level carrying capacities. Our model identified patterns in richness and phylogenetic structure expected when a spatial gradient in energy availability determines the number of individuals supported in a given area. A comparison to patterns under alternative scenarios, in which fundamental assumptions behind energetic explanations were violated, revealed patterns that are useful for evaluating the importance of energetic constraints in empirical systems. We use a data set on rockfish (genus Sebastes) from the northeastern Pacific to show how empirical data can be coupled with model predictions to evaluate the role of energetic constraints in generating observed richness gradients.
Data from: Environmental extremes drive population structure at the northern range limit of Atlantic salmon in North America
Conservation of exploited species requires an understanding of both genetic diversity and the dominant structuring forces, particularly near range limits, where climatic variation can drive rapid expansions or contractions of geographic range. Here, we examine population structure and landscape associations in Atlantic salmon (Salmo salar) across a heterogeneous landscape near the northern range limit in Labrador, Canada. Analysis of two amplicon-based data sets containing 101 microsatellites and 376 single nucleotide polymorphisms (SNPs) from 35 locations revealed clear differentiation between populations spawning in rivers flowing into a large marine embayment (Lake Melville) compared to coastal populations. The mechanisms influencing the differentiation of embayment populations were investigated using both multivariate and machine-learning landscape genetic approaches. We identified temperature as the strongest correlate with genetic structure, particularly warm temperature extremes and wider annual temperature ranges. The genomic basis of this divergence was further explored using a subset of locations (n=17) and a 220K SNP array. SNPs associated with spatial structuring and temperature mapped to a diverse set of genes and molecular pathways, including regulation of gene expression, immune response, and cell development and differentiation. The results spanning molecular marker types and both novel and established methods clearly show climate-associated, fine-scale population structure across an environmental gradient in Atlantic salmon near its range limit in North America, highlighting valuable approaches for predicting population responses to climate change and managing species sustainability.
Data from: From global to local genetic structuring in the red gorgonian Paramuricea clavata: the interplay between oceanographic conditions and limited larval dispersal
Defining the scale of connectivity among marine populations and identifying the barriers to gene flow are tasks of fundamental importance for understanding the genetic structure of populations and for the design of marine reserves. Here we investigated the population genetic structure at three spatial scales of the red gorgonian Paramuricea clavata (Cnidaria, Octocorallia) a key species dwelling in the coralligenous assemblages of the Mediterranean Sea. Colonies of P. clavata were collected from 39 locations across the Mediterranean Sea from Morocco to Turkey and analysed using microsatellite loci. Within three regions (Medes, Marseille and North Corsica) sampling was obtained from multiple locations and at different depths. Three different approaches (measures of genetic differentiation, Bayesian clustering and spatially explicit maximum-difference algorithm) were used to determine the pattern of genetic structure. We identified genetic breaks in the spatial distribution of genetic diversity which were concordant with oceanographic conditions in the Mediterranean Sea. We revealed a high level of genetic differentiation among populations and a pattern of isolation by distance across the studied area and within the three regions, underlining short effective larval dispersal in this species. We observed genetic differentiation among populations in the same locality dwelling at different depths which may be explained by local oceanographic conditions and which may allow a process of local adaptation of the populations to their environment. We discuss the implications of our results for the conservation of the species which is exposed to various threats.
Data from: Phenotype-limited distributions: short-billed birds move away during times that prey bury deeply
In our seasonal world, animals face a variety of environmental conditions in the course of the year. To cope with such seasonality, animals may be phenotypically flexible, but some phenotypic traits are fixed. If fixed phenotypic traits are functionally linked to resource use, then animals should redistribute in response to seasonally changing resources, leading to a 'phenotype-limited' distribution. Here, we examine this possibility for a shorebird, the bar-tailed godwit (Limosa lapponica; a long-billed and sexually dimorphic shorebird), that has to reach buried prey with a probing bill of fixed length. The main prey of female bar-tailed godwits is buried deeper in winter than in summer. Using sightings of individually marked females, we found that in winter only longer-billed individuals remained in the Dutch Wadden Sea, while the shorter-billed individuals moved away to an estuary with a more benign climate such as the Wash. Although longer-billed individuals have the widest range of options in winter and could therefore be selected for, counterselection may occur during the breeding season on the tundra, where surface-living prey may be captured more easily with shorter bills. Phenotype-limited distributions could be a widespread phenomenon and, when associated with assortative migration and mating, it may act as a precursor of phenotypic evolution.
Data from: Contemporary human-altered landscapes and oceanic barriers limit bumble bee gene flow
Much of the world's terrestrial landscape is being altered by humans in the form of agriculture, urbanization, and pastoral systems, with major implications for biodiversity. Bumble bees are one of the most effective pollinators in both natural and cultivated landscapes, but are often the first to be extirpated in human-altered habitats. Yet, little is known about the role of natural and human-altered habitats in promoting or limiting bumble bee gene flow. In this study, I closely examine the genetic structure of the yellow-faced bumble bee, Bombus vosnesenskii, across the south-western US coast and find strong evidence that natural oceanic barriers, as well as contemporary human-altered habitats, limit bee gene flow. Heterozygosity and allelic richness were lower in island populations, while private allelic richness was higher in island populations compared to mainland populations. Genetic differentiation, measured for three indices across the 1000km study region, was significantly greater than the null expectation (FST =0.041, F'ST=0.044, Dest=0.155) and correlated with geographic distance. Furthermore, genetic differentiation patterns were most strongly correlated with contemporary (2011) not past (2006, 2001) resistance maps calibrated for high dispersal limitation over oceans, impervious habitat, and croplands. Despite the incorporation of dramatic elevation gradients, the analyses reveal that oceans and contemporary human land use, not mountains, are the primary dispersal barriers for B. vosnesenskii gene flow. These findings reinforce the importance of maintaining corridors of suitable habitat across the distribution range of native pollinators to promote their persistence and safeguard their ability to provide essential pollination services.
Data from: Limited consequences of infestation with a blood-feeding ectoparasite for the nestlings of two North Pacific seabirds
The seabird tick (Ixodes uriae) parasitizes over 60 host species in the circumpolar regions of both hemispheres, and acts as a vector for a number of potentially virulent pathogens. On Triangle Island, British Columbia, Canada, the nestlings of Cassin's Auklet (Ptychoramphus aleuticus) and Rhinoceros Auklet (Cerorhinca monocerata) are often parasitized by seabird ticks, which may affect their growth and survival in the nest. We used a logistic growth model to interpolate between successive measures of mass (g) and wing chord (mm) for 558 Cassin's Auklet and 344 Rhinoceros Auklet chicks over 11 years from 1996 to 2007. From the model, we estimated the asymptotic measure and the age at inflection point for each chick's growth trajectory, and assessed the effect of tick load relative to other sources of annual and seasonal variation in growth. Most chicks (72.4% of Cassin's Auklets, and 62.2% of Rhinoceros Auklets) hosted ≥1 ticks at least once while in the nest, and the median tick load was two in both species. The probability of hosting a tick declined strongly with chick age, such that by day 40 after hatching less than 1% hosted ticks. We found evidence that tick load had a negative effect on asymptotic weights and wing lengths of both species, but the effect was minor relative to that of other sources of annual and seasonal variation. Only at very high loads – which were rare – did ticks have effects on growth that were likely to be biologically relevant. Tick load had little effect on survival to fledging in either species.We argue that these mild effects of ticks on their hosts are consistent with a co-evolutionary process that results in intermediate virulence when parasite transmission is linked to host recovery.
Data from: Limits to speciation inferred from times to secondary sympatry and ages of hybridizing species along a latitudinal gradient
Range expansions are critical to renewed bouts of allopatric or parapatric speciation. Limits on range expansions—and, by implication, speciation—include dispersal ability and permeability of geographical barriers. In addition, recently diverged taxa may interfere with each other, preventing mutual expansion of each other's range into sympatry, because reproductive isolation is incomplete and/or ecological competition particularly strong. On the basis of geographical distributions and mitochondrial DNA phylogenetic information for 418 recently diverged species of New World birds, we estimate that secondary sympatry takes on the order of millions of years following population splitting and hence could impose an important limit on the rate of range expansion, thereby limiting further rounds of species formation. Average rates of achievement of sympatry have been faster in the temperate region (we estimate 1.7 million years to sympatry at 60°) than in the tropics (3.2 million years to sympatry at the equator). Evidence from the ages of species with hybrid zones implies that one factor associated with the slowed sympatry in the tropics is the rate of accumulation of reproductive isolation.
Data from: Strong genetic differentiation but not local adaptation towards the range limit of a coastal dune plant
All species have limited geographic distributions; but the ecological and evolutionary mechanisms causing range limits are largely unknown. That many species' geographic range limits are coincident with niche limits suggests limited evolutionary potential of marginal populations to adapt to conditions experienced beyond the range. We provide a test of range limit theory by combining population genetic analysis of microsatellite polymorphisms with a transplant experiment within, at the edge of, and 60 km beyond the northern range of a coastal dune plant. Contrary to expectations, lifetime fitness increased towards the range limit with highest fitness achieved by most populations at and beyond the range edge. Genetic differentiation among populations was strong, with very low, non-directional gene flow suggesting range limitation via constraints to dispersal. In contrast, however, local adaptation was negligible, and a distance-dependent decline in fitness only occurred for those populations furthest from home when planted beyond the range limit. These results challenge a commonly held assumption that stable range limits match niche limits, but also raise questions about the unique value of peripheral populations in expanding species' geographical ranges.
Data from: Evidence of widespread topoclimatic limitation for lower treelines of the Intermountain West, U.S.A.
Many forests in dry mountain regions are characterized by a lower elevational treeline. Understanding the controls on the position of lower treeline is important for predicting future forest distributional shifts in response to global environmental change. Lower treelines currently at their climate limit are expected to be more sensitive to changing climate, whereas lower treelines constrained by non-climatic factors are less likely to respond directly to climate change but may be sensitive to other global change agents. In this study, we used existing vegetation classifications to map lower treelines for our 1.7 million km2 study region in the Intermountain West, USA. We modeled topoclimatic drivers of lower treeline position for each of three dominant forest types to identify topoclimatically-limited treelines. We then used spatial data of edaphic properties, recent fire, and land use to identify lower treelines potentially constrained above their ecophysiological limits by non-climatic processes. We found that the lower treeline ecotone of pinyon-juniper woodlands is largely limited by topoclimate and is likely to be sensitive to increasing temperatures and associated droughts, though these effects may be heterogeneously distributed across the landscape. In contrast, dry mixed conifer lower treelines in the northern portion of the study area rarely reached their modeled topoclimatic limit, suggesting that non-climatic processes, including fire and land use, constrain lower treeline above its ecophysiological limits in this forest type. Our results suggest that much of the lower treeline in the Intermountain West is currently climate-limited and will thus be sensitive to ongoing climate changes. Lower treelines in other arid or semi-arid mountainous regions around the globe may also be strongly sensitive to climate, though treeline response to climate change will be mediated at the local scale by soil properties, biotic interactions, and natural or anthropogenic disturbances. Our regional study of lower treeline provides a framework for identifying the drivers of lower treeline formation and allows for more robust projections of future treeline dynamics, which are needed to anticipate shifting global distributions of the forest biome.
Data from: Limited scope for latitudinal extension of reef corals
An analysis of present-day global depth distributions of reef-building corals and underlying environmental drivers contradicts a commonly held belief that ocean warming will promote tropical coral expansion into temperate latitudes. Using a global data set of a major group of reef corals, we found that corals were confined to shallower depths at higher latitudes (up to 0.6 meters of predicted shallowing per additional degree of latitude). Latitudinal attenuation of the most important driver of this phenomenon—the dose of photosynthetically available radiation over winter—would severely constrain latitudinal coral range extension in response to ocean warming. Latitudinal gradients in species richness for the group also suggest that higher winter irradiance at depth in low latitudes allowed a deep-water fauna that was not viable at higher latitudes.
Data from: Muscle–spring dynamics in time-limited, elastic movements
Muscle contractions that load in-series springs with slow speed over a long duration do maximal work and store the most elastic energy. However, time constraints, such as those experienced during escape and predation behaviours, may prevent animals from achieving maximal force capacity from their muscles during spring-loading. Here, we ask whether animals that have limited time for elastic energy storage operate with springs that are tuned to submaximal force production. To answer this question, we used a dynamic model of a muscle–spring system undergoing a fixed-end contraction, with parameters from a time-limited spring-loader (bullfrog: Lithobates catesbeiana) and a non-time-limited spring-loader (grasshopper: Schistocerca gregaria). We found that when muscles have less time to contract, stored elastic energy is maximized with lower spring stiffness (quantified as spring constant). The spring stiffness measured in bullfrog tendons permitted less elastic energy storage than was predicted by a modelled, maximal muscle contraction. However, when muscle contractions were modelled using biologically relevant loading times for bullfrog jumps (50 ms), tendon stiffness actually maximized elastic energy storage. In contrast, grasshoppers, which are not time limited, exhibited spring stiffness that maximized elastic energy storage when modelled with a maximal muscle contraction. These findings demonstrate the significance of evolutionary variation in tendon and apodeme properties to realistic jumping contexts as well as the importance of considering the effect of muscle dynamics and behavioural constraints on energy storage in muscle–spring systems.
Data from: Weather conditions determine attenuation and speed of sound: environmental limitations for monitoring and analysing bat echolocation
Echolocating bats are regularly studied to investigate auditory-guided behaviours and as important bioindicators. Bioacoustic monitoring methods based on echolocation calls are increasingly used for risk assessment and to ultimately inform conservation strategies for bats. As echolocation calls transmit through the air at the speed of sound, they undergo changes due to atmospheric and geometric attenuation. Both the speed of sound and atmospheric attenuation, however, are variable and determined by weather conditions, particularly temperature and relative humidity. Changing weather conditions thus cause variation in analysed call parameters, limiting our ability to detect and correctly analyse bat calls. Here, I use real-world weather data to exemplify the effect of varying weather conditions on the acoustic properties of air. I then present atmospheric attenuation and speed of sound for the global range of weather conditions and bat call frequencies to show their relative effects. Atmospheric attenuation is a non-linear function of call frequency, temperature, relative humidity and atmospheric pressure. While atmospheric attenuation is strongly positively correlated with call frequency, it is also significantly influenced by temperature and relative humidity in a complex non-linear fashion. Variable weather conditions thus result in variable and unknown effects on the recorded call, affecting estimates of call frequency and intensity, particularly for high frequencies. Weather-induced variation in speed of sound reaches up to about ±3%, but is generally much smaller and only relevant for acoustic localisation methods of bats. The frequency- and weather-dependent variation in atmospheric attenuation has a three-fold effect on bioacoustic monitoring of bats: it limits our capability (1) to monitor bats equally across time, space, and species, (2) to correctly measure frequency parameters of bat echolocation calls, particularly for high-frequencies, and (3) to correctly identify bat species in species-rich assemblies or for sympatric species with similar call designs.
Data from: Female-limited colour polymorphism in the crab spider Synema globosum (Araneae: Thomisidae)
Conspicuous colour variation, caused by the influence of the environment on phenotype or by genetic differences among individuals, is frequently observed in nature. If genetic in origin, colour variation can facilitate the study of mechanisms that contribute to the maintenance of true polymorphisms. Here we describe, for the first time, the female-limited colour polymorphism in the crab spider, Synema globosum. We looked for associations between life-history traits and female colour morph, and identified potential agents of selection that could influence the maintenance of the polymorphism. Our results showed that the polymorphism is discrete and heritable, and that differences in colour among morphs are likely to be detectable by honeybees, birds, and conspecifics. We found limited evidence of differences among morphs in morphology and ecology, and found no differences in components of reproduction. Based on the lines of evidence obtained in this study, we suggest that selection exerted by prey, predators, and/or mates is likely to influence the maintenance of the polymorphism observed in S. globosum.
Data from: Restoration of endangered fen communities: the ambiguity of iron-phosphorus binding and phosphorus limitation
1.Low phosphorus (P) availability limits plant biomass production in fens, which is a prerequisite for the persistence of many endangered plant species. We hypothesized that P limitation is linked to soil iron (Fe) content and soil Fe:P ratios as iron compounds provide binding sites for dissolved P, presumably reducing P availability to plants. 2.We sampled 30 fens in a trans-European field survey to determine how soil Fe pools relate to pools of P and Fe-bound P, and we measured vegetation P uptake and N:P ratio to assess where P limitation occurs. Next, we determined P uptake by Carex rostrata in experimental fen mesocosms to investigate interactive effects of soil Fe- and P pools (and -NDASH-fractions) and water levels (drained or rewetted). 3.The field survey revealed that soil P pools correlate positively with soil Fe pools, regardless of fen degradation level, location, or sampling depth. Moreover, soil Fe- and P pools correlated positively with P uptake by the vegetation and negatively with vegetation N:P ratios. Generally, N:P ratios dropped below 10 g g−1 whenever thresholds of 15 mmol Fe L−1 soil and 3.3 mmol P L−1 soil were exceeded. Endangered fen species mainly thrived in Fe- (and thus P-) poor fens. 4.The mesocosm experiment further showed that interactions between water levels and P pools determined plant P uptake: although fen rewetting led to an overall increase in P uptake, plants that had grown on drained Fe-rich soils with large acid-extractable P pools (>1.6 mmol Pacid L−1) could still sequester large quantities of P. Soil Fe:P ratio had no effect on P uptake. 5.Synthesis and applications. Our findings have important implications for the management and restoration of endangered fen communities. We demonstrated the existence of an iron-phosphorus (Fe-P) binding ambiguity in fens: large Fe pools "trap" mobile P, thereby enhancing overall P availability to plants rather than diminishing it. For P limitation we suggest an empirical threshold of < 3.3 mmol P L−1 soil, which is mainly found in Fe-poor fens. Restoring fens by rewetting increases the relative availability of P and may not always result in favourable conditions for endangered fen communities. Rewetting of drained fens is most likely to be successful if soil P and Fe pools are well below 3.3 mmol L−1 and 15 mmol L−1 respectively.
Data from: Adaptive limitations of white spruce populations to drought imply vulnerability to climate change in its western range
A cost-effective climate change adaptation strategy for the forestry sector is to move seed sources to more northern and higher elevation planting sites as part of ongoing reforestation programs. This is meant to match locally adapted populations with anticipated environments, but adaptive traits do not always show population differences suitable to mitigate climate change impacts. For white spruce, drought tolerance is a critical adaptive trait to prevent mortality and productivity losses. Here, we use a 40 year old provenance experiment that has been exposed to severe drought periods in 1999 and 2002 to retrospectively investigate drought response and the adaptive capacity of white spruce populations across their boreal range. Relying on dendrochronological analysis under experimentally controlled environments, we evaluate population differences in resistance, resilience and recovery to these extreme events. Results showed evidence for population differentiation in resistance and recovery parameters, but provenances conformed to approximately the same growth rates under drought conditions and had similar resilience metrics. The lack of populations with better growth rates under drought conditions is contrary to expectations for a wide-ranging species with distinct regional climates. Populations from the wettest environments in the northeastern boreal were surprisingly drought tolerant, suggesting that these populations would readily resist water deficits projected for the 2080s, and supporting the view that northeastern Canada will provide a refugium for boreal species under climate change. The findings also suggest that white spruce is sensitive to growth reductions under climate change in the western boreal. The study highlights that population differentiation in adaptive capacity is species and trait specific, and we provide a counter example for drought tolerance traits, where assisted migration prescriptions may be ineffective to mitigate climate change impacts. For resource managers and policy makers, we provide maps where planning for widespread declines of boreal white spruce forests may be unavoidable.
Data from: Tracking climate change in a dispersal-limited species: reduced spatial and genetic connectivity in a montane salamander
Tropical montane taxa are often locally adapted to very specific climatic conditions, contributing to their lower dispersal potential across complex landscapes. Climate and landscape features in montane regions affect population genetic structure in predictable ways, yet few empirical studies quantify the effects of both factors in shaping genetic structure of montane-adapted taxa. Here, we considered temporal and spatial variability in climate to explain contemporary genetic differentiation between populations of the montane salamander, Pseudoeurycea leprosa. Specifically, we used ecological niche modelling (ENM) and measured spatial connectivity and gene flow (using both mtDNA and microsatellite markers) across extant populations of P. leprosa in the Trans-Mexican Volcanic Belt (TVB). Our results indicate significant spatial and genetic isolation among populations, but we cannot distinguish between isolation by distance over time or current landscape barriers as mechanisms shaping population genetic divergences. Combining ecological niche modelling, spatial connectivity analyses, and historical and contemporary genetic signatures from different classes of genetic markers allows for inference of historical evolutionary processes and predictions of the impacts future climate change will have on the genetic diversity of montane taxa with low dispersal rates. Pseudoeurycea leprosa is one montane species among many endemic to this region and thus is a case study for the continued persistence of spatially and genetically isolated populations in the highly biodiverse TVB of central Mexico.
Data from: Limits on information transduction through amplitude and frequency regulation of transcription factor activity
Signaling pathways often transmit multiple signals through a single shared transcription factor (TF) and encode signal information by differentially regulating TF dynamics. However, signal information will be lost unless it can be reliably decoded by downstream genes. To understand the limits on dynamic information transduction, we apply information theory to quantify how much gene expression information the yeast TF Msn2 can transduce to target genes in the amplitude or frequency of its activation dynamics. We find that although the amount of information transmitted by Msn2 to single target genes is limited, information transduction can be increased by modulating promoter cis-elements or by integrating information from multiple genes. By correcting for extrinsic noise, we estimate an upper bound on information transduction. Overall, we find that information transduction through amplitude and frequency regulation of Msn2 is limited to error-free transduction of signal identity, but not signal intensity information.
Data files: A plasmid-based E. coli gene expression system with cell-to-cell variation below the extrinsic noise limit
<p>This zip archive contains flow cytometry data, microscopy data, and MATLAB code used to generate the figures in the submitted manuscript "A plasmid-based E. coli gene expression system with cell-to-cell variation below the extrinsic noise limit" (PONE-D-17-11810). Text files within the archive describe how to open files and which data corresponds to manuscript figures.</p>
Observation Database for Exploring the footprint representation of microwave radiance observations in an Arctic limited-area data assimilation system
<p>Basic matplotlib visualization for observational databases.<br>Archive files, readme, and visualisation script are attached.</p> <p>The python script visualizes the statistics related to observation <br>minus background departures for AMSU-A and MHS sensors using<br>the default and footprint observation operators in the AROME-Arctic data assimilation system.</p> <p>The corresponding preprint:<br>gmd-2023-195 | Submitted 02 Oct 2023 | Development and technical paper<br>Exploring the footprint representation of microwave radiance observations in an Arctic limited-area data assimilation system<br>Máté Mile, Stephanie Guedj, and Roger Randriamampianina </p>
Supported codes and data for "Hydrodynamic and biochemical impacts on the development of hypoxia in the Louisiana–Texas shelf Part 1: roles of nutrient limitation and plankton community"
<p>This dataset comprises matlab codes and truncated raw data from the Gulf-COAWST model hindcast over the northern Gulf of Mexico. The codes and data support the research presented in "Hydrodynamic and Biochemical Impacts on the Development of Hypoxia in the Louisiana–Texas Shelf Part 1: Roles of Nutrient Limitation and Plankton Community" and are organized by sections discussed in the paper.</p> <p>Readers can find the following figures and tables presented in the paper in the listed folders (highlighted by italic and bold font):</p> <p>Figure 2 in <strong><em>section2.3</em></strong></p> <p>Figure 3 in <strong><em>section3.2</em></strong></p> <p>Figures 4–5 in <strong><em>section3.3</em></strong></p> <p>Table 1 and Figure C2 in <strong><em>section3.4</em></strong></p> <p>Figure 6 in <strong><em>section3.5</em></strong></p> <p>Figure 7 in <strong><em>section3.6</em></strong></p> <p>Figures 8–9 and Table 2 in <strong><em>section3.7</em></strong></p> <p>Figures 10, 11, and C3 in <strong><em>section4.1</em></strong></p> <p>Figures 12, 13, 14, C4, and C5 in <strong><em>section4.2</em></strong></p> <p>Figures 15–17 in <strong><em>section4.3</em></strong></p> <p>Figure C1 in <strong><em>section_appendix</em></strong></p> <p>The grid file which is in the netCDF format is stored in folder <strong><em>grid</em></strong>. The folder <em><strong>matlab_toolbox</strong></em> is the toolbox needs for the data processing and figure plotting.</p>
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.