Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
262
datasets available to search
ShareScore release 0.7.1
Dataset results
262 results for “indirect effects”
Pollinator-mediated indirect effects on plant fecundity revealed by network indices
<p>Indirect effects arise when one species influences how another species interacts with a third. Pollinator-mediated indirect effects are widespread in many plant communities and are often not restricted to plant species pairs. An analytical framework does not exist yet that allows for the evaluation of indirect effects through shared pollinators in a community context, as well as their consequences for plant fitness. We used network indices describing pollinator sharing to assess the extent to which plant species affect and are affected by others in a pollination network from a species-rich dune community. For 23 plant species, we explore how these indices relate to plant fecundity (seeds/flower) over two years. We further linked plant traits and indices to uncover functional aspects of pollinator-mediated indirect interactions. Species frequently visited by shared pollinators showed higher fecundity and exhibited traits that increase pollinator attraction and generalization. Conversely, species whose shared pollinators frequently visited other plants had lower fecundity and had more specialized traits. Thus, pollinator sharing benefited some species while others suffered reproductive disadvantages, consistent with competition. The framework developed here uses network tools to advance our understanding of how pollinator-mediated indirect interactions influence a species' relative reproductive success at the community-level.</p>
Data from: Predator performance and fitness Is dictated by herbivore prey type plus indirect effects of their host plant
<p>Animals, including herbivores and predators, use diet-mixing to balance their macro- and micronutrient intake. Recent work demonstrated that lady beetles fed only pea aphids from fava beans had reduced fitness caused by a deficiency of dietary sterols. However, beetles redressed this deficit by eating fava bean leaves. In the current study we used Coccinella septempunctata as a model to test the hypotheses that pea aphids are a poor sterol resource independent of their host plant, and that fava beans produce low quality prey regardless of aphid species. Additionally, we tested the reproductive rescue capacity of alfalfa and barley foliage compared to fava, and profiled the sterols of phloem exudates, foliage, and aphids reared on these different hosts. Beetle fecundity and egg viability was significantly better when provided pea aphids reared on alfalfa (compared to fava beans) and green peach aphids reared on fava plants. Alfalfa and barley leaves were not consumed by beetles and did not support beetle reproduction. The sterol profile of aphids largely reflected their host plant phloem. However, green peach aphids from fava acquired 125-times more sterol than pea aphids from fava. Our findings show how the sterol content of different host-plants can affect the third trophic level. Our results suggest that 1) prey quality varies depending on prey species, even when they occur on the same plant, 2) plant species can mediate prey quality, 3) host plant-mediated effects on prey quality partially drive omnivory, and 4) diet-mixing benefits growth and reproduction by redressing micronutrient deficits.</p>
Indirect effect of 7-valent and 13-valent pneumococcal conjugated vaccines on pneumococcal pneumonia hospitalizations in elderly
<p>Data base and data dictionary used in the study of indirect effect of 7-valent and 13-valent pneumococcal conjugated vaccines on pneumococcal pneumonia hospitalizations in elderly</p>
Indirect maternal effects via nest microbiome composition drives gut colonization in altricial chicks
<p>The new version of the dataset includes the raw data and R scripts necessary to reproduce the analyses and figures explained in the manuscript "Indirect maternal effects via nest microbiome composition drives gut colonization in altricial chicks"<strong>. </strong></p> <p>The manuscript linked to this data has undergone a first round of peer-reviewed, which explains the differences between the first and second (current) version of the dataset.</p> <p>Notice that the manuscript has a new title and consequently the dataset title has been updated.</p> <p>This dataset includes:</p> <p>- ASV.xlxs: Complete ASV table of the field experiment. We collected cloacal swabs from parents and chicks in ten nests of Great tits (<em>Parus major</em>) and ten nests of Blue tis (<em>Cyanistes caeruleus</em>) together with nest and water microbiome. The Genbank accession numbers of the samples are given in each column (Bioproject: PRJNA800248). This file has been placed out of the folder "project data & code" for easy access.</p> <p>- README.docx: Complete explanation of the different raw data used for the statistical analyses, together with the link to the R script where data is analyzed. We recommend to read this document before diving into the data and scripts.</p> <p>- Project data & code: Two separate folders for raw data and code.</p>
Data from: Trait-specific indirect effects underlie variation in the response of spiders to cannibalistic social partners
<p><span>Organisms may respond in different ways to the risk posed by conspecifics, but the cause of such variation remains elusive. Here, we use a half-sib/full-sib design to evaluate the contribution of (indirect) genetic or environmental effects to the behavioral response of the cannibalistic wolf spider <em>Lycosa</em> <em>fasciiventris</em> (Dufour, 1835) towards conspecific cues. Spiders showed variation in relative </span><span>occupancy time, activity, and velocity on patches with or without conspecific cues, but direct genetic variance was only found for occupancy time. These three traits were correlated and could be lumped in a principal component: spiders spending more time in patches with conspecific cues moved less and at a lower rate in those areas. Genetic and/or environmental components of carapace width and weight loss in the social partner were significantly correlated with the principal component of focal individuals. Individual </span><span>Variation in these traits may reflect the quality and/or quantity of cues produced by social partners, hence focal individuals were likely behaving along a continuum of strategies in response to the risk posed by social partners. Therefore, environmental and genetic trait variation in the social partners may be key to maintain trait diversity in focal individuals, even in the absence of direct genetic variation.</span></p>
Conditional indirect genetic effects of caregivers on brood in the clonal raider ant
<p>Caregivers shape the rearing environment of their young. Consequently, offspring traits are influenced by the genes of their caregivers via indirect genetic effects (IGEs). However, the extent to which IGEs are modulated by environmental factors, other than the genotype of social partners (i.e., intergenomic epistasis), remains an open question. Here we investigate how broods are influenced by the genotype of their caregivers in the clonal raider ant, <em>Ooceraea biroi</em>, a species in which the genotype, age, and number of both caregivers and brood can be experimentally controlled. First, we used four clonal lines to establish colonies that differed only in the genotype of caregivers and measured effects on foraging activity, as well as IGEs on brood phenotypes. In a second experiment, we tested whether these IGEs are conditional on the age and number of caregivers. We found that caregiver genotype affected the feeding and foraging activity of colonies, and influenced the rate of development, survival, body size, and caste fate of brood. Caregiver genotype interacted with other factors to influence the rate of development and survival of brood, demonstrating that IGEs can be conditional. Thus, we provide an empirical example of phenotypes being influenced by IGE-by-environment interactions beyond intergenomic epistasis, highlighting that IGEs of caregivers/parents are alterable by factors other than their brood's/offspring's genotype.</p>
Data from: Direct and indirect effects of urbanization, pesticides, and wild insect pollinators on mango yield
<ol> <li><span>Expanding cities increasingly encroach fertile farmlands, questioning the viability of maintaining agriculture within and around them. Yet, our knowledge on how urbanization influences pollinator communities and the provision of pollination services to crops is limited, especially for the urbanization hotspots of the Global South. </span></li> <li><span>Mango (<em>Mangifera</em> <em>indica</em>) is one of the most important fruit crops in tropical countries. To analyze the dependency of mango on its main insect pollinators, and the direct and indirect effects of urbanization and insecticides on pollinator abundance and mango yield, we conducted a pollinator exclusion experiment and sampled flower visitors on 16 mango farms spread across rural-urban landscapes in Bengaluru, a South Indian megacity. </span></li> <li><span>We found that allowing flowers access to ants and flying visitors (bees, hoverflies, non-syrphid flies), dramatically increased mango yield by 350%, highlighting the importance of wild insects for mango pollination. We detected a trend between wild bee abundance and the final fruit set, with an increase of 20% when the number of bees increased from 25 to 125. </span></li> <li><span>Urbanization did not directly affect pollinator abundance or mango yield. However, the amount of insecticide applications had strong negative effects on wild bee abundance at low and intermediate levels of urbanization, while it had no effect in highly urbanized areas, presumably because of higher availability of flowering resources. Moreover, the amount of insecticides decreased the weight of harvested mango fruits by almost 30%. This may indicate trade-offs between conventional pest control and enhanced crop yields through pollination by wild insects in rural areas. </span></li> <li> <span><em>Synthesis and applications.</em> </span><span>Our results indicate that mango production can be maintained at a profitable level in urbanized landscapes with insect pollinators more than tripling final yield. However, increasing use of insecticides, besides raising farmers' expenses, can have negative effects on wild insect pollinators and mango yield, especially in rural areas. To safeguard crucial pollination services, it is therefore critical to conserve and promote wild insect pollinators by minimizing the negative effects of insecticide applications in these areas. </span> </li> </ol>
The role of indirect effects in coevolution along the mutualism-antagonism continuum: data and code
<p>This repository contains the data described in "The role of indirect effects in coevolution along the mutualism-antagonism continuum" and the code used to generate it. </p>
Aerosol indirect-effect-derived PM2.5 contributions during the development of convective clouds over the Yellow Sea in July of 2017
<p>Meteorological processes are investigated during the development of deep convective clouds over the Yellow Sea inside a quasi-stationary rainy front in the East Asian region. WRF-Chem simulations were conducted to assess the aerosol-indirect-effect (AIE)-derived PM<sub>2.5</sub> contributions to the cloud microphysical process in deep convective clouds and the associated precipitation.</p> <p>In our dataset, you can find output of WRF-Chem baseline simulations (BASE) and other sensitivity simulated outputs (CONTROL). Furthermore, model variables of precipitations, cloud top temperature (CTT), surface-level pressure (SLP), convective available potential energy (CAPE), and hydrometer mixing ratios of cloud water (qcloud), raindrops (qrain), and ice (qice) can be found in these zip files.</p> <p>If you have any difficulty downloading these datasets, please feel free to contact the first author, kimhsung@gmail.com. All references and acknowledgments can be found in our paper</p>
Data from: Direct and indirect effects of a fishing ban on lacustrine fish community do not result in a full recovery
<ol> <li>Protected areas are increasingly being promoted as an important means of protecting freshwater biological diversity and ecological processes. A robust assessment of ecological changes in protected areas is fundamental to optimize conservation policies and adaptive management. China's efforts to establish aquatic reserves have attracted worldwide attention, especially the "10-year fishing ban" implemented in the Yangtze River basin.</li> <li>We focused on Liangzi Lake, a freshwater protected area in the Yangtze River basin, to understand the effect of a fishing ban occurring after a short period of overfishing. In this aim, the time series of fish community taxonomic and functional structure encompassing the overfishing period and a post-ban period have been analyzed. Fish community metrics with direct, indirect, and no responses to fishing bans were identified.</li> <li>The results indicate that in the early period of the fishing ban, the trophic level and body size structure of the fish community were in the way of recovery. However, species that prefer benthic habitats did not recover after fishing-induced habitat degradation. Functional traits were more sensitive than taxonomic indices and revealed subtle community changes, such as the recovery of some ecological functions, despite a non-recovering species richness.</li> <li> <em>Synthesis and applications.</em> This study provides a rare case of a freshwater protected area in which the effects of conservation measures are studied with a temporal survey. The effectiveness of the functional trait approach in the application of protected area assessment was demonstrated by revealing the recovery of trophic level and body size structure of fish communities after the implementation of the fishing ban and the inadequacy of habitat restoration efforts. We suggest that in freshwater protected areas, insistence on a fishing ban is necessary but not sufficient for full biodiversity recovery, and other measures are needed, such as habitat restoration and species-focused stocking.</li> </ol>
Data for: Direct and indirect effects of food, fear and management on crop damage by ungulates
<p>Foraging on crops by wild ungulates may create human-wildlife conflicts through reducing crop production. Ungulates interact with and within complex socio-ecological systems, making the reduction of crop damage a challenging task. Aside from ungulate densities, crop damage is influenced by different drivers affecting ungulate foraging behavior: food availability and food quality in the landscape (i.e. the foodscape) as well as fear from hunting and scaring actions (i.e. the landscape of fear) may together affect the degree of damage via both direct and indirect effects. A better understanding of the individual effects of these potential drivers behind crop damage is needed, as is an appreciation of whether the effects are dependent on ungulate density. We investigated this by applying path analysis to test indirect and direct links between ungulate density, foodscape, landscape of fear and, human management goals on crop damage of oats and grass, respectively. Our results suggest that crop type is the major driver behind crop damage, with more damage to oats than to leys, implying that human decisions (i.e changing crop type) influence the level of crop damage. We found that management goals and actions influenced the foodscape and the landscape of fear, by affecting the amount of forage produced in the agricultural landscape and the amount of scaring actions. Additionally, we found that supplementary feeding influenced the local ungulate densities in the area. Our results highlight the importance of including human actions on multiple levels when assessing drivers behind damage by ungulates in managed landscapes. We suggest that more studies using path analysis on multiple scales are needed in order to tackle complex issues such as crop damage and other human-wildlife conflicts.</p>
Forest restoration treatments indirectly diversify pollination networks via floral- and temperature-mediated effects
<p>In North American conifer forests a variety of federally initiated thinning programs are implemented to restore pre-European settlement forest structures, but these changes may impact ecosystem function via impacts on sensitive biotic communities. Across the wildland-urban interface of the Front Range region of Colorado, agencies associated with the 'Collaborative Forest Landscape Restoration Program' (CFLRP) have implemented thinning treatments across thousands of hectares of ponderosa pine forest; here we leverage these treatments as an experimental framework to examine thinning effects on a pollinator community. We measured variation in forest structure and sampled bee community assemblages using multiple methods (trapping and netting) to compare bee biodiversity and patterns of floral visitation by bees (bee-flower networks) between mechanically thinned stands that were 3–10 years post-treatment and non-thinned stands. Three key findings emerged: (1) Native bee abundance, richness, and diversity were 120, 53, and 37% greater, respectively, in thinned stands. Nestedness, richness, and abundance of bee-flower interactions were all substantially higher in thinned stands, and there was increased functional redundancy in bee assemblages after thinning. (2) Structural equation modelling indicated that variation in temperature and floral abundance were mediated by canopy openness and were correlated with bee richness and abundance, thereby indirectly driving variation in bee-flower interactions. (3) Four floral species (<em>Penstemon virens, Cerastium arvense, Erysimum capitatum, </em>and<em> Geranium caespitosum</em>) were identified as key connectors in bee-flower interaction networks, though these were not necessarily the most abundant flowering plants. Our analyses indicate that native bee α-diversity and bee-flower interactions positively responded to thinning treatments, and these effects were indirectly driven by canopy removal. We conclude that CFLRP treatments have conservation value for native bee communities. Further monitoring is warranted to evaluate the longevity of these effects.</p>
Datasets for "The direct and indirect effects of the environmental factors on global terrestrial gross primary productivity over the past four decades"
<p>The environmental changes can affect gross primary productivity (GPP) by altering not only the biogeochemical characteristics of the photosynthesis system (direct effects) but also the structure of the vegetation canopy (indirect effects). However, comprehensively quantifying the multi-pathway effects of environmental change on GPP is currently challenging. We proposed a framework to analyse the changes in global GPP by combining a nested machine-learning model and a theoretical photosynthesis model. We quantified direct and indirect effects of changes in key environmental factors (atmospheric CO2 concentration, temperature, solar radiation, vapor pressure deficit (VPD), and soil moisture) on global GPP from 1982 to 2020. The three datasets(RF_LAI, RF_GPP, and RF_GPPlai) are derived from LAI random forest model, GPP random forest model and hierarchical nested model respectively.</p>
A Study in Participants With Acute Major Bleeding to Evaluate the Ability of Andexanet Alfa to Reverse the Anticoagulation Effect of Direct and Indirect Oral Anticoagulants (Extension Study)
ClinicalTrials.gov study NCT02329327. IPD Sharing: YES. Countries: 9. Publications: 7.
Effects of soil salinity on the expression of direct and indirect defences in wild cotton (Gossypium hirsutum)
Open the record for dataset details and reuse information.
Data from: The primacy of density-mediated indirect effects in a community of wolves, elk, and aspen
Open the record for dataset details and reuse information.
Data from: Direct and indirect effects of a fishing ban on lacustrine fish community do not result in a full recovery
Open the record for dataset details and reuse information.
Data from: Pervasive indirect genetic effects on behavioral development in polymorphic eastern mosquitofish
Open the record for dataset details and reuse information.
Data from: Direct and indirect effect of cannibalism and intraguild predation in the two sibling Harmonia ladybird beetles
Open the record for dataset details and reuse information.
Data from: Understanding the social dynamics of breeding phenology: indirect genetic effects and assortative mating in a long distance migrant
Open the record for dataset details and reuse information.
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.