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.
310
datasets available to search
ShareScore release 0.9.0
Dataset results
310 results for “host use”
Phenotypic plasticity in chemical defence allows butterflies to diversify host use strategies
Open the record for dataset details and reuse information.
Data from: Using DNA barcoding to identify host-parasite interactions between cryptic species of goby (Coryphopterus: Gobiidae, Perciformes) and parasitic copepods (Pharodes tortugensis: Chondracanthidae, Cyclopoida)
Open the record for dataset details and reuse information.
To lump or to split? Revision of Cuscuta section Indecorae using a combined morphometric, phylogenetic and host range approach
Open the record for dataset details and reuse information.
First insights into population structure and genetic diversity versus host specificity in trypanorhynch tapeworms using multiplexed shotgun genotyping
Open the record for dataset details and reuse information.
Data from: Biological and statistical processes jointly drive population aggregation: using host–parasite interactions to understand Taylor's power law
Open the record for dataset details and reuse information.
Patterns of host plant use do not explain mushroom body expansion in Heliconiini butterflies
Open the record for dataset details and reuse information.
Delimiting the cryptic diversity and host preferences of Sycophila parasitoid wasps associated with oak galls using phylogenomic data
Open the record for dataset details and reuse information.
Data from: Host-plant use of a polyphagous mirid, Apolygus lucorum: molecular evidence from migratory individuals
While the host-plant use of insect herbivores is important for understanding their interactions and coevolution, field evidence of these preferences is limited for generalist species. Molecular diet analysis provides an effective option for gaining such information, but data from field-sampled individuals are often greatly affected by the local composition of their host plants. The polyphagous mirid bug Apolygus lucorum (Meyer-Dür) seasonally migrates across the Bohai Sea, and molecular analysis of migrant bugs collected on crop-free islands can be used to estimate the host-plant use of A. lucorum across the large area (northern China) from where these individuals come. In this study, the host-plant use of A. lucorum adults was determined by identifying plant DNA using a three-locus DNA barcode (rbcL, trnH-psbA and ITS) in the gut of migrant individuals collected on Beihuang Island. We successfully identified the host plant families of A. lucorum adults, and the results indicated that captured bugs fed on at least 17 plant families. In addition, gut analyses revealed that 35.9% of A. lucorum individuals fed on multiple host plants but that most individuals (64.1%) fed on only one plant species. Cotton, Gossypium hirsutum L., DNA was found in 35.8% of the A. lucorum bugs examined, which was much higher than the percentage of bugs in which other host plants were found. Our work provides a new understanding of multiple host-plant use by A. lucorum under natural conditions, and these findings are available for developing effective management strategies against this polyphagous pest species.
Preference, performance, and chemical defense in an endangered butterfly using novel and ancestral host plants
<p>Adoption of novel host plants by herbivorous insects can require new adaptations and may entail loss of adaptation to ancestral hosts. We examined relationships between an endangered subspecies of the butterfly <i>Euphydryas editha </i>(Taylor's checkerspot) and three host plant species. Two of the hosts (<i>Castilleja hispida, Castilleja levisecta</i>) were used ancestrally while the other, <i>Plantago lanceolata</i>, is exotic and was adopted more recently. We measured oviposition preference, neonate preference, larval growth, and secondary chemical uptake on all three hosts. Adult females readily laid eggs on all hosts but favored <i>Plantago </i>and tended to avoid <i>C. levisecta. </i>Oviposition preference changed over time.<i> </i>Neonates had no preference among host species, but consistently chose bracts over leaves within both <i>Castilleja </i>species. Larvae developed successfully on all species and grew to similar size on all of them unless they ate only <i>Castilleja </i>leaves (rather than bracts) which limited their growth. Diet strongly influenced secondary chemical uptake by larvae. Larvae that ate <i>Plantago </i>or <i>C. hispida </i>leaves contained the highest concentrations of iridoid glycosides, and iridoid glycoside composition varied with host species and tissue type. Despite having largely switched to a novel exotic host and generally performing better on it, this population has retained breadth in preference and ability to use other hosts.</p>
Data for: Immobilization of molecular catalysts on electrode surfaces using host–guest interactions
<p>Anchoring molecular catalysts on electrode surfaces combines the high selectivity and activity of molecular systems with the practicality of heterogeneous systems. Molecular catalysts, however, are far less stable than traditional heterogeneous electrocatalysts, and therefore a method to easily replace anchored molecular catalysts that have degraded could make such electrosynthetic systems more attractive. Here, we apply a non-covalent 'click' chemistry approach to reversibly bind molecular electrocatalysts to electrode surfaces through host–guest complexation with surface-anchored cyclodextrins. The host–guest interaction is remarkably strong and enables the flow of electrons between the electrode and the guest catalyst. Electrosynthesis in both organic and aqueous media was demonstrated on metal oxide electrodes, with stability on the order of hours. The catalytic surfaces can be recycled by controlled release of the guest from the host cavities and readsorption of fresh guest. </p>
Data from: Resource overlap and dilution effects shape host plant use in a myrmecophilous butterfly
1. The effects of consumers on fitness of resource organisms are a complex function of the spatio-temporal distribution of the resources, consumer functional responses and trait preferences, and availability of other resources. 2. The ubiquitous variation in the intensity of species interactions has important consequences for the ecological and evolutionary dynamics of natural populations. Nevertheless, little is known about the processes causing this variation and their operational scales. Here, we examine how variation in the intensity of a consumer-resource interaction is related to resource timing, resource density and abundance of other resources. 3. Using the butterfly consumer Phengaris alcon and its two sequential resources, the host plant Gentiana pneumonanthe and the host ants Myrmica spp., we investigated how butterfly egg-laying depended on focal host plant phenology, density and phenology of neighboring host plants and host ant abundance. 4. Butterflies preferred plants that simultaneously maximized the availability of both larval resources in time and space, i.e., they chose early-flowering plants that were of higher nutritional quality for larvae where host ants were abundant. Both the probability of oviposition and the number of eggs were lower in plant individuals with a high neighbor density than in more isolated plants, and this dilution effect was stronger when neighbors flowered early. 5. Our results show that plant-herbivore interactions simultaneously depend on the spatio-temporal distribution of a focal resource, and on the small-scale spatial variation in the abundance of other herbivore resources. Given that consumers have negative effects on fitness and prefer certain timing of the resource organisms, this implies that processes acting at the levels of individuals, populations and communities simultaneously contribute to variation in consumer-mediated natural selection.
Data from: Genetic divergence with ongoing gene flow is maintained by the use of different hosts in phytophagous ladybird beetles genus Henosepilachna
Adaptation to different environments can promote population divergence via natural selection even in the presence of gene flow–a phenomenon that typically occurs during ecological speciation. To elucidate how natural selection promotes and maintains population divergence during speciation, we investigated the population genetic structure, degree of gene flow and heterogeneous genomic divergence in three closely related Japanese phytophagous ladybird beetles: Henosepilachna pustulosa, H. niponica and H. yasutomii. These species act as a generalist, a wild thistle (Cirsium spp.) specialist and a blue cohosh (Caulophyllum robustum) specialist, respectively, and their ranges differ accordingly. The two specialist species widely co-occur but are reproductively isolated solely due to their high specialisation to a particular host plant. Genome-wide amplified fragment-length polymorphism (AFLP) markers and mitochondrial cytochrome c oxidase subunit I (COI) gene sequences demonstrated obvious genome-wide divergence associated with both geographic distance and ecological divergence. However, a hybridisation assessment for both AFLP loci and the mitochondrial sequences revealed a certain degree of unidirectional gene flow between the two sympatric specialist species. Principal coordinates analysis (PCoA) based on all of the variable AFLP loci demonstrated that there are genetic similarities between populations from adjacent localities irrespective of the species (i.e. host range). However, a further comparative genome scan identified a few fractions of loci representing approximately 1% of all loci as different-host associated outliers. These results suggest that these three species had a complex origin, which could be obscured by current gene flow, and that ecological divergence can be maintained with only a small fraction of the genome is related to different host use even when there is a certain degree of gene flow between sympatric species pairs.
Data from: The genetic architecture of ecological adaptation: intraspecific variation in host plant use by the lepidopteran crop pest Chloridea virescens
Intraspecific variation in ecologically important traits is a cornerstone of Darwin's theory of evolution by natural selection. The evolution and maintenance of this variation depends on genetic architecture, which in turn determines responses to natural selection. Some models suggest that traits with complex architectures are less likely to respond to selection than those with simple architectures, yet rapid divergence has been observed in such traits. The simultaneous evolutionary lability and genetic complexity of host plant use in the Lepidopteran subfamily Heliothinae suggest that architecture may not constrain ecological adaptation in this group. Here we investigate the response of Chloridea virescens, a generalist that feeds on diverse plant species, to selection for performance on a novel host, Physalis angulata (Solanaceae). P. angulata is the preferred host of Chloridea subflexa, a narrow specialist on the genus Physalis. In previous experiments, we found that the performance of C. subflexa on P. angulata depends on many loci of small effect distributed throughout the genome, but whether the same architecture would be involved in the generalist's adoption of P. angulata was unknown. Here we report a rapid response to selection in C. virescens for performance on P. angulata, and establish that the genetic architecture of intraspecific variation is quite similar to that of the interspecific differences in terms of the number, distribution, and effect sizes of the QTL involved. We discuss the impact of genetic architecture on the ability of Heliothine moths to respond to varying ecological selection pressures.
Data from: Sex-biased avian host use by arbovirus vectors
Prevalence of arthropod-borne parasites often differs drastically between host sexes. This sex-related disparity may be related to physiological (primarily hormonal) differences that facilitate or suppress replication of the pathogen in host tissues. Alternately, differences in pathogen prevalence between host sexes may be owing to differential exposure to infected vectors. Here, we report on the use of PCR-based assays recognizing bird sex chromosomes to investigate sex-related patterns of avian host use from field-collected female mosquitoes from Florida, USA. Mosquitoes took more bloodmeals from male birds (64.0% of 308 sexed samples) than female birds (36.0%), deviating significantly from a hypothetical 1:1 sex ratio. In addition, male-biased host use was consistent across mosquito species (Culex erraticus (64.4%); Culex nigripalpus (61.0%) and Culiseta melanura (64.9%)). Our findings support the hypothesis that sex-biased exposure to vector-borne pathogens contributes to disparities in parasite/pathogen prevalence between the sexes. While few studies have yet to investigate sex-biased host use by mosquitoes, the methods used here could be applied to a variety of mosquito-borne disease systems, including those that affect health of humans, domestic animals and wildlife. Understanding the mechanisms that drive sex-based disparities in host use may lead to novel strategies for interrupting pathogen/parasite transmission.
Data from: History, geography, and host use shape genome-wide patterns of genetic variation in the redheaded pine sawfly (Neodiprion lecontei)
Divergent host use has long been suspected to drive population differentiation and speciation in plant-feeding insects. Evaluating the contribution of divergent host use to genetic differentiation can be difficult, however, as dispersal limitation and population structure may also influence patterns of genetic variation. In this study, we use double-digest restriction-associated DNA (ddRAD) sequencing to test the hypothesis that divergent host use contributes to genetic differentiation among populations of the redheaded pine sawfly (Neodiprion lecontei), a widespread pest that uses multiple Pinus hosts throughout its range in eastern North America. Because this species has a broad range and specializes on host plants known to have migrated extensively during the Pleistocene, we first assess overall genetic structure using model-based and model-free clustering methods, and identify three geographically distinct genetic clusters. Next, using a composite-likelihood approach based on the site frequency spectrum and a novel strategy for maximizing the utility of linked RAD markers, we infer the population topology and date divergence to the Pleistocene. Based on existing knowledge of Pinus refugia, estimated demographic parameters, and patterns of diversity among sawfly populations, we propose a Pleistocene divergence scenario for N. lecontei. Finally, using Mantel and partial Mantel tests, we identify a significant relationship between genetic distance and geography in all clusters, and between genetic distance and host use in two of three clusters. Overall, our results indicate that Pleistocene isolation, dispersal limitation, and ecological divergence all contribute to genome-wide differentiation in this species, and support the hypothesis that host use is a common driver of population divergence in host-specialized insects.
Data from: Tracing horizontal Wolbachia movements among bees (Anthophila): a combined approach using multilocus sequence typing data and host phylogeny
The endosymbiotic bacterium Wolbachia enhances its spread via vertical transmission by generating reproductive effects in its hosts, most notably cytoplasmic incompatibility (CI). Additionally, frequent interspecific horizontal transfer is evident from a lack of phylogenetic congruence between Wolbachia and its hosts. The mechanisms of this lateral transfer are largely unclear. To identify potential pathways of Wolbachia movements, we performed multilocus sequence typing of Wolbachia strains from bees (Anthophila). Using a host phylogeny and ecological data, we tested various models of horizontal endosymbiont transmission. In general, Wolbachia strains seem to be randomly distributed among bee hosts. Kleptoparasite-host associations among bees as well as other ecological links could not be supported as sole basis for the spread of Wolbachia. However, cophylogenetic analyses and divergence time estimations suggest that Wolbachia may persist within a host lineage over considerable timescales and that strictly vertical transmission and subsequent random loss of infections across lineages may have had a greater impact on Wolbachia strain distribution than previously estimated. Although general conclusions about Wolbachia movements among arthropod hosts cannot be made, we present a framework by which precise assumptions about shared evolutionary histories of Wolbachia and a host taxon can be modelled and tested.
Data from: Epiphytes improve host plant water use by microenvironment modification
1. Epiphytes have the potential to modify the canopy environments in which they grow. Accurately evaluating the impact of epiphytes can be challenging, since plants without epiphytes may also otherwise differ from host plants, and experimental removal is impractical and difficult to replicate in many forests. 2. We studied the impacts of epiphytes (primarily fruticose lichens and Tillandsia spp.) on host plants (Eulychnia saint-pieana and Caesalpinia spinosa) in two fog ecosystems in Chile (Pan de Azucar) and Peru (Atiquipa). These desert ecosystems sustain very high epiphyte loads and depend heavily on fog-water inputs. Using a combination of artificial substrates and epiphyte removals we show significant impacts of epiphytes on their host plants. 3. The presence of epiphytes reduced throughfall volumes, reducing fog and rainfall inputs to the soil beneath host plant canopies. 4. Soil moisture loss rate was increased below cacti after removal of epiphytes from sun-facing but not shade-facing branches. This suggests epiphyte effects on hosts are microclimatic. 5. Epiphytes also buffered temperature fluctuations and reduced daytime vapour pressure deficit (VPD). 6. Epiphytes can have strong effects on host plant ecophysiology and forest ecosystem processes, making them an important component for models and studies of canopy environments.
Data from: A molecular phylogeny and revised higher-level classification for the leaf-mining moth family Gracillariidae and its implications for larval host-use evolution
Gracillariidae are one of the most diverse families of internally feeding insects, and many species are economically important. Study of this family has been hampered by lack of a robust and comprehensive phylogeny. In the present paper, we sequenced up to 22 genes in 96 gracillariid species, representing all previously recognized subfamilies and genus groups, plus 20 outgroups representing other families and superfamilies. Following objective identification and removal of two rogue taxa, two datasets were constructed: dataset 1, which included 12 loci totalling 9927 bp for 94 taxa, and dataset 2, which supplemented dataset 1 with 10 additional loci for 10 taxa, for a total of 22 loci and 16 167 bp. Maximum likelihood analyses strongly supported the monophyly of Gracillariidae and most previously recognized subfamilies and genus groups. On this basis, we propose a new classification consisting of eight subfamilies, four of which are newly recognized or resurrected: Acrocercopinae Kawahara & Ohshima subfam. n.; Gracillariinae Stainton; Lithocolletinae Stainton; Marmarinae Kawahara & Ohshima subfam. n.; Oecophyllembiinae Réal & Balachowsky; Parornichinae Kawahara & Ohshima subfam. n.; Ornixolinae Kuznetzov & Baryshnikova stat. rev.; and Phyllocnistinae Zeller. The subfamily Gracillariinae is restricted to the monophyletic group comprising Gracillaria Haworth and closely related genera. We also formally transfer Acrocercops scriptulata Meyrick to Ornixolinae and use the name Diphtheroptila Vári, creating Diphtheroptila scriptulata comb. n. An exploratory mapping of larval host-use traits on the phylogeny shows strong conservation of modes of leaf mining but much higher lability of associations with host plant orders and families, suggesting that host shifts could play a significant role in gracillariid diversification.
Figs. 1–7. Brachys howdeni. 1 in A New Species ofBrachysDejean, 1833 (Coleoptera: Buprestidae) from the Eastern United States Using an Unusual Host
Figs. 1–7. Brachys howdeni. 1) Dorsal view of adult; 2) Egg; 3) Early instar in mine; 4) Larva; 5) Mines in leaves of Epigaea repens; 6) Newly eclosed adult eating its way out of a mine; 7) Adult feeding damage on E. repens leaf.
Dataset and Code used in ApJ publication: "A novel approach to understanding the link between supermassive black holes and host galaxies"
<p>All the data of this paper is found under BH_M-sigma_compilation/Data</p> <p>The main data tables are found the at BH_M-sigma_compilation/Data/BHcompilation_updated.csv</p> <p>The SDSS data galSpecInfo-dr8.fits and galSpecLine-dr8.fits can be found at: <a href="https://www.sdss3.org/dr8/spectro/spectro_access.php" rel="nofollow">https://www.sdss3.org/dr8/spectro/spectro_access.php</a></p> <p>The main code for this paper is at BH_M-sigma_compilation/Code/Mixture_Upper_Limits and consists of the 3 files for the Stan model, R code and Python code respectively: model.stan stan_fit.r hurdle_model.ipynb</p> <p>The figures generated for the paper can be found at BH_M-sigma_compilation/Figures</p> <p>A novel approach to understanding the link between supermassive black holes and host galaxies © 2024 by Gabriel Sasseville is licensed under CC BY 4.0. To view a copy of this license, visit <a href="https://creativecommons.org/licenses/by/4.0/" rel="nofollow">https://creativecommons.org/licenses/by/4.0/</a></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.