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.
4,034
datasets available to search
ShareScore release 0.7.1
Dataset results
4,034 results for “Species associations”
Data from: Ecological co-associations influence species' responses to past climatic change: an example from a Sonoran Desert bark beetle
Ecologically interacting species may have phylogeographic histories that are shaped both by features of their abiotic landscape, and by biotic constraints imposed by their co-association. The Baja California peninsula provides an excellent opportunity to examine the influence of abiotic vs. biotic factors on patterns of diversity in plant-insect species. This is because past climatic and geological changes impacted the genetic structure of plants quite differently to that of co-distributed free-living animals (e.g., herpetofauna and small mammals). Thus, 'plant-like' patterns should be discernible in host-specific insect herbivores. Here we investigate the population history of a monophagous bark beetle, Araptus attenuatus, and consider drivers of phylogeographic patterns in light of previous work on its host plant, Euphorbia lomelii. Based on mitochondrial and nuclear markers, we found that the evolutionary history of A. attenuatus exhibits similarities to host plant that are attributable to both biotic and abiotic processes. Southward range expansion and recent colonization of continental Sonora peninsula appear to be unique to this taxon pair, and likely reflect influences of the host plant. On the other hand, abiotic factors with landscape-level influences on suites of co-distributed taxa, such as Plio- and Pleistocene-aged marine incursions in the region, also left genetic signatures in beetle populations. Superimposed on these similarities, bark beetle-specific patterns and processes were also evident. Taken together, this work illustrates that the evolutionary history of species-specific insect herbivores may represent a mosaic of influences, including—but not limited to—those imposed by the host plant.
Data from: Habitat diversity associated with island size and environmental filtering control the species richness of rock-savanna plants in neotropical inselbergs
Disentangling the multiple factors controlling species diversity is a major challenge in ecology. Island biogeography and environmental filtering are two influential theories emphasizing respectively island size and isolation, and the abiotic environment, as key drivers of species richness. However, few attempts have been made to quantify their relative importance and investigate their mechanistic basis. Here, we applied structural equation modelling, a powerful method allowing test of complex hypotheses involving multiple and indirect effects, on an island-like system of 22 French Guianan neotropical inselbergs covered with rock-savanna. We separated the effects of size (rock-savanna area), isolation (density of surrounding inselbergs), environmental filtering (rainfall, altitude) and dispersal filtering (forest-matrix openness) on the species richness of all plants and of various ecological groups (terrestrial versus epiphytic, small-scale versus large-scale dispersal species). We showed that the species richness of all plants and terrestrial species was mainly explained by the size of rock-savanna vegetation patches, with increasing richness associated with higher rock-savanna area, while inselberg isolation and forest-matrix openness had no measurable effect. This size effect was mediated by an increase in terrestrial-habitat diversity, even after accounting for increased sampling effort. The richness of epiphytic species was mainly explained by environmental filtering, with a positive effect of rainfall and altitude, but also by a positive size effect mediated by enhanced woody-plant species richness. Inselberg size and environmental filtering both explained the richness of small-scale and large-scale dispersal species, but these ecological groups responded in opposite directions to altitude and rainfall, that is positively for large-scale and negatively for small-scale dispersal species. Our study revealed both habitat diversity associated with island size and environmental filtering as major drivers of neotropical inselberg plant diversity and showed the importance of plant species growth form and dispersal ability to explain the relative importance of each driver.
Data from: Information dropout patterns in restriction site associated DNA phylogenomics and a comparison with multilocus Sanger data in a species-rich moth genus
A rapid shift from traditional Sanger sequencing-based molecular methods to the phylogenomic approach with large numbers of loci is underway. Among phylogenomic methods, RAD (Restriction site Associated DNA) sequencing approaches have gained much attention as they enable rapid generation of up to thousands of loci randomly scattered across the genome and are suitable for non-model species. RAD data sets however suffer from large amounts of missing data and rapid locus dropout along with decreasing relatedness among taxa. The relationship between locus dropout and the amount of phylogenetic information retained in the data has remained largely un-investigated. Similarly, phylogenetic hypotheses based on RAD have rarely been compared with phylogenetic hypotheses based on multilocus Sanger sequencing, even less so using exactly the same species and specimens. We compared the Sanger-based phylogenetic hypothesis (8 loci; 6,172 bp) of 32 species of the diverse moth genus Eupithecia (Lepidoptera, Geometridae) to that based on double-digest RAD sequencing (3,256 loci; 726,658 bp). We observed that topologies were largely congruent, with some notable exceptions that we discuss. The locus dropout effect was strong. We demonstrate that number of loci is not a precise measure of phylogenetic information since the number of single-nucleotide polymorphisms (SNPs) may remain low at very shallow phylogenetic levels despite large numbers of loci. As we hypothesize, the number of SNPs and parsimony informative SNPs (PIS) is low at shallow phylogenetic levels, peaks at intermediate levels and, thereafter, declines again at the deepest levels as a result of decay of available loci. Similarly, we demonstrate with empirical data that the locus dropout affects the type of loci retained, the loci found in many species tending to show lower interspecific distances than those shared among fewer species. We also examine the effects of the numbers of loci, SNPs and PIS on nodal bootstrap support, but could not demonstrate with our data our expectation of a positive correlation between them. We conclude that RAD methods provide a powerful tool for phylogenomics at an intermediate phylogenetic level as indicated by its broad congruence with an eight-gene Sanger data set in a genus of moths. When assessing the quality of the data for phylogenetic inference, the focus should be on the distribution and number of SNPs and PIS rather than on loci.
Data from: Leaf litter nutrient uptake in an intermittent blackwater river: influence of tree species and associated biotic and abiotic drivers
1. Organic matter may sequester nutrients as it decomposes, increasing in total N and P mass via multiple uptake pathways. During leaf litter decomposition, microbial biomass and accumulated inorganic materials immobilize and retain nutrients, and therefore, both biotic and abiotic drivers may influence detrital nutrient content. We examined the relative importance of these types of nutrient immobilization and compared patterns of nutrient retention in recalcitrant and labile leaf litter. 2. Leaf packs of water oak (Quercus nigra), red maple (Acer rubrum) and Ogeechee tupelo (Nyssa ogeche) were incubated for 431 days in an intermittent blackwater stream and periodically analysed for mass loss, nutrient and metal content, and microbial biomass. These data informed regression models explaining temporal changes in detrital nutrient content. Informal exploratory models compared estimated biologically associated nutrient stocks (fungal, bacterial, leaf tissue) to observed total detrital nutrient stocks. We predicted that (i) labile and recalcitrant leaf litter would act as sinks at different points in the breakdown process, (ii) plant and microbial biomass would not account for the entire mass of retained nutrients, and (iii) total N content would be more closely approximated than total P content solely from nutrients stored in leaf tissue and microbial biomass, due to stronger binding of P to inorganic matter. 3. Labile litter had higher nutrient concentrations throughout the study. However, lower mass loss of recalcitrant litter facilitated greater nutrient retention over longer incubations, suggesting that it may be an important long-term sink. N and P content were significantly related to both microbial biomass and metal content, with slightly stronger correlation with metal content over longer incubations. 4. Exploratory models demonstrated that a substantial portion of detrital nutrients was not accounted for by living or dead plant and microbial biomass, especially in the case of N. This suggests increased importance of both N and P sorption to inorganic matter over time, with possible additional storage of N complexed with lignin. A better understanding of the influence of these mechanisms may improve our understanding of detrital nutrient uptake, basal resource quality and retention and transport of nutrients in aquatic ecosystems.
Data from: Cuticular hydrocarbons as potential mediators of cryptic species divergence in a mutualistic ant association
Upon advances in sequencing techniques, more and more morphologically identical organisms are identified as cryptic species. Often, mutualistic interactions are proposed as drivers of diversification. Species of the Neotropical parabiotic ant association between Crematogaster levior and Camponotus femoratus are known for highly diverse cuticular hydrocarbon (CHC) profiles, which in insects serve as desiccation barrier but also as communication cues. In the present study we investigated the association of the ants' CHC profiles to genotypes and morphological traits, and discovered cryptic species pairs in both genera. To assess putative niche differentiation between the cryptic species, we conducted an environmental association study that included various climate variables, canopy cover, and mutualistic plant species. Although mostly sympatric, the two Camponotus species seem to prefer different climate niches. However in the two Crematogaster species, we could not detect any differences in niche preference. The strong differentiation in the CHC profiles may thus suggest either a possible role during speciation itself by inducing assortative mating, or by reinforcing sexual selection after the speciation event. We did not detect any further niche differences in the environmental parameters tested. Thus, it remains open how the cryptic species avoid competitive exclusion, with scope for further investigations.
FIGURE 1 in New species of Trichogramma Westwood (Hymenoptera: Trichogrammatidae) associated with lepidopterous eggs in Brazil
FIGURE 1. Genital capsule: a – Trichogramma bertii n. sp.; b Trichogramma esalqueanum n. sp.; c Trichogramma iracildae n. sp.; d Trichogramma pratissolii n. sp. (1 – ventral; 2 – dorsal; scale 20 m).
FIGURE 4. Trichogramma pratissolii n in New species of Trichogramma Westwood (Hymenoptera: Trichogrammatidae) associated with lepidopterous eggs in Brazil
FIGURE 4. Trichogramma pratissolii n. sp. Basiconic sensillum: a position 3 (20590x, 1 m).Genital capsule: b1 dorsal view (1460x, 10 m); b2 ventral view (1460x, 10 m)
FIGURES 1−4 in The identity of the Carsidara species (Hemiptera: Psylloidea: Carsidaridae) associated with Firmiana simplex (Malvaceae) in Japan and Korea
FIGURES 1−4. Habitus of Carsidara limbata (Enderlein). 1. Male. 2. Female. 3. Fifth instar immature, completely covered in wax. 4. Group of immatures on the underside of a leaf of Firmiana simplex covered in flocculant wax and wax coated droplets of honeydew.
FIGURES 5−11. Carsidara limbata. 5. Head, dorsal view. 6 in The identity of the Carsidara species (Hemiptera: Psylloidea: Carsidaridae) associated with Firmiana simplex (Malvaceae) in Japan and Korea
FIGURES 5−11. Carsidara limbata. 5. Head, dorsal view. 6. Forewing, dashed line in cell c+sc represents the area with surface spinules. 7. Male terminalia, in profile. 8. Female terminalia, in profile. 9. Paramere, inner surface. 10. Distal segment of aedeagus, in profile. 11. Paramere, from behind. Scale = 0.1mm.
FIGURES 9–10 in Description of a new Oriental stonefly species, Phanoperla constanspina (Plecoptera: Perlidae) from Mindanao, Philippines and association of life stages using DNA barcoding
FIGURES 9–10. Phanoperla constanspina sp. nov. male nymph. (9) Right mandible. (10) Right foreleg. Scale = 0.5 mm.
FIGURE 12 in Description of a new Oriental stonefly species, Phanoperla constanspina (Plecoptera: Perlidae) from Mindanao, Philippines and association of life stages using DNA barcoding
FIGURE 12. Phanoperla constanspina sp. nov. male nymph. (A) Suture of anterolateral submental lobes. (B) Mesosternum posterior margin pointing fringes of hairs. (C) One pair of posterocoxal gill of hindleg.
FIGURE 7 in Description of a new Oriental stonefly species, Phanoperla constanspina (Plecoptera: Perlidae) from Mindanao, Philippines and association of life stages using DNA barcoding
FIGURE 7. Phenotypic variation of six adult male Phanoperla constanspina sp. nov. based on the shape and structure of hemitergites (HT) and unbranched anterior process (AP), adorned with variable short setae on tergum 9. (A) (Haplotype: A- G23.m) Medium-sized AP, body and slightly bent on the pointed apex, setal patches isolated from each other. (B) (Haplotype: A-H7.m) AP small and pointed, setae located above the apical tip adjacent to each other. (C) (Haplotype: A-H16.m) Plump base and small AP (Fig. 5), with slightly pointed tip, paired setal patches adjacent and overlapping. (D) (Haplotype: A-H12.m) Medium and longer AP, bent on the inner side near the apex, setal patches fused, distributed along and near the process. (E) (Haplotype: A-E23.m) AP blunt on the tip in a medium-sized body, setal patches adjacent. (F) (Haplotype: A-H11.m) HT and AP broad and plump, resembling a hook-like structure at the tip, setal patches adjacent.
FIGURE 2 in Description of a new Oriental stonefly species, Phanoperla constanspina (Plecoptera: Perlidae) from Mindanao, Philippines and association of life stages using DNA barcoding
FIGURE 2. Phanoperla constanspina sp. nov. male wing. (2A) Right forewing, showing the forking of Cu2 from Cu1. (2B) Right hindwing. Scale = 1.00 mm.
FIGURES 1 in Description of a new Oriental stonefly species, Phanoperla constanspina (Plecoptera: Perlidae) from Mindanao, Philippines and association of life stages using DNA barcoding
FIGURES 1. Phanoperla constanspina sp. nov. head and pronotum. (1A) Male adult, indicating occipital line. (1B) Female adult. Scale = 1.00 mm.
FIGURES 3–4 in Description of a new Oriental stonefly species, Phanoperla constanspina (Plecoptera: Perlidae) from Mindanao, Philippines and association of life stages using DNA barcoding
FIGURES 3–4. Phanoperla constanspina sp. nov. male. (3) Right foreleg. (4) Abdominal sternite showing hair brushes on each segment (S5–S8). Penial capsule visible on S9. Scale = 1.00 mm.
FIGURE 5 in Description of a new Oriental stonefly species, Phanoperla constanspina (Plecoptera: Perlidae) from Mindanao, Philippines and association of life stages using DNA barcoding
FIGURE 5. Phanoperla constanspina sp. nov. male dorsal terminalia showing the hemitergal (arrow) and paired clumps of short setae located on medial tergum 9. Scale = 1.00 mm.
FIGURES 1–3. Fig. 1 in Three new species of Tracholena Common, 1965 (Lepidoptera: Tortricidae: Tortricinae: Schoenotenini) from New Caledonia associated with Araucariaceae
FIGURES 1–3. Fig. 1. Tracholena nigrilinea sp. nov. Male, Ponerihouen, habitus. (LH wings omitted). Fig. 2. T. liparodes sp. nov. PT male, Mt Panié, habitus. Fig. 3. T. paniense sp. nov. PT male, Mt Panié, habitus. (Scales represent 0.5 mm)
FIGURES 11–15. Fig. 11. T in Three new species of Tracholena Common, 1965 (Lepidoptera: Tortricidae: Tortricinae: Schoenotenini) from New Caledonia associated with Araucariaceae
FIGURES 11–15. Fig. 11. T. paniense, PT male, genitalia, Mt Panié [NZAC prep. L878]. Fig. 12. T. nigrilinea, female genitalia, Baie des Tortues [NZAC prep. 866]. Fig. 13. T. liparodes, PT female genitalia, Mt Panié [NZAC prep. L 873, 874]. Fig. 14. T. paniense PT female genitalia: ductus and corpus bursae, Mt Panié [NZAC prep. 877]. Fig. 15. T. paniense PT female genitalia: ovipositor, sterigmal and limen structure [NZAC prep. L877]. (All scales represent 0.5 mm.)
FIGURES 1–10. Fig. 4. T in Three new species of Tracholena Common, 1965 (Lepidoptera: Tortricidae: Tortricinae: Schoenotenini) from New Caledonia associated with Araucariaceae
FIGURES 1–10. Fig. 4. T. paniense. PT male fore and hind wing venation [NZAC prep. 875]. Fig. 5. T. nigrilinea. Fore and hind wing venation, male [NZAC prep. L862]. (Outer scale tuft across vein CuA2 omitted.) Fig. 6. T. liparodes sp. nov. Hind wing M2M3CuA1 disposition. Fig. 7. T. paniense, male flagellomere 10, ventral, showing widely separated sensillae coeloconica. [NZAC prep. L879]. Fig. 8. T. nigrilinea, PT male, genitalia, Ponerihouen [NZAC prep. L859]. Fig. 9. T. liparodes, PT male, aedeagus and bulbus ejaculatorius, Mt Panié [NZAC prep. L872]. Fig. 10. T. liparodes PT male, genitalia, Mt Panié [NZAC prep. L880]. (Scales by Figs 4 & 5 repesent 1.0 mm; those by Figs 6, 8–10, 0.5 mm.)
FIGURE 2. Notostrix spinula n in A new genus and five new species of Eriophyoidea (Prostigmata) associated with palm trees from Brazilian Amazon
FIGURE 2. Notostrix spinula n. sp. D. Dorsal habitus of female. V. Ventral habitus of female. L. Lateral habitus of female. CGM. Coxigenital region of male. L1. Leg I. L2. Leg II. E. empodium.
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.