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.
3,693
datasets available to search
ShareScore release 0.9.0
Dataset results
3,693 results for “native”
Mycorrhizal Fungi of Native Red Pine Stands in the Forests of the Huron Mountains (1996-2015).
This data includes mycorrhizal fungi population data in Michigan’s Huron Mountains from 1996-2015 collected by Dana Ritcher. Seven stands consisting of primarily pine forests were surveyed for two separate sampling periods annually during the study period.
Bird Communities in Fragmented, Non-Native Pine Plantations in the Oak Openings Region of Northwest Ohio
Comprehensive surveys, while preferred, are not always feasible due to time, logistical, and funding constraints. However, limited surveys of focal taxa, such as birds, coupled with vegetation surveys, can provide critical information to guide land management. In the 1930s non-native conifers were planted in the Oak Openings Region of northwestern Ohio, a biodiversity hotspot. The stands are declining, and management is needed, but restoration to native habitat is time consuming and expensive. Our research utilized an avian perspective of ecological function of introduced pine plantations versus native remnants to guide management. We surveyed bird activity May through July 2020 with point-counts in nine sites (1.3-2.3 ha) with three each of white pine, red pine, and oak forest sites. At each site, we estimated bird richness, abundance, and diversity, as well as structural characteristics (e.g., canopy cover), composition (e.g., vegetation types), and landscape context (e.g., landcover). Superficially, the pine sites appear to be beneficial as pine habitat for breeding birds, with high Simpson’s indices (up to 0.89) and high species richness compared to oak sites. However, our results reveal that the pines are not truly functioning as pine habitat for birds based on the limited occurrence of pine specialist species, proportion of generalists to pine specialists, and landscape context. Simple measures of diversity with no consideration as to species identity and without the environmental context fail to provide reliable measures of ecological value. Instead, we recommend selective sampling and consideration of landscape context, vegetation structure, and species classification to guide management.
Invasive buffel grass (Cenchrus ciliaris) increases water stress and reduces growth of native foothills palo verde (Parkinsonia microphylla) seedlings in pot experiments
Although buffel grass (Cenchrus ciliaris) invasions on several continents have significant ecological impacts, little information is available on its effect on seedling emergence and establishment of native vegetation. In highly impacted areas of the Sonoran Desert of North America, perennial plants are particularly vulnerable during their seedling stage. We studied the impact of buffel grass on the emergence, survival, and water stress in the seedlings of a locally dominant native tree, the foothills palo verde (Parkinsonia microphylla), using two pot experiments. In the first experiment, we compared the germination, growth, and survival of concentric rings of palo verde seedlings around mature individuals of buffel grass, a native shrub of a similar diameter and height to buffel grass, or in a pot with bare soil. In the second experiment, we compared the competitive effects of buffel grass seedlings on palo verde seedlings with the effects of conspecific seedlings, again using germination, growth, and survival as metrics. We followed up both experiments by quantifying the ratio of stable carbon isotopes in the tissues of the palo verde seedlings, which can be an indicator of water stress. We found evidence of relatively greater water stress in palo verde seedlings grown with buffel grass seedlings in pots than those grown with no competitor, and reduced survival of palo verde seedlings when grown with mature buffel grass. Our results highlight the need for more manipulative studies of density to improve mechanistic understanding of population dynamics, and to forecast how populations and communities will respond in the long term to perturbations such as invasion.
Baltimore Ecosystem Study: Increased diversity of the regional species pool via seeding augments establishment of native species in experimental vacant lot restorations
The harsh geophysical template characterized by the urban environment combined with people’s choices has led ecologists to invoke environmental filtering as the main ecological phenomena explaining urban biodiversity patterns. Yet, dispersal is often overlooked as a driving factor, especially on expanding vacant land. Does overcoming dispersal limitation by seeding native species in urban environments and increasing the functional or phylogenetic diversity of the seeding pool increase native plant species diversity and abundance in urban vacant land? We took an experimental approach to learn how different dimensions of plant biodiversity within an augmented regional species pool, via seed additions, can explain variation in community structure over a 3-year period. Vacant lots were cleared and manipulated with seeding treatments of high or low phylogenetic and functional diversities from a pool of 28 native species. Establishment success, total native cover and native species richness were followed and compared to cleared, unseeded control lots as well as un-manipulated lots. Seeding increased native plant abundance and richness over uncleared plots, as well as cleared and unseeded control plots. Phylogenetically diverse seed mixtures had greater establishment success than mixtures composed of closely related species. Diversifying seed mixtures increased the likelihood of including species that are better able to establish on vacant land. However, there were no differences in varying levels of either functional or phylogenetic diversity. Augmenting the regional species pool via diverse seed mixtures can enhance native plant cover and richness under the harsh environmental conditions conferred by land abandonment.
Contrasting plant adaptation strategies to latitude in the native and invasive range of Spartina alterniflora: geographic survey (2014) and Common garden (2015-2017)
We examined trait differences and evolution across geographic clines among continents of the intertidal grass Spartina alterniflora within its invasive and native ranges. Between September and November 2014, we sampled vegetative and reproductive traits in the field at 20 sites over 20° latitude in China (invasive range) and 28 sites over 17° latitude in the US (native range). We grew both Chinese and US plants in a greenhouse common garden for three years (2015 - 2017) to determine if differences in performance of S. alterniflora between the introduced and native ranges were due to genetic differences or differences in abiotic conditions.
Short-term disappearance of foliar litter of three tree species native to rain forest of Puerto Rico
Litter disappearance was examined before (1989) and after (1990) Hurricane Hugo in the Luquillo Experimental Forest, Puerto Rico using mesh litterbags containing abscised Cyrilla racemiflora or Dacryodes excelsa leaves or fresh Prestoea montana leaves. Biomass and nitrogen dynamics were compared among: i) species; ii) mid- and high-elevation forest types; iii) riparian and upland sites; and iv) among pre- and post-hurricane disturbed environments. Biomass disappearance was compared using multiple regression and negative exponential models in which the slopes were estimates of the decomposition rates subsequent to apparent leaching losses and the y-intercepts were indices of initial mass losses (leaching). C. racemiflora leaves with low nitrogen (0.39 %) and high lignin (22.1 %) content decayed at a low rate and immobilized available nitrogen. D. excelsa leaves had moderate nitrogen (0.67 %) and lignin (16.6 %) content, decayed at moderate rates, and maintained the initial nitrogen mass. P. montana foliage had high nitrogen (1.76 %) and moderate lignin (16.7 %) content and rapidly lost both mass and nitrogen. There were not significant differences in litter disappearance and nitrogen dynamics among forest types and slope positions. Initial mass loss of C. racemiflora leaves was lower in 1990 but the subsequent decomposition rate did not change. Initial mass losses and the overall decomposition rates were lower in 1990 than in 1989 for D. excelsa. D. excelsa and C. racemiflora litter immobilized nitrogen in 1990 but released 10-15% of their initial N in 1989, whereas P. montana released nitrogen in both years (25-40 %). Observed differences in litter disappearance rates between years may have been due to differences in the timing of precipitation. Foliar litter inputs during post-hurricane recovery of vegetation in Puerto Rico may serve to immobilize and conserve site nitrogen. Support for this work was provided by grants BSR-8811902, DEB-9411973, DEB-9705814 , DEB-00
Dataset of Proportion of non-native plants in urban parks correlates with climate, socioeconomic factors and plant traits
<p>Full datasets for the research entitled 'Proportion of non-native plants in urban parks correlates with climate, socioeconomic factors and plant traits'.</p>
Harnessing the power of digitized natural history collections to visualize spatiotemporal patterns in native and non-native bee flight phenology
<p>What time of year are bees flying, where are they flying, and how do biogeographical factors, sex, and native status affect flight phenology? Consistent monitoring along with creating spatially and temporally explicit visualizations using large openly available data sets enhance our understanding of trends in flight time phenology and shape our understanding of bee-plant interactions, including shifts in the phenology of bee pollinators.</p> <p>Species occurrence data from digitized collection networks (iNaturalist, Global Biodiversity Information Faculty (GBIF), Integrated Digitized Biocollections (iDigBio), Symbiota Collections of Arthropods Network (SCAN), and UC Santa Barbara Collection Network) are part of an effort to improve our understanding of bees in coastal Santa Barbara County, including the California Channel Islands. New inventory collections combined with historical data from over 11 natural history museums and 2 observation networks are used in an effort to examine patterns and changes in phenology of native and non-native bee species, and create updated species inventories.</p> <p>Synthesizing species observation data from digitized natural history collections makes use of a wealth of existing data and multiplies the analytical power of isolated observations, but it is not without limitations and challenges. By exploring novel techniques to generate clear and accurate visualizations to communicate bee flight time, we present our key initial findings and identify geographic, temporal, and taxonomic gaps, which will lead to further focused inventory projects of coastal Santa Barbara County, improved data quality for phenological analyses, and reusable methods for visualizing insect phenology data across taxa or geography.</p> <p><strong>The attached files include the R code and some of the .csv files used to produce the figures in my poster that was available on demand at the Entomology Society of America 2020 virtual meeting. </strong></p>
Diffraction images of crystals of the spectrin repeats 7 and 8 (SR7-SR8) of the plakin domain of human plectin (PDB code 5J1G): native and Hg-derivative datasets for phasing by SIRAS
<p>Diffraction images of crystals of a fragment of the plakin domain of human plectin that includes the spectrin repeats 7 to 8 (SR7-SR8).</p> <p>Images correspond to the dataset used to solve and refine the pdb entry <strong>5J1G</strong> (http://www.rcsb.org/pdb/explore/explore.do?structureId=5J1G).</p> <p> </p> <p>The structure was phase by single isomorphous replacement with anomalous scattering (SIRAS) using two datasets: one from a native crystal and another one from a crystal derivatized with the mercurial compound ethylmercurithiosalicylate (EMTS).</p> <p> </p> <p>The <strong>Native dataset</strong> was collected on a single crystal at the beamline XALOC of the ALBA Synchrotron (Barcelona, Spain) using radiation of 0.9792 Å wavelength and a PILATUS 6M detector. The dataset consists of 4 wedges of 450 images each (0.2º oscillation per image). Each wedge was collected at a different position of the same crystal. The crystals belong to the space group P2<sub>1</sub> with approximate cell dimensions <em>a</em>=45.7 Å, <em>b</em>=115.9 Å, <em>c</em>=64.8 Å, beta=97.6 º.</p> <p> </p> <p>The data from a <strong>mercurial derivative</strong> (EMTS) was collected in house using a rotating anode X-ray generator (wavelength 1.54179 Å) and a mar345 image plate detector. The dataset consists of 360 images (1º oscillation per image). The crystal was isomorphic to the native crystal.</p> <p> </p> <p>In addition to the diffraction images the following files are included:</p> <p>a) Files for indexing with the program XDS and the HKL files containing the integrated intensities.</p> <p>b) Files for scaling using the program xscale (directory XSCALE_5J1G_Native_EMTS).<br> c) The directory “phasing_shelx” contains hkl files of the intensities of the native and EMTS datasets in a format suitable for analysis with Shelx. This directory also contains the files of the phasing by SIRAS using Shelx C/D/E.</p>
Supplementary Information for "Nucleoside Phosphorylases Make N7-Xanthosine, a "Non native" Regioisomer of Xanthosine"
<p>This is the external Supplementary Information for our publication "Nucleoside Phosphorylases Make N7-Xanthosine, a "Non native" Regioisomer of Xanthosine".</p> <p>The .pdf file contains the Supplementary Information: author contributions, accessibility statement, experimental procedures, and supplementary items, among others.</p> <p>The .zip file contains the raw data and metadata for all items (supplementary and main text) as well as the calculation results. This includes UV, HPLC, NMR, HRMS, and DFT results. The full set of raw HPLC chromatograms is - unfortunately - only available to us in a proprietary file format but we are happy to share these data upon request. This revised version contains additional UV data on experiments excluding oxidation of xanthine to uric acid as well as additional NMR data on purified N7-xanthosine and reference data for N9-xanthosine and xanthine in D2O.</p> <p>To some extent, this work builds on and borrows from our previous publications on spectral unmixing (https://doi.org/10.3390/mps2030060, https://doi.org/10.1002/cbic.202000204), continuous reaction monitoring (https://doi.org/10.1021/acs.analchem.1c05356), and thermodynamic reaction control (https://doi.org/10.1002/adsc.201901230, https://doi.org/10.5281/zenodo.3568858, https://doi.org/10.1002/cphc.202000901, https://doi.org/10.1021/acscatal.1c02589).</p>
How do native and non-native speakers recognize emotions in the instructor's voice in educational videos? Exploring the first step of the cognitive-affective model of e-learning for international learners [dataset]
<p>Dataset for the journal article <em>How do native and non-native speakers recognize emotions in the instructor’s voice in educational videos? Exploring the first step of the cognitive-affective model of e-learning for international learners.</em></p>
Supplementary material 3 from: Bongard C, Butler K, Fulthorpe R (2013) Investigation of fungal root colonizers of the invasive plant Vincetoxicum rossicum and co-occurring local native plants in a field and woodland area in Southern Ontario. Nature Conservation 4: 55-76. https://doi.org/10.3897/natureconservation.4.3578
Supplementary material 3 from: Bongard C, Butler K, Fulthorpe R (2013) Investigation of fungal root colonizers of the invasive plant Vincetoxicum rossicum and co-occurring local native plants in a field and woodland area in Southern Ontario. Nature Conservation 4: 55-76. https://doi.org/10.3897/natureconservation.4.3578
Soil pH, developmental stages and geographical origin differently influence the root metabolomic diversity and root-related microbial diversity of Echium vulgare from native habitats
<p>R Studio codes and ASV table used to analyze the microbiome data of our Echium vulgare microbial ecology experiment. </p>
Data for Stabilization of non-native folds and programmable protein gelation in compositionally designed deep eutectic solvents
<div> <p>Full set of data related to the publication "Stabilization of non-native folds and programmable protein gelation in compositionally designed deep eutectic solvents", published in ACS Nano with DOI:<a title="https://doi.org/10.1021/acsnano.4c01950" href="https://doi.org/10.1021/acsnano.4c01950">10.1021/acsnano.4c01950</a></p> <p> Full details on data treatment and logging are included in the file "DataLogging.pdf". All data use ASCII encoding in delimited .txt files.</p> <p> </p> </div>
A proteome-wide quantitative platform for nanoscale spatially resolved extraction of membrane proteins into native nanodiscs
<p><strong>EM Quantitation:</strong></p> <p>Raw data gathered from EM images taken to determine nanodisc population size distribution.</p> <p> </p> <p><strong>NNB TGN46 analysis:</strong></p> <p>Data analysis of the Native Nanobleach experiments of TGN46 in native nanodiscs to determine population distribution of oligomeric organizations.</p> <p> </p> <p><strong>Polymer conditions:</strong></p> <p>Physiochemical characteristic and extraction conditions for all polymers in the library both commercially available and in-house.</p> <p> </p> <p><strong>Protein groups polymer screen original file:</strong></p> <p>Original output of MaxQuant data processing of polymer screen data.</p> <p> </p> <p><strong>Organelle matching:</strong></p> <p>Code used for mathcing proteins identified in the proteomics output to organelle or residence for all organellar annotations.</p> <p> </p> <p><strong>Polymer code:</strong></p> <p>Code used to process and normalize the MaxQuant output and calulate extraction efficiency across all detected proteins.</p> <p> </p> <p><strong>MAP Library Details:</strong></p> <p>Graphic and table explaining chemical details of all polymer used in the screen, both commerically available and in-house synthesized.</p> <p> </p> <p><strong>NNB TGN46:</strong></p> <p>Raw scope files for the TIRF microscopy single molecule step photobleaching experiment with TGN46.</p> <p> </p> <p><strong>Organellar Breakdown Database:</strong></p> <p>Proteins detected in the polymer screen through proteomics experiments stratified into organelle of residence.</p> <p> </p> <p><strong>Human Proteome FASTA:</strong></p> <p>The FASTA file used for proteome searching in processing the proteomics data to build the screening database.</p> <p> </p> <p><strong>Hand Curated Organellar Proteomes:</strong></p> <p>Organellar proteomes used for organellar sorting and identification of proteins detected in the screen.</p> <p> </p> <p><strong>Polymer SEC Superdex75:</strong></p> <p>Size exculsion chromatography traces for chloroSMA series of polymers. Was used to characterize length and population polydispersity.</p> <p> </p> <p><strong>Negative Stain Raw:</strong></p> <p>RAW TEM scope images of purified synaptophysin-vamp2 containing nanodiscs. Populatoin size distribution was determined.</p> <p> </p> <p><strong>FSEC Polymer CS80:</strong></p> <p>Fluoresence size exclusion chromatogram for purified synaptophysin-vamp2 containing nanodiscs to ensure population homogeneity and purity.</p> <p><strong>NMR Raw data:</strong></p> <p>NMR raw files for characterizing the in-house synthesized Chloro-SMA series and AASTY series.</p> <p> </p>
Data from "Resource pulses drive spatio-temporal dynamics of non-native bark beetles and wood borers"
<p>This is a compilation of datasets that were used for the publication entitled "Resource pulses drive spatio-temporal dynamics of non-native bark beetles and wood borers" by Eckehard G. BROCKERHOFF, Stephanie L. SOPOW, and Martin K.-F. BADER, published in the Journal of Applied Ecology, 'in press' in October 2024.</p> <p>Note: The date format is either (i) season (spring/summer/autumn/winter) plus a two-figure short form for the year (e.g., "autumn08" stands for autumn 2008), or (ii) just the year for an annual total in either four- or two-figure form in the file name (e.g., "reg2010sums.csv" or "reg10sums.csv" for the year 2010).</p> <p>1. File "mean_trap_catches.csv" = Data used for Fig. 1 - Mean trap catch data of Hylastes ater, Hylurgus ligniperda and Arhopalus ferus over time in Kaingaroa forest stands 378 ("F2006"), 377 ("F2009"), and 383 ("F2010"). For further explanations see methods of Brockerhoff et al. (2024).</p> <p>2. File "reg2010sums.csv" = Data used for Fig. 2 - Year 2010, annual trap catches of Hylastes ater, Hylurgus ligniperda and Arhopalus ferus indicating approximate dispersal distances between Pinus radiata stands. For details see caption of Fig. 2 in Brockerhoff et al. (2024).</p> <p>3. File "reg2010sums.csv" = Data used for Fig. 2 - Year 2011, annual trap catches of Hylastes ater, Hylurgus ligniperda and Arhopalus ferus indicating approximate dispersal distances between Pinus radiata stands. For details see caption of Fig. 2 in Brockerhoff et al. (2024).</p> <p>4. File "reg2010sums.csv" = Data used for Fig. 2 - Year 2012, annual trap catches of Hylastes ater, Hylurgus ligniperda and Arhopalus ferus indicating approximate dispersal distances between Pinus radiata stands. For details see caption of Fig. 2 in Brockerhoff et al. (2024).</p> <p>5. File "reg10sums.csv" = Data used for Fig. 3 - Year 2010, annual trap catches of Hylastes ater, Hylurgus ligniperda and Arhopalus ferus indicating approximate dispersal distances between Pinus radiata stands. For details see caption of Fig. 3 in Brockerhoff et al. (2024).</p> <p>6. File "reg11sums.csv" = Data used for Fig. 3 - Year 2011, annual trap catches of Hylastes ater, Hylurgus ligniperda and Arhopalus ferus indicating approximate dispersal distances between Pinus radiata stands. For details see caption of Fig. 3 in Brockerhoff et al. (2024).</p> <p>7. File "reg12sums.csv" = Data used for Fig. 3 - Year 2012, annual trap catches of Hylastes ater, Hylurgus ligniperda and Arhopalus ferus indicating approximate dispersal distances between Pinus radiata stands. For details see caption of Fig. 3 in Brockerhoff et al. (2024).</p> <p>8. File "hylu2010-fitted_dispersal_to_5km-Version_23May2024.csv" = Data shown in Fig. 4 - Extension of the prediction range to 5 km of Hylurgus ligniperda dispersal data, using a generalised additive mixed model (GAMM) with beta distributed errors and the default logarithmic link. For details see caption of Fig. 4 and methods in Brockerhoff et al. (2024).</p> <p> </p>
Resource use strategies, resistance and tolerance to aerial biomass removal in Argentina mid-west native plants
<p>Dataset of the PhD Thesis from Lucas D. Gorné:<br> - Gorné LD. 2018. Estrategias de uso de recursos, resistencia y tolerancia a la remoción de biomasa aérea en plantas nativas del centro-oeste de Argentina. Tesis del Doctorado en Ciencias Biológicas. Facultad de Ciencias Exactas, Físicas y Naturales. Universidad Nacional de Córdoba. Córdoba, Argentina. https://ri.conicet.gov.ar/handle/11336/87925.</p>
Apo PTP1B by Native S-SAD at Room Temperature
<p>Intermediate processing results used to solve a structure of apo PTP1B by native S-SAD at room temperature.</p>
Data from: Efficacy of labile carbon addition to reduce fast-growing, invasive non-native plants: A review and meta-analysis
<p>Data and analysis in R for the publication "Efficacy of labile carbon addition to reduce fast-growing, invasive non-native plants: A review and meta-analysis" by Ossanna & Gornish (2023), <em>Journal of Applied Ecology</em>, <em>60</em>(2), 218-228. <a href="http://doi.org/10.1111/1365-2664.14324">https://doi.org/10.1111/1365-2664.14324</a>.</p>
Native and exotic plants play different roles in urban pollination networks across seasons
<p>Datasets for 'Native and exotic plants play different roles in urban pollination networks across seasons' by Zaninotto et al. (2023) in Oecologia.</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.