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.
215
datasets available to search
ShareScore release 0.9.0
Dataset results
215 results for “insect biodiversity”
The FAIR-Device - a non-lethal and generalist semi-automatic Malaise trap for insect biodiversity monitoring: Proof of concept - Supplementary Material
<h3>Abstract</h3> <p>Field monitoring plays a crucial role in understanding insect dynamics within ecosystems. It facilitates pest distribution assessment, control measure evaluation, and prediction of pest outbreaks. Additionally, it provides important information on bioindicators with which the state of biodiversity and ecological integrity in specific habitats and ecosystems can be accurately assessed. However, traditional monitoring systems can present various difficulties, leading to a limited temporal and spatial resolution of the obtained information. Despite recent advancements in automatic insect monitoring traps, also called e-traps, most of these systems focus exclusively on studying agricultural pests, rendering them unsuitable for monitoring diverse insect populations. To address this issue, we introduce the Field Automatic Insect Recognition (FAIR)-Device, a novel non-lethal field tool that relies on semi-automatic image capture and species identification using artificial intelligence via the iNaturalist platform. Our objective was to develop an automatic, cost-effective, and non-specific monitoring solution capable of providing high-resolution data for assessing insect diversity. During a 26-day proof-of-concept evaluation, the FAIR-Device recorded 24.8 GB of video, identifying 431 individuals from 9 orders, 50 families, and 69 genera. While improvements are possible, our device demonstrated potential as a cost-effective, non-lethal tool for monitoring insect biodiversity. Looking ahead, we envision new monitoring systems such as e-traps as valuable tools for real-time insect monitoring, offering unprecedented insights for ecological research and agricultural practices.</p> <h3>Description of the data and file structure</h3> <p>This repository complements the publication <a href="https://www.biorxiv.org/content/10.1101/2024.03.22.586299v2" target="_blank" rel="noopener">"The FAIR-Device - a non-lethal and generalist semi-automatic Malaise trap for insect biodiversity monitoring: Proof of concept".</a> It contains the result data from the proof of concept field test of V1.0 of the FAIR-Device, conducted between July and August 2021 at the Thünen Institute of Agricultural Technology in Braunschweig. The repository comprises three compressed files (.zip):</p> <ul> <li><strong>FAIR-D_captures.zip</strong>: <ul> <li>Video captures from the field tests organized by recording day.</li> <li>Filenames indicating recording time (hh-mm-ss).</li> </ul> </li> </ul> <ul> <li><strong>FAIR-D_Tables&Code.zip</strong>: <ul> <li>Processed results from the obtained image captures, organized into: <ul> <li><strong>Monitoring2021_TotalPeriod.xlsx: </strong>Result table with taxonomic classifications, data analysis, and charts.</li> <li><strong>iNat_observations.xlsx: </strong>iNaturalist reviews analysis table.</li> <li><strong>R: </strong>code for generating article graphics.</li> </ul> </li> </ul> </li> </ul> <ul> <li><strong>FAIR-D_V1.0_3D_Models.zip</strong>: <ul> <li>Complete 3D design of the FAIR-D V1.0 in .stl format, organized into: <ul> <li><strong>3D_print_parts</strong>: 3D-printable parts with spatial coordinates for correct positioning in CAD software.</li> <li><strong>other_3Dparts</strong>: Non-printable parts, also in .stl format with spatial coordinates.</li> </ul> </li> </ul> </li> </ul> <p> </p> <p>NOTE: For visualizing the videos, we recommend <strong>VLC media player</strong> - <a href="https://www.videolan.org/vlc/">https://www.videolan.org/vlc/</a> </p>
Supplementary Data for: A time-calibrated 'Tree of Life' of aquatic insects for knitting historical patterns of evolution and measuring extant phylogenetic biodiversity across the world
<p>This compendium of files includes the dated phylogenetic tree in Newick format (<strong>Data S1</strong>), the list of statistical routines used for the three empirical case studies (<strong>Data S2</strong>), and the high-resolution version of the figures in the supplementary materials and main text (<strong>Data S3</strong>) for the <em>Earth-Science Reviews</em> paper "A time-calibrated ‘Tree of Life’ of aquatic insects for knitting historical patterns of evolution and measuring extant phylogenetic biodiversity across the world", which is under consideration. The best-scoring molecular tree (<strong>Data S1</strong>) can be opened using freely available programs like R (R Development Core Team, 2021), Dendroscope (Huson and Scornavacca, 2012), and FigTree (Rambaut, 2018).</p> <p>Please, feel free to send an email to the maintainer Dr. Jorge García Girón (jogarg@unileon.es OR Jorge.Garcia-Giron@oulu.fi) if you face any trouble downloading, opening, or using these files.</p> <ul> <li>Huson, D. H., & Scornavacca, C. (2012). Dendroscope 3: An interactive tool for rooted phylogenetic trees and networks. <em>Systematic Biology</em>, <em>61(6)</em>, 1061–1067.</li> <li>R Development Core Team (2021). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. https://www.R-project.org/</li> <li>Rambaut, A. (2018). FigTree. Institute of Evolutionary Biology, University of Edinburgh, Edinburgh, UK. http://tree.bio.ed.ac.uk/software/figtree/</li> </ul>
Linked collectors and determiners for: Exploring insect biodiversity: the parasitic Hymenoptera, chiefly Chalcidoidea, associated with seeds of asphodels (Xanthorrhoeaceae), with the description of nine new species belonging to Eurytomidae and Torymidae.
Natural history specimen data linked to collectors and determiners held within, "Exploring insect biodiversity: the parasitic Hymenoptera, chiefly Chalcidoidea, associated with seeds of asphodels (Xanthorrhoeaceae), with the description of nine new species belonging to Eurytomidae and Torymidae". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/0bffa033-64f0-4e6f-ba44-287e52d7c2f9">https://bionomia.net/dataset/0bffa033-64f0-4e6f-ba44-287e52d7c2f9</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/0bffa033-64f0-4e6f-ba44-287e52d7c2f9">https://gbif.org/dataset/0bffa033-64f0-4e6f-ba44-287e52d7c2f9</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: pbzt_insect_biodiversity.
Natural history specimen data linked to collectors and determiners held within, "pbzt_insect_biodiversity". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/af7ff8ba-8ab2-4f50-951e-5fb4df0c7f8f">https://bionomia.net/dataset/af7ff8ba-8ab2-4f50-951e-5fb4df0c7f8f</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/af7ff8ba-8ab2-4f50-951e-5fb4df0c7f8f">https://gbif.org/dataset/af7ff8ba-8ab2-4f50-951e-5fb4df0c7f8f</a>. Formatted as a Frictionless Data package.
Figs. 18–21. Endemic insects. 18 in Socotra Archipelago - a lifeboat in the sea of changes: advancement in Socotran insect biodiversity survey
Figs. 18–21. Endemic insects. 18 – Pachysmopoda abbreviata (Taschenberg, 1883) (Tettigoniidae), female, Madboh Sinhin plateau, 12.xi.2010; 19 – Julodis clouei Buquet, 1843 (Buprestidae), Noged plain, 10.xi.2010 (Photo J. Hájek); 20 – Mallodon arabicum Buquet, 1843 (Cerambycidae), male, Firmihin plateau, 16.xi.2010; 20 – Acraea neobule socotrana Rebel, 1907 (Nymphalidae), mating pair, Skant, 12.xi.2010.
Figs. 12–13. Endemic flowering plants. 12 in Socotra Archipelago - a lifeboat in the sea of changes: advancement in Socotran insect biodiversity survey
Figs. 12–13. Endemic flowering plants. 12 – Croton sulcifructus (Wadi Madar); 13 – Hypericum scopulorum (Skant).
Figs. 14–15 in Socotra Archipelago - a lifeboat in the sea of changes: advancement in Socotran insect biodiversity survey
Figs. 14–15. Examples of vegetation cover: Crotonion sulcifructi alliance. 14 – Leucado hagghierensi-Pittosporetum viridiflorum association, Skant Mt. env., forest meadow, 1,450 m a.s.l. (Photo: L. Purchart, 2010); 15 – Trichodesmo scotii-Cephalocrotonetum socotrani association, Wadi Madar, open steppe forest, 1,180–1,230 m a.s.l.
Figs. 16–17. Endemic insects. 16 in Socotra Archipelago - a lifeboat in the sea of changes: advancement in Socotran insect biodiversity survey
Figs. 16–17. Endemic insects. 16 – Amitermes socotrensis Harris, 1954 (Termitidae) – chambers inside the ground nest, Madboh Sirhin plateau, 12.xi.2010; 17 – Azuragrion granti (McLachlan, 1903) (Coenagrionidae) – mating pair, Ayhaft, 7-8.xi.2010 (Photo J. Hájek).
Figs. 8–11. Endemic flowering plants. 8 in Socotra Archipelago - a lifeboat in the sea of changes: advancement in Socotran insect biodiversity survey
Figs. 8–11. Endemic flowering plants. 8 – Aerva revoluta (Skant); 9 – Caralluma socotrana (Wadi Ayhaft); 10 – Trichodesma scottii (Skant-Wadi Madar); 11 – Begonia socotrana (Skant).
Figs. 4–5 in Socotra Archipelago - a lifeboat in the sea of changes: advancement in Socotran insect biodiversity survey
Figs. 4–5. Main landscape features of Socotra Island. 4 – Canyons bellow the Diksam plateau (Photo J. Hájek, 2010); 5 – North-East cliffs with sand dunes, close to the Arher spring.
Figs. 2–3 in Socotra Archipelago - a lifeboat in the sea of changes: advancement in Socotran insect biodiversity survey
Figs. 2–3. Main landscape features of Socotra Island. 2 – granitic peaks of the Hagher massif (view from Skand to Hadibo); 3 – wadi south of Ba'a village.
Figs. 6–7 in Socotra Archipelago - a lifeboat in the sea of changes: advancement in Socotran insect biodiversity survey
Figs. 6–7. Marine (?) fossils. 6 – Unidentified fossil from Firmihin (490 m a.s.l.); 7 – One of the abundant fossil specimens from the Madboh Sinhin plateau (820 m a.s.l.) which I tentatively identified as a domical 'cabbage-head' stromatolite sensu ANADÓN & ZAMARREÑO (1981); it is probably identical with 'silicified concretions' showed in BEYDOUN & BICHAN (1970, Plate 22, Fig. b).
Data from: Temperature accounts for the biodiversity of a hyperdiverse group of insects in urban Los Angeles
The urban heat island effect is a worldwide phenomenon that has been linked to species' distributions and abundances in cities. However, effects of urban heat on biotic communities are nearly impossible to disentangle from effects of land cover in most cases because hotter urban sites also have less vegetation and more impervious surfaces than cooler sites within cities. We sampled phorid flies, one of the largest, most biologically diverse families of true flies (Insecta: Diptera: Phoridae), at 30 sites distributed within the central Los Angeles Basin, where we found that temperature and the density of urban land cover are decoupled. Abundance, richness, and community composition of phorids inside urban Los Angeles were most parsimoniously accounted for by mean air temperature in the week preceding sampling. Sites with intermediate mean temperatures had more phorid fly individuals and higher richness. Communities were more even at urban sites with lower minimum temperatures and sites located further away from natural areas, suggesting that communities separated from natural source populations may be more homogenized. Species composition was best explained by minimum temperature. Inasmuch as warmer areas within cities can predict future effects of climate change, phorid fly communities are likely to shift non-linearly under future climates in more natural areas. Exhaustive surveys of biotic communities within cities, such as the one we describe here, can provide baselines for determining the effects of urban and global climate warming as they intensify.
Data from: Higher avian biodiversity, increased shrub cover, and proximity to continuous forest may reduce pest insect crop loss in small-scale oil palm farming
<p>One of the key ecosystem services offered by avian biodiversity within agricultural landscapes is natural predation. Nonetheless, the current use of biological control agents such as farmland birds in oil palm plantations is relatively limited. The present study aimed to assess the potential roles of avian biodiversity, particularly insectivores which provide natural predation against oil palm herbivorous insects. We also investigated the influence of local- and landscape-scale variables on foliage damage (crown or frond). Our data showed that crown damage decreased with increasing farmland bird richness (overall and insectivore), shrub cover, dried biomass, and elevation, but increased with epiphyte cover, oil palm height, and distance to continuous forest. Frond damage was negatively related to bird richness (overall, insectivore, and non-insectivore) and non-insectivore abundance, elevation, and shrub cover, while increased with insectivorous abundance, epiphyte cover, oil palm height, and distance to continuous forest. We also found that plantations (≥ 50 ha) were more susceptible to foliage damage from pest insects than smallholdings (<50 ha). There was no evidence that indicated the influence of forest patches on foliage damage. Our study highlights the economic value of conserving biodiversity, most notably, farmland birds and continuous forests with respect to biological control of defoliating pests and maintaining yield productivity in oil palm cultivation. Growers, particularly major plantation companies should make oil palm farming more biodiversity-friendly in order to increase the number of biological control agents such as birds.</p>
Sequencing data: Fungi, fire and insects: Protea infructescences as reservoirs for fungal biodiversity in fire-prone environments
<p>This is the dataset for a submitted manuscript entitled "Fungi, fire and insects: <em>Protea</em> infructescences as reservoirs for fungal biodiversity in fire-prone environments".</p> <p>The upload contains all forward and reverse paired end .fastq files. The files are already demultiplexed. The metadata.xlsx file contains sample information, gps coordinates, etc.</p> <p> </p>
Data from: Performance of DNA metabarcoding, standard barcoding and morphological approaches in the identification of insect biodiversity
<p>A repository containing the data and R code for the associated manuscript titled "Performance of DNA metabarcoding, standard barcoding and morphological approaches in the identification of insect biodiversity"</p> <p>Created by Romana K. Salis</p> <div> <h2>Content Overview</h2> <a href="https://github.com/rksalis/LNU_insectbarcoding/tree/main#content-overview"></a></div> <div> <h3>Rcode:</h3> <a href="https://github.com/rksalis/LNU_insectbarcoding/tree/main#rcode"></a></div> <p>analysis_070923.R</p> <div> <h3>Data files:</h3> <a href="https://github.com/rksalis/LNU_insectbarcoding/tree/main#data-files"></a></div> <p>literature_search_210624.csv barcoding_datasets.csv - barcoding datasets match category counts for the butterflies, bees and wasps</p> <p>barcoding_VB_thresholds.csv - barcoding datasets match category counts for the vietnamese butterfly with different similarity thresholds</p> <p>barcoding_VB_families.csv - barcoding datasets match category counts for the vietnamese butterfly families</p> <p>vietkordfinal_x.csv - intraspecific similarity and geographic distance</p> <p>vietnam_area.csv - intraspecific similarity and sampling area</p> <p>BINsvSp.csv - number of BINs and morphospecies</p> <p>Metabarcoding_Results_CommonSpecies.csv - metabarcoding results including the species only those also identified by morphology</p> <p>Metabarcoding_Results_BINSpecies.csv - metabarcoding results BIN species</p> <p>Metabarcoding_Results_BINs.csv - metabarcoding results all BINs</p>
Fig. 1 in Socotra Archipelago - a lifeboat in the sea of changes: advancement in Socotran insect biodiversity survey
Fig. 1. Location map of the Socotra Archipelago.
Pan trap and plant-flower visitor observation data for: Multi-species crop mixtures increase insect biodiversity in an intercropping experiment
<ol> <li><span>Recent biodiversity declines require action across sectors such as agriculture. The situation is particularly acute for arthropods, a species-rich taxon providing important ecosystem services. To counteract negative consequences of agricultural intensification, creating a less hostile agricultural "matrix" through growing crop mixtures can reduce harm for arthropods without yield losses. </span></li> <li><span>While grassland biodiversity experiments showed positive plant biodiversity effects on arthropods, experiments manipulating crop diversity and agrochemical input use to study arthropods are lacking. </span></li> <li><span>Here, we experimentally manipulated crop diversity (1–3 species, fallows), crop species (wheat, faba bean, linseed, oilseed rape) and agrochemical input (high vs. low) and studied responses of arthropod biodiversity. We tested if arthropod responses were affected by crop diversity, mixtures and management. Additionally, we measured crop biomass.</span></li> <li><span>Crop biomass increased with crop diversity under high-input mangement, while under low management intensity, biomass was highest in two-species mixtures.</span></li> <li><span>Increasing crop diversity positively affected arthropod abundance and diversity, both under low- and high-input management. Crop mixtures containing faba bean, linseed or oilseed rape had particularly high arthropod diversity.</span></li> <li><span>Mass-flowering crops attracted more arthropods than legumes or cereals. Integrating intercropping into agricultural systems could increase flower visits by insects up to 15 million per hectare, thus likely also supporting pollination and pest-control ecosystem services.</span></li> <li><span>Flower-visitor network complexity increased in mixtures containing linseed and faba bean, and under low-input management.</span></li> <li><span>Intercropping can counteract insect declines in farmland by creating beneficial matrix habitat without compromising crop yield.</span></li> </ol>
Pan trap and plant-flower visitor observation data for: Multi-species crop mixtures increase insect biodiversity in an intercropping experiment
Open the record for dataset details and reuse information.
Data from: Higher avian biodiversity, increased shrub cover, and proximity to continuous forest may reduce pest insect crop loss in small-scale oil palm farming
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.