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Dataset results
123 results for “species database”
Database of Eimeria species of ruminants in Mexico
<p>This database contains the occurrences of <em>Eimeria</em> species that infect cattle, sheep and goats in Mexico. Data includes records from 1961 to 2018. </p>
BROT Database: Plant trait data for Mediterranean Basin species: BROT: plant trait database for Mediterranean Basin species (BROT 2013.06)
The plant trait database for Mediterranean Basin species (BROT) is available as a published version (BROT version 2008.11) which corresponds to the original database finalized in November 2008 and published in Ecology 90 (2009). Reference: Paula S, Arianoutsou M, Kazanis D, Tavsanoglu Ç, Lloret F, Buhk C, Ojeda F, Luna B, Moreno JM, Rodrigo A, Espelta JM, Palacio S, Fernández-Santos B, Fernandes PM, and Pausas JG. 2009. Fire-related traits for plant species of the Mediterranean Basin. Ecology 90: 1420. The data imported to EOL are based on the online version which is an extended (more data and more traits) and updated version of the original one. Note that the use of this online version requires to quote both the original (published) and the online version. Reference: Paula S. & Pausas J.G. 2013. BROT: a plant trait database for Mediterranean Basin species. Version 2013.06. URL: <p></p>http://www.uv.es/jgpausas/brot.htm<p></p>Based on Paula S. & Pausas J.G. 2013. BROT: a plant trait database for Mediterranean Basin species. Version 2013.06. URL: <p></p>http://www.uv.es/jgpausas/brot.htm
Texas Natural Diversity Database: Listed Species in Texas
In Texas, animal or plant species of conservation concern may be listed as threatened or endangered under the authority of state law and/or under the U.S. Endangered Species Act (ESA). Species may be listed as state threatened or endangered and not federally listed. The state list deals only with the status of the species within Texas. A federal listing means a species is in danger of extinction throughout all or a significant portion of its range which may encompass several other states or nations. <p></p>https://tpwd.texas.gov/huntwild/wild/wildlife_diversity/nongame/listed-species/<p></p>
IPBES Invasive Alien Species Assessment, database for Chapter 4. Impact Evidence Database
<p>This is a database described in the data management report for chapter 4 of IPBES thematic assessment on invasive alien species and their control.</p> <p>Data were gathered on direct observations of impacts from published literature, including grey literature, in order to form a database on the evidence to which invasive alien species impact, negatively and positively, nature, nature's contributions to people and good quality of life for Chapter 4 of IPBES thematic assessment of invasive alien species and their control. The criteria for inclusion were a published direct evidence of an impact on native species, a change in ecosystem properties, nature's contributions to people and the extent to which humans were affected through changes in their constituents of well-being.</p> <p> </p> <p>Updates to version 3:</p> <p>1) Assessor “EAM” has been replaced by “Ester Mostert”,</p> <p>2) There were 50 Unique IDs that were paired. These are now differentiated by adding an a and b to the end of these to make them truly unique,</p> <p>3) Removed 40 duplicates</p> <p>4) RowID were re-numbered to reflect the unique number of rows</p> <p> </p>
MammalBase — Database of traits, measurements and diets of the species in class Mammalia
<p><strong>MammalBase is a database of traits, measurements and diets of the species in class Mammalia. It also provides Proximate Analysis data for several diet items.</strong></p> <p><strong>MammalBase aims to provide general information on mammals for broad-scale analyses in Macroecology, Palaeontology and mammalian Community structures.</strong></p> <p><strong>The database is maintained at the Natural Sciences Unit of the Finnish Museum of Natural History LUOMUS — a research institution under the University of Helsinki in Finland.</strong></p>
Database for "Phenotype-fitness relationships and pollen transfer efficiency of five orchid species with different pollination strategies" American Journal of Botany 2023
<p>Public data from the paper: Phenotype-fitness relationships and pollen transfer efficiency of five orchid species with different pollination strategies by M. Capò, J. Borràs, S. Perellò-Suau, J. Rita and J. Cursach, published in American Journal of Botany 2023. <a href="https://doi.org/10.5281/zenodo.7826601">DOI: 10.5281/zenodo.7826601</a></p>
Creating, curating, and evaluating a mitogenomic reference database to improve regional species identification using environmental DNA
<p><span>Species detection using eDNA is revolutionizing global capacity to monitor biodiversity. However, the lack of regional, vouchered, genomic sequence information—especially sequence information that includes intraspecific variation—creates a bottleneck for management agencies wanting to harness the complete power of eDNA to monitor taxa and implement eDNA analyses. eDNA studies depend upon regional databases of mitogenomic sequence information to evaluate the effectiveness of such data to detect and identify taxa. We created the Oregon Biodiversity Genome Project to create a database of complete, nearly error-free mitogenomic sequences for all of Oregon's fishes. We have successfully assembled the complete mitogenomes of 313 specimens of freshwater, anadromous, and estuarine fishes representing 24 families, 55 genera, and 129 </span><span>species and lineages. Comparative analyses of these sequences illustrate that many regions of the mitogenome are taxonomically informative, that the short (~150 bp) mitochondrial "barcode" regions typically used for eDNA assays do not consistently diagnose for species, and that complete single or multiple genes of the mitogenome are preferable for identifying Oregon's fishes. This project provides a blueprint for other researchers to follow as they build regional databases, illustrates the taxonomic value and limits of complete mitogenomic sequences, and offers clues as to how current eDNA assays and environmental genomics methods of the future can best leverage this information.</span></p>
Creating, curating, and evaluating a mitogenomic reference database to improve regional species identification using environmental DNA
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FragSAD: A database of diversity and species abundance distributions from habitat fragments
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SDMapCH (v1.3): a Comprehensive database of modelled species habitat suitability maps for Switzerland
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Data from: PalmTraits 1.0, a species-level functional trait database for palms worldwide
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FIGURE 2 in The disconnect between DNA and species names: lessons from reptile species in the NCBI taxonomy database
FIGURE 2. Growth of reptile species numbers in the Reptile Database and NCBI Taxonomy/ GenBank. "Genbank binomial species" are those that have a valid equivalent in the Reptile Database while GenBank all reptile "species" include all other unique names, even when their identity is not clear (or not reported to GenBank, see Table 1).
FIGURE 1 in The disconnect between DNA and species names: lessons from reptile species in the NCBI taxonomy database
FIGURE 1. Relationship between databases, such as the NCBI Taxonomy, the Reptile Database, and other taxonomic databases and data sources. Some of the resources shown are examples for other data resources not shown. Arrows indicate data flow or referencing (linking) between databases. For instance, iNaturalist uses names from the Reptile Database, with the latter linking back directly to iNaturalist species pages. Arrows to and from collections (and collection data aggregators such as VertNet) indicate cross-referencing of specimens, but not necessarily hyperlinks.
FIGURE 5 in A new Mediterranean species of Dolistenus (Diplopoda, Platydesmida, Andrognathidae), with an updated key for the genus and the first contribution for a barcode database of European Platydesmida
FIGURE 5. SEM pictures of the gonopods in situ: a) male paratype of Dolistenus garciaparisi sp. nov. from El Refugio, Benicassim, Castellón, Spain (MNCN); b) penultimate male of Dolistenus savii from San Fratello, Messina Province, Sicily (MNCN); c) male of Dolistenus iberoalbus from Avión, Ourense Province, Spain (MNCN).
FIGURE 3 in A new Mediterranean species of Dolistenus (Diplopoda, Platydesmida, Andrognathidae), with an updated key for the genus and the first contribution for a barcode database of European Platydesmida
FIGURE 3. SEM pictures of the head and antenna: a) male paratype of Dolistenus garciaparisi sp. nov. from El Refugio, Benicassim, Castellón, Spain (MNCN); b) male of Dolistenus savii from San Fratello, Messina Province, Sicily (MNCN); c) male of Dolistenus iberoalbus from Avión, Ourense Province, Spain (MNCN).
FIGURE 4 in A new Mediterranean species of Dolistenus (Diplopoda, Platydesmida, Andrognathidae), with an updated key for the genus and the first contribution for a barcode database of European Platydesmida
FIGURE 4. SEM pictures of mid-body rings in dorsal view and antero-posterior orientation: a) male paratype of Dolistenus garciaparisi sp. nov. from El Refugio, Benicassim, Castellón, Spain (MNCN); b) male of Dolistenus savii from San Fratello, Messina Province, Sicily (MNCN); c) male of Dolistenus iberoalbus from Avión, Ourense Province, Spain (MNCN). The arrows indicate the transverse furrow.
Database of Romanian cave invertebrates with a Red List of cave species and a list of hotspot/coldspot caves
The increasing human impact in Romanian caves raises the urgency of publishing a correct database of the strictly-adapted cave fauna. Previous attempts at indexing cave fauna and classifying caves by using their fauna opened many questions regarding the use of an incomplete list of cave species and mixed lists of troglobionts/stygobionts with troglophiles/stygophiles for ranking caves with priority for protection. It has also become obvious that there is a need to publish a list of Romanian cave species that are under threat. Cave species in Romania (and elsewhere) are endemic on small ranges, are unique and must be considered as important units for conservation. A cave must be equally protected if it has one or more rare and strictly endemic cave species. Although not exhaustive, we here provide the first checklist of Romanian troglobionts/stygobionts developed in the framework of the DARKFOOD and GROUNDWATERISK projects, coordinated by the "Emil Racovita" Institute of Speleology, Cluj-Napoca, Romania. The GIS application was used to complement the checklist of cave species with data on caves and surface environments above the caves. Until complete data on species diversity and population sizes are made available for each cave, measures of conservation can be implemented, based on the presence/absence of cave species, while classifications of caves for protection, based on the number of species, must be avoided. We also propose a list of Romanian caves with fauna that are under threat and a tentative Red List of Romanian troglobiont/stygobionts. This is the first database with identified troglobiont and stygobiont species of Romania, with a critical analysis of their distribution inside the country. A list of caves that need protection for their rare and unique species and a tentative Red List of Romanian cave fauna are also added. A total of 173 species were identified, of which 77 troglobionts and 96 stygobionts are currently registered in 366 caves. The database is divided into two parts, one part with a list of troglobionts, their revised systematic position, cave name, cave code and geographic region; and the second part with the same information on stygobionts. The database represents the contribution of many active researchers, who are the authors of this paper and of review publications of many other authors of the "Emil Racoviță" Institute of Speleology.
Data from: Life-history trait database of European reptile species
Life-history data are essential for providing answers to a wide range of questions in evolution, ecology, and conservation biology. While life history data for many species, especially plants, are available online, life history traits of European reptiles are available only widely scattered in different languages and primarily in printed media. For this reason, we generated a comprehensive trait database covering all European reptile species. Data were compiled by searching the peer-reviewed and non-peer-reviewed literature. The database covers the whole of Europe and neighbouring Asian and African countries. Traits were categorised under five main headings: Activity / Energy / Habitat; Phenology; Movement; Sexual Maturity; and Morphometry. To ensure that the data were standardised, we defined trait data categories before we started compiling data. All entries were checked by at least one other person. The dataset provides a unique source for meta-analyses and modelling in ecology and conservation biology.
FIGURE 16. Niphargus sharifi, n in Making future taxonomy of Niphargus (Crustacea: Amphipoda: Niphargidae) in the Middle East easier: DELTA database of Middle East species with description of four new species from Iran
FIGURE 16. Niphargus sharifi, n. sp., Sarab-e-Robat, male 19 mm (holotype). A, P 3; B, P 4; C, P 5; D, P 6; E, P 7. Scale bars: 1mm.
FIGURE 12 in Making future taxonomy of Niphargus (Crustacea: Amphipoda: Niphargidae) in the Middle East easier: DELTA database of Middle East species with description of four new species from Iran
FIGURE 12. Niphargus darvishi, sp. nov., Dimeh Spring, male 13 mm (holotype). A, P 3; B, P 4; C, P 5; D, distal part of P5(paratype); E, P 6; F, P 7. Scale bars: 1mm.
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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.