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1,999 results for “Endangered”
First genetic data for the Critically Endangered Cuban endemic Zapata Rail Cyanolimnas cerverai, and the taxonomic implications
<p>Data associated with the publication First genetic data for the Critically Endangered Cuban endemic Zapata Rail <em>Cyanolimnas cerverai</em>, and the taxonomic implications.</p>
The Catalogue of Endangered Languages as CLDF dataset
<p>Cite the source of the dataset as:</p> <blockquote> <p>Catalogue of Endangered Languages. 2023. University of Hawaii at Manoa. http://www.endangeredlanguages.com</p> </blockquote>
Data from: Species delimitation in endangered groundwater salamanders: implications for aquifer management and biodiversity conservation
Groundwater-dependent species are among the least-known components of global biodiversity, as well as some of the most vulnerable because of rapid groundwater depletion at regional and global scales. The karstic Edwards–Trinity aquifer system of west-central Texas is one of the most species-rich groundwater systems in the world, represented by dozens of endemic groundwater-obligate species with narrow, naturally fragmented distributions. Here, we examine how geomorphological and hydrogeological processes have driven population divergence and speciation in a radiation of salamanders (Eurycea) endemic to the Edwards–Trinity system using phylogenetic and population genetic analysis of genome-wide DNA sequence data. Results revealed complex patterns of isolation and reconnection driven by surface and subsurface hydrology, resulting in both adaptive and non-adaptive population divergence and speciation. Our results uncover new cryptic species diversity and refine the borders of several threatened and endangered species. The U.S. Endangered Species Act has been used to bring state regulation to unrestricted groundwater withdrawals in the Edwards (Balcones Fault Zone) Aquifer, where listed species are found. However, the Trinity and Edwards–Trinity (Plateau) aquifers harbor additional species with similarly small ranges that currently receive no protection from regulatory programs designed to prevent groundwater depletion. Based on regional climate models that predict increased air temperature, together with hydrologic models that project decreased springflow, we conclude that Edwards–Trinity salamanders and other co-distributed groundwater-dependent organisms are highly vulnerable to extinction within the next century.
Data from: Species delimitation in endangered groundwater salamanders: implications for aquifer management and biodiversity conservation
Open the record for dataset details and reuse information.
High MHC gene copy number maintains diversity despite homozygosity in a Critically Endangered single-island endemic bird, but no evidence of MHC-based mate choice
<p>Raw sequence data from two amplicon libraries of MHC class I exon 3 of Raso Lark <em>Alauda razae</em>, sequenced on an Illumina Miseq. The two different libraries (two different Illumina runs) are collected in separat tar archive (.tar). Within each of those are individual sequence reads as gzipped fastq files (.fastq.gz). Each sample has two files, one for read 1 (R1) and one for read 2 (R2), with file names structured as follows. Delimited by underscore (_) are:</p> <ol> <li>sample name as referred to in the data and paper (“RingNo” in the Supporting data table);</li> <li>formal ID (also referred to in data table, often corresponding to full ring number);</li> <li>Illumina sample number (i.e. based on the order that samples are listed in the sample sheet);</li> <li>Illumina lane number (static as L001, as Miseq instruments have a single lane on their flow cells);</li> <li>read number (R1 [forward] or R2 [reverse]);</li> <li>static identifier from Illumina (001).</li> </ol> <p>Thus, the file 83304_TJ83304_S163_L001_R2_001.fastq.gz is the reverse (read 2) MHC class I exon 3 sequence of individual 83304 (ring number TJ83304).</p>
Data from: Neo-sex chromosomes and demography shape genetic diversity in the critically endangered Raso lark
Generally small effective population sizes expose island species to inbreeding and loss of genetic variation. The Raso lark has been restricted to a single islet for ~500 years, with a population size of a few hundred. To investigate the factors shaping genetic diversity in the species, we assembled a reference genome for the related Eurasian skylark and then assessed genomic diversity and demographic history using RAD-seq data (26 Raso lark samples and 52 samples from its two most closely related mainland species). Genetic diversity in the Raso lark is lower than in its mainland relatives, but is nonetheless considerably higher than anticipated given its recent population size. This is partly explained by an unusual and dramatic effect of enlarged neo-sex chromosomes, which preserve high heterozygosity across 13% of the genome in females, and account for half of the overall genetic diversity in the population. In addition, by reconstructing past demography we find that genetic signatures of the recent population contraction are overshadowed by an ancient expansion and persistence of a very large population until the human settlement of Cape Verde. Nevertheless, relatedness analyses suggest that the population is at risk of inbreeding depression. Our findings are particularly important in that they reveal the hidden effects of genome architecture in shaping diversity estimates, and hence demonstrate the value of a reference genome and population genomic analyses over conventional metrics to study diversity in non-model and endangered species.
Figure 2 in Improved local inventory and regional contextualization for anuran (Amphibia) diversity assessment at an endangered habitat in southeastern Brazil
Figure 2. Rarefaction curves based on Jackknife I species-richness estimator for records of adults, tadpoles and all life stages pooled for four canga lakes at the Quadrilátero Ferrífero region, southeastern Brazil.
Figure 1 in Conservation in a changing landscape: habitat occupancy of the critically endangered Tennent's leaf-nosed lizard (Ceratophora tennentii) in Sri Lanka
Figure 1. Location of Knuckles forest reserve within Kandy and Matale Districts (left) and the four study sites [two at Riverston (1 and 2), Hunasgiriya (3) and Deanston (4)] within the reserve (right).
Figure 3 in Conservation in a changing landscape: habitat occupancy of the critically endangered Tennent's leaf-nosed lizard (Ceratophora tennentii) in Sri Lanka
Figure 3. Comparison of climatic and structural parameters among the four habitat types during the dry (dashed line) and wet (solid line) seasons. Data from both locations with lizards and random locations are considered in combination. (C = Cardamom plantations, M = Mixed cardamom forests, N = Natural forests, P = Pine plantations.)
Figure 2 in Conservation in a changing landscape: habitat occupancy of the critically endangered Tennent's leaf-nosed lizard (Ceratophora tennentii) in Sri Lanka
Figure 2. Mean number of sightings of Ceratophora tennentii within three habitat types at Knuckles Range, Sri Lanka.
Dataset from Pardini, E. A., Parsons, L. S., Ştefan, V., & Knight, T. M. (2018). GLMM BACI environmental impact analysis shows coastal dune restoration reduces seed predation on an endangered plant. Restoration Ecology, 26(6), 1190-1194.
<p>Data and its metadata used in the analysis from the publication: Pardini, E. A., Parsons, L. S., Ştefan, V., & Knight, T. M. (2018). GLMM BACI environmental impact analysis shows coastal dune restoration reduces seed predation on an endangered plant. Restoration Ecology, 26(6), 1190-1194. <a href="https://onlinelibrary.wiley.com/doi/full/10.1111/rec.12678">https://onlinelibrary.wiley.com/doi/full/10.1111/rec.12678</a> </p>
Data from: Creating small food-habituated groups might alter genetic diversity in the endangered Yunnan snub-nosed monkey. https://doi.org/10.1016/j.gecco.2020.e01422
<p>Ecotourism is increasing worldwide for financial, educational and social purposes. Organized viewing of wildlife, especially at feeding sites where wildlife is “ready-to-view”, increases the opportunities for tourists to observe animals in the wild. However, feeding sites might retain only a subsample of wild populations. We thus hypothesized that such human intervention could induce population subdivisions and alter random mating by artificially creating small groups. The endangered Yunnan snub-nosed monkey (Rhinopithecus bieti) is an emblematic example reflecting the contradictions between conservation and ecotourism. In Gehuaqing/Xiangguqing (Yunnan, China), some individuals are maintained at feeding sites, while the rest of the monkey subpopulation wanders in a large surrounding area. Using faecal sampling and molecular analyses, we showed that this subpopulation is genetically structured into two moderately differentiated subgroups. The fed subgroup exhibited lower genetic diversity and higher relatedness than the rest of the subpopulation. Simulation model results indicated that a single translocation probably would not restore genetic diversity in fed individuals. Thus, feeding sites implementation and associated management practices might rapidly induce founder effects. We discuss the possibilities of conciliating ecotourism and the conservation of endangered animal species from this viewpoint.</p>
Fig. 8 in Redescription of the endangered hypoptopomatine catfish Parotocinclus spilurus (Fowler, 1941) (Siluriformes: Loricariidae) from the upper rio Jaguaribe basin, northeastern Brazil
Fig. 8. Geographic distribution of Parotoncinclus spilurus in upper Jaguaribe, Ceará State, northeastern Brazil. Open symbol represents type locality Icó Municipality, rio Salgado, rio Jaguaribe basin.
Fig. 9 in Redescription of the endangered hypoptopomatine catfish Parotocinclus spilurus (Fowler, 1941) (Siluriformes: Loricariidae) from the upper rio Jaguaribe basin, northeastern Brazil
Fig. 9. The putative type locality of Parotocinclus spilurus, Brazil, Ceará, Icó, rio Salgado, rio Jaguaribe basin.
Fig. 7 in Redescription of the endangered hypoptopomatine catfish Parotocinclus spilurus (Fowler, 1941) (Siluriformes: Loricariidae) from the upper rio Jaguaribe basin, northeastern Brazil
Fig. 7. Dermal plates at posterior end of caudal peduncle of Parotocinclus spilurus, topotype, UFRN 1300, male, 40.2 mm SL. Arrow indicates odontodes dorsally or posterodorsally directed and modified into a cluster. Scale bar = 1 mm.
Fig. 5 in Redescription of the endangered hypoptopomatine catfish Parotocinclus spilurus (Fowler, 1941) (Siluriformes: Loricariidae) from the upper rio Jaguaribe basin, northeastern Brazil
Fig. 5. Ventral view of abdominal region showing the lateral plates and preanal platelets arranged in T-shape in Parotocinclus spilurus. Abbreviations: LAPS, lateral abdominal plates series; MAPS, median abdominal plate series; PAR, pre-anal region.
Fig. 4 in Redescription of the endangered hypoptopomatine catfish Parotocinclus spilurus (Fowler, 1941) (Siluriformes: Loricariidae) from the upper rio Jaguaribe basin, northeastern Brazil
Fig. 4. Parotocinclus spilurus, live (UFRN 1255, 37.2 mm SL) specimen just after collection from rio Salgado (type locality), Icó, Ceará.
Fig. 1 in Redescription of the endangered hypoptopomatine catfish Parotocinclus spilurus (Fowler, 1941) (Siluriformes: Loricariidae) from the upper rio Jaguaribe basin, northeastern Brazil
Fig. 1. Lateral, dorsal, and ventral views of Parotocinclus spilurus, holotype ANSP 69403, 28.6 mm SL female; Brazil, Ceará State, Icó Municipality, rio Salgado, rio Jaguaribe basin.
Fig. 6 in Redescription of the endangered hypoptopomatine catfish Parotocinclus spilurus (Fowler, 1941) (Siluriformes: Loricariidae) from the upper rio Jaguaribe basin, northeastern Brazil
Fig. 6. Ventral view of pectoral girdle of Parotocinclus spilurus, UFRN 0321, 34.9 mm SL, female. Abbreviations: AFO, arrector fossa opening; CL, cleithrum; CO, coracoid.
Fig. 2 in Redescription of the endangered hypoptopomatine catfish Parotocinclus spilurus (Fowler, 1941) (Siluriformes: Loricariidae) from the upper rio Jaguaribe basin, northeastern Brazil
Fig. 2. Lateral, dorsal, and ventral views of Parotocinclus spilurus, topotype UFRN 1255, 37.2 mm SL, female; Brazil, Ceará State, Icó Municipality, rio Salgado, rio Jaguaribe basin.
ScienceDex guides
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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.