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1,213 results for “biodiversity hotspot”
Data from: Comparative transcriptome resources of eleven Primulina species, a group of “stone plants” from a biodiversity hotspot
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Identifying conservation priorities in a defaunated tropical biodiversity hotspot
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Data from: Geography of roadkills within the Tropical Andes biodiversity hotspot: poorly known vertebrates are part of the toll
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Environmental DNA in a global biodiversity hotspot: Lessons from coral reef fish diversity across the Indonesian archipelago
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Figure 2 from: Kipkoech S, Melly DK, Muema BW, Wei N, Kamau P, Kirika PM, Wang Q, Hu G (2020) An annotated checklist of the vascular plants of Aberdare Ranges Forest, a part of Eastern Afromontane Biodiversity Hotspot. PhytoKeys 149: 1-88. https://doi.org/10.3897/phytokeys.149.48042
Figure 2 The classes of vascular plants taxa in Aberdare Ranges Forest.
Figure 3 from: Mille C, Jourdan H, Cazères S, Maw E, Foottit R (2020) New data on the aphid (Hemiptera, Aphididae) fauna of New Caledonia: some new biosecurity threats in a biodiversity hotspot. ZooKeys 943: 53-89. https://doi.org/10.3897/zookeys.943.47785
Figure 3 Biogeographic origin of the 33 aphid species present in New Caledonia.
Figure 1 from: Mille C, Jourdan H, Cazères S, Maw E, Foottit R (2020) New data on the aphid (Hemiptera, Aphididae) fauna of New Caledonia: some new biosecurity threats in a biodiversity hotspot. ZooKeys 943: 53-89. https://doi.org/10.3897/zookeys.943.47785
Figure 1 Map of New Caledonia showing administrative delimitations (provinces and counties).
Figure 1 from: Valdez-Cibrián A, Díaz-Santana-Iturrios M, Landa-Jaime V, Michel-Morfín JE (2020) First detection of an ocellate octopus in the Revillagigedos ecoregion, a biodiversity hotspot located in the Tropical East Pacific Province. ZooKeys 986: 81-100. https://doi.org/10.3897/zookeys.986.53250
Figure 1 Study area. Sampling sites of octopuses from the Revillagigedo Archipelago.
Figure 2 from: Valdez-Cibrián A, Díaz-Santana-Iturrios M, Landa-Jaime V, Michel-Morfín JE (2020) First detection of an ocellate octopus in the Revillagigedos ecoregion, a biodiversity hotspot located in the Tropical East Pacific Province. ZooKeys 986: 81-100. https://doi.org/10.3897/zookeys.986.53250
Figure 2 Ocellus of specimen No. 48 A defrosted B preserved in 96% ethanol.
Figure 2 from: Narayanan SP, Sathrumithra S, Christopher G, Julka JM (2017) New species and new records of earthworms of the genus Drawida from Kerala part of the Western Ghats biodiversity hotspot, India (Oligochaeta, Moniligastridae). ZooKeys 691: 1-18. https://doi.org/10.3897/zookeys.691.13174
Figure 2 - Distribution of newly described and reported Drawida species from Kerala.
Figure 27 from: Fernandez-Triana J, Boudreault C, Buffam J, Mclean R (2016) A biodiversity hotspot for Microgastrinae (Hymenoptera, Braconidae) in North America: annotated species checklist for Ottawa, Canada. ZooKeys 633: 1-93. https://doi.org/10.3897/zookeys.633.10480
Figure 27 - Lathrapanteles heleios. A Wings B Head, frontal C Habitus, lateral D Habitus, dorsal.
Supplement to Inferring the evolutionary history of the Sino-Himalayan biodiversity hotspot using a Bayesian birth-death skyline model
<p>This repository contains the supplementary files for:</p> <p>Allen BJ, Vaughan TG, du Plessis L, Schouten TLA, Yuan Z, Willett SD, Stadler T. 2024. Inferring the evolutionary history of the Sino-Himalayan biodiversity hotspot using a Bayesian birth-death skyline model. Geological Society of London Special Publications, 549.</p> <p><strong>Description of files</strong></p> <p>This repository contains the cleaned tree file, raw log files, simulated trees, XML files for running the analyses in BEAST2, and R code to process the datasets.</p> <p>Liu_et_al_SinoHimalayan.nex - the phylogeny inferred by Liu et al. (2021), trimmed to only include the 8864 tips associated with genetic data</p> <p>Skyline_logs.zip - skyline logs produced by BEAST2 analyses (see below for naming convention)</p> <p>Regression_results.zip - results of the linear modelling between global palaeotemperature and diversification estimates</p> <p>Sim_trees.trees - the phylogenies simulated by ReMASTER</p> <p>Adequacy_logs.zip - skyline logs produced from the analyses using the simulated phylogenies</p> <p> </p> <p><strong>Description of BEAST2 XMLs</strong></p> <p>The XML files contain the BEAST2 configurations for:</p> <p>Liu_et_al_bd.xml, Liu_et_al_bd_high.xml, Liu_et_al_bd_mid.xml, Liu_et_al_bd_low.xml - skyline analyses using equal length time bins, with beta sampling prior, high fixed sampling, mid fixed sampling, and low fixed sampling respectively</p> <p>Liu_et_al_bd_geol.xml, Liu_et_al_bd_geol_high.xml, Liu_et_al_bd_geol_mid.xml, Liu_et_al_bd_geol_low.xml - skyline analyses using geological time bins, with beta sampling prior, high fixed sampling, mid fixed sampling, and low fixed sampling respectively</p> <p>Remaster_simulation.xml - simulating new phylogenies based on the inferred skylines using ReMASTER</p> <p>Sim_trees.xml - skyline analyses conducted on the simulated phylogenies</p> <p> </p> <p><strong>Description of R code</strong></p> <p>The R code is subdivided into the following files:</p> <p>BDSKY_skylines.R - code for processing and plotting skyline data from the BEAST2 log files</p> <p>BDSKY_adjacent_bins.R - code for the analyses examining the increase or decrease in evolutionary rates between adjacent skyline bins</p> <p>Plot_palaeotemp_comparison.R - code for plotting the diversification estimates against global palaeotemperature, as taken from Scotese et al. (2021)</p> <p>Palaeotemperature_regressions.R - code for linear modelling between global palaeotemperature and diversification estimates</p> <p>Remaster_processing.R - code for processing and plotting inferred skylines from the simulated datasets</p>
No evidence of increased forest loss from a mining rush in a biodiversity hotspot
<p>This repository contains the data and code used in the study entitled 'No evidence of impacts from a mining rush in a protected forest'. 2024. Authors: Katie Devenish, Simon Willcock, Kathryn M. Goodenough, Rio Heriniaina, O. Sarobidy Rakotonarivo, Julia P.G. Jones.</p> <p>The main focus of this study was an evaluation of the impacts of the 2016-17 sapphire rush at Bemainty in Eastern Madagascar on deforestation and forest degradation (temporary tree cover loss). We used the Tropical Moist Forests (TMF) data (Vancutsem et al., 2021) to measure forest changes and the synthetic control method to estimate counterfactual outcomes. Supplementary data from informal interviews and lemur surveys conducted in the field October - November 2019 by Rio Heriniaina were drawn upon to explore the wider impacts and trade-offs of the mining rush, and assess the health of lemur populations 2 years after the rush. </p> <p>This repository contains the raw interview and lemur survey data collected by Rio Heriniaina at Bemainty October - November 2019. It also contains the code (entitled Script_updated_for_publication), spatial data, and input data required to reproduce the results from the main forest loss analysis. </p> <p>Data on deforestation and degradation was obtained from the Tropical Moist Forests dataset (Vancutsem et al, 2021). Annual deforestation was measured using the Deforestation year data. Annual deforestation per drainage basin was calculated in ArcGIS and is already contained within the attributes of the basins layer (Mada_basins_Lev9_edited_final).</p> <p>However, annual degradation data was obtained by adapting the TMF rawAnnual Disruptions data in Google Earth Engine. The output of this process (Annual_Disruptions_YEAR_masked) was loaded into R and annual degradation calculated per drainage basin. Annual deforestation and degradation rates were calculated as a percentage of forest cover in each drainage basin at the start of each year. To obtain annual forest cover estimates for each sub-basin we reclassified the TMF Annual Change datasets and extracted forest area per sub-basin. Both of these processes were extremely computationally expensive. The code includes these steps, but also contains an option (Option 1) to skip these steps by uploading csv files of annual forest cover (For_Area_ext2_21_04) and annual degradation per basin (Deg_Area_ext2_21_04) included in this repository. This data can be joined back to the basins layer. This allows users to skip this computationally expensive stage and progress straight to the analysis. The For90 layer (Vieilledent et al., 2018) and the Annual Disruptions data (Annual_Disruptions_YEAR_masked) are only needed if following Option 2 in the code.</p> <p> </p>
Figure 1 from: Ustjuzhanin P, Kovtunovich V, Sáfián S, Maicher V, Tropek R (2018) A newly discovered biodiversity hotspot of many-plumed moths in the Mount Cameroon area: first report on species diversity, with description of nine new species (Lepidoptera, Alucitidae). ZooKeys 777: 119-139. https://doi.org/10.3897/zookeys.777.24729
Figure 1 Map of the study area and localities.
Figure 5 from: Li X, Wang H, Li D-Z, Yu W-B (2019) Taxonomic and nomenclatural notes on Pedicularis (Orobanchaceae): I. One new species from northwest Yunnan, China. In: Cai J, Yu W-B, Zhang T, Li D-Z (Eds) Revealing of the plant diversity in China's biodiversity hotspots. PhytoKeys 130: 205-215. https://doi.org/10.3897/phytokeys.130.35258
Figure 5 Distribution map of Pedicularis multicaulis W.B.Yu, H.Wang & D.Z.Li and related taxa.
Figure 4 from: Huang Y-F, Dong L-N, Xu W (2019) Lysimachia fanii, a new species of Primulaceae from limestone area of Guangxi, China. In: Cai J, Yu W-B, Zhang T, Li D-Z (Eds) Revealing of the plant diversity in China's biodiversity hotspots. PhytoKeys 130: 75-84. https://doi.org/10.3897/phytokeys.130.34655
Figure 4 The distribution of Lysimachia fanii in Guangxi, China.
Figure 4 from: Cai L, Liu D-T, Zhang P, Dao Z-L (2019) Two new species of Henckelia (Gesneriaceae) from Southeastern Yunnan, China. In: Cai J, Yu W-B, Zhang T, Li D-Z (Eds) Revealing of the plant diversity in China's biodiversity hotspots. PhytoKeys 130: 151-160. https://doi.org/10.3897/phytokeys.130.33988
Figure 4 Holotype of Henckelia multinervia Lei Cai & Z.L.Dao (KUN-1443559).
Figure 2 from: Cai L, Liu D-T, Zhang P, Dao Z-L (2019) Two new species of Henckelia (Gesneriaceae) from Southeastern Yunnan, China. In: Cai J, Yu W-B, Zhang T, Li D-Z (Eds) Revealing of the plant diversity in China's biodiversity hotspots. PhytoKeys 130: 151-160. https://doi.org/10.3897/phytokeys.130.33988
Figure 2 Holotype of Henckelia nanxiheensis Lei Cai & Z.L.Dao (KUN-1443557).
Figure 4 from: Gao L-M, Tan S-L, Zhang G-L, Thomas P (2019) A new species of Amentotaxus (Taxaceae) from China, Vietnam, and Laos. In: Cai J, Yu W-B, Zhang T, Li D-Z (Eds) Revealing of the plant diversity in China's biodiversity hotspots. PhytoKeys 130: 25-32. https://doi.org/10.3897/phytokeys.130.33956
Figure 4 Geographical distribution of Amentotaxus hekouensis L. M. Gao.
Figure 3 from: Zhu X, Liao S, Yi S (2019) Disporum nanchuanense (Colchicaceae), a new species from Chongqing, China. In: Cai J, Yu W-B, Zhang T, Li D-Z (Eds) Revealing of the plant diversity in China's biodiversity hotspots. PhytoKeys 130: 49-57. https://doi.org/10.3897/phytokeys.130.34005
Figure 3 Holotype of Disporum nanchuanense X.X.Zhu & S.R.Yi (CSH-0151769!).
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.