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225 results for “biodiversity survey”
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).
Biodiversity - Fauna - Bird Survey (Reformatted to a Darwin Core Archive)
This data package is formatted as a Darwin Core Archive (DwC-A, event core). For more information on Darwin Core see https://www.tdwg.org/standards/dwc/. This Level 2 data package was derived from the Level 1 data package found here: https://pasta.lternet.edu/package/metadata/eml/edi/191/4, which was derived from the Level 0 data package found here: https://pasta.lternet.edu/package/metadata/eml/knb-lter-bes/543/170. The abstract below was extracted from the Level 0 data package and is included for context: This dataset is associated with BES Bird Monitoring Bird Monitoring Project: ================= The BES Bird Monitoring Project is a breeding bird survey designed to find out what birds are found in the breeding season in Baltimore and where. Our monitoring efforts will show associations among block group socioeconomic variables, land cover, land use, and habitat features with breeding bird abundance, to provide information for land managers on possible consequences of land use changes on bird communities. A distinguishing feature of the bird monitoring at BES LTER, relative to other urban bird work, is the capacity for long-term monitoring of features at multiple scales through links to other parts of the project. Different processes influence habitat for birds at different scales, e.g. ongoing household level human decision-making at lot scale vs. block or neighborhood scale abandonment/re-development. Our project seeks to understand how these processes impact bird occurrence, abundance, and composition differ at the lot, block and neighborhood scale. The database consists of four tables. Sites, Surveys, Taxalist, and Birds. Sites records thje sites and their characteristics. Surveys describe the actual outings or sampling sessions. They describe the weather, the temperature, the sites visited. Taxalist provides the integration of speciaies abbreviations and common names, and Birds describes the actual sightings, linking to the other three tables. Attribute info
Local plant diversity and soybean biological control 2012 Aphid Surveys:Biodiversity II: Effects of Plant Biodiversity on Population and Ecosystem Processes
Biodiversity II (E120) is designed to determine how the number of plant species affects the dynamics of ecological processes at the population, community, and ecosystem levels. By experimentally manipulating the number of species and the kinds of species, the amount of plant growth and the change from year to year, that result can be examined. Plots are large (9m x 9m actively maintained) and well-replicated, allowing responses of plant pathogens, insect herbivores, seed predators, soil parameters, invasive plant species and other variables to also be studied. Plots were seeded in May 1994 to have 1, 2, 4, 8, or 16 species, with roughly 30 replicates of each diversity level. The species composition of each plot was chosen by random draw from a pool of 18 grassland perennials that included four warm-season (C4) grasses, four cool-season (C3) grasses, four legumes, four non-legume forbs, and two woody species. All species occur in monoculture allowing comparison of responses of each species in monoculture to combinations of these same species. The experiment was established in 1994 by the lead investigators David Tilman, Peter Reich, Johannes Knops, and David Wedin. Experiment 120 is similar to Experiment 123, but it uses larger plots to provide a large capacity for long-term subexperiments.
Data from: Archipelago-wide survey of Philippine forest dragons (Agamidae: Gonocephalus): multilocus phylogeny uncovers unprecedented levels of genetic diversity in a biodiversity hotspot
We utilize robust geographical genetic sampling, a multilocus dataset, and coalescent-based species delimitation statistics to provide the first phylogenetic inferences of relationships of Philippine Gonocephalus, combined with estimates of putative species diversity in this virtually unknown island radiation. Our results reveal startling levels of undocumented diversity, genetically partitioned at a number of geographic levels across the archipelago. In this paper we present the first survey of genetic lineage diversity, coupled with an archipelago-wide elucidation of geographic structure in a unique archipelago-endemic radiation. Philippine Gonocephalus have previously escaped the attention of biogeographers, due to taxonomic confusion associated with low numbers of preserved specimens in museum collections. With new vouchered material and genetic sampling from a comprehensive, archipelago-wide vertebrate biodiversity inventory, our findings join many recent studies highlighting the unprecedented faunal diversity in one of the world's most unique biodiversity conservation hotspots.
Supplementary Video: An End-to-End DNA Taxonomy Methodology for Benthic Biodiversity Survey in the Clarion-Clipperton Zone, Central Pacific Abyss
<p>Supplementary video for the article "<em>An End-to-End DNA Taxonomy Methodology for Benthic Biodiversity Survey in the Clarion-Clipperton Zone, Central Pacific Abyss</em>".</p>
Leech-derived iDNA complements traditional surveying methods, enhancing species detections for rapid biodiversity sampling in the tropics
<p>Deforestation, exploitation, and other drivers of biodiversity loss in Madagascar leave its highly endangered and predominantly endemic wildlife at risk of extinction. Decreasing biodiversity threatens to compromise ecosystem functions and vital services provided to people. New, economical, and diverse methods of biodiversity monitoring can help to establish reliable baseline and long-term records of species richness. Metabarcoding with invertebrate-derived DNA (iDNA) has emerged as a promising new biosurveillance tool. An unexpected wet forest fragment tucked in the dry cliffs of Madagascar's southcentral plateau, the Ivohibory Protected Area (IPA), hosts a unique mosaic of species diversity, featuring both dry and wet forest species. Recently elevated to protected status, the IPA has been surveyed for flora and fauna with a range of inventory methods over three years and six expeditions (2016, 2017, & 2019). We collected 1,451 leeches over 12 days from the IPA to supplement known species richness and to compare results against current records. With iDNA, we pooled tissues, and isolated, and amplified bloodmeal DNA with five sets of primers. We detected 20 species of which four are species of frogs previously undetected and three of which are previously unknown to exist in this region. iDNA surveys can provide complementary data to traditional surveying methods like camera traps, line transects, and bioacoustic methods.</p>
Optimal Mowing Regime in Enhancing Biodiversity in Seasonal Floodplains along Engineered Channels, Survey data
<p>This is the survey dataset used in the publication " Optimal Mowing Regime in Enhancing Biodiversity in Seasonal Floodplains along Engineered Channels".</p>
Supplementary information for: A continuous-score occupancy modeling framework for incorporating uncertain machine learning output in autonomous biodiversity surveys
<p><span>Ecologists often study biodiversity by evaluating species occupancy and the relationship between occupancy and other covariates. Occupancy models are now widely used to account for false absences in field surveys and to reduce bias in estimates of covariate relationships. Existing occupancy models take as inputs binary detection/non-detection observations of species at each visit to each site. However, autonomous sensing devices and machine learning models are increasingly used to survey biodiversity, generating a new type of observation record (i.e., continuous-score data) that reflects the model's confidence a species is present in each autonomously sensed file, instead of binary detection/non-detection data. These data are not directly compatible with traditional binary occupancy modeling methods.</span></p> <p><span>Here, we develop a new occupancy model that models continuous scores on a visit level as a Gaussian mixture, combining a distribution of scores for files that do contain the species of interest and a distribution of scores for files that do not. The model takes as input continuous scores for each autonomously sensed and classified file, along with an optional small number of binary, manually verified detection and non-detection annotations.</span></p> <p><span>We present a simulation study that shows that over a range of empirically realistic parameters, our model outperforms traditional occupancy models that are based on binary annotation alone. We also apply this new model to an empirical case study using data generated from five machine learning classifiers applied to autonomous acoustic recordings gathered in the eastern United States.</span></p> <p><span>Because our occupancy model generalizes allowable input data beyond binary observations, it is particularly well-suited to the increasing volume of machine learning classified data in ecology and conservation.</span></p>
Marine biodiversity patterns in coastal Australian waters revealed by a three-year environmental DNA survey
<p><strong>Aim</strong></p> <p>To test the capacity of eDNA to characterise the spatial and seasonal patterns found within a range of zooplankton communities, and investigate links with concurrent abiotic data collected as part of Australia's Integrated Marine Observing System (IMOS) programme.</p> <p><strong>Location</strong></p> <p>Samples were sourced seasonally for three years from nine Pan-Australian marine sites (n=90).</p> <p><strong>Methods</strong></p> <p>Here we apply a multi-assay metabarcoding approach to environmental DNA extracted from a rare long-term collection of bulk plankton samples. Six assays (targeting both the 16SrRNA and COI genes) were used to amplify and sequence the zooplankton diversity found within each sample. The data generated from each assay was filtered and clustered into OTUs prior to analysis. Abiotic IMOS data collected alongside the plankton collection enabled us to explore the physical and chemical drivers of community composition.</p> <p><strong>Results</strong></p> <p>The eDNA metabarcoding generated over 25 million sequences, identified in excess of 500 distinct taxa and detected clear spatial differences in marine metazoan communities. We found that site and sea surface temperature are the most consistent predictors of differences between zooplankton communities. We detected endangered and invasive species such as the bryozoan Membranipora membranace and the mollusc Maoricolpus roseus, and seasonal occurrences of species such as humpback whales (Megaptera novaeangliae). We also estimated the number of samples required to ensure robust marine eDNA metabarcoding biomonitoring programs into the future.</p> <p><strong>Main Conclusion</strong></p> <p>Our results demonstrate the ability of eDNA to capture and map zooplankton community changes in response to seasonal and spatial stressors and provide vital evidence to environmental stakeholders. We confirm that eDNA offers a practical opportunity for an ecosystem-wide approach to the long-term biomonitoring and understanding marine biomes where a morphological approach is not feasible.</p>
Data from: Effects of sampling effort on biodiversity patterns estimated from environmental DNA metabarcoding surveys
Environmental DNA (eDNA) metabarcoding can greatly enhance our understanding of global biodiversity and our ability to detect rare or cryptic species. However, sampling effort must be considered when interpreting results from these surveys. We explored how sampling effort influenced biodiversity patterns and nonindigenous species (NIS) detection in an eDNA metabarcoding survey of four commercial ports. Overall, we captured sequences from 18 metazoan phyla with minimal differences in taxonomic coverage between 18 S and COI primer sets. While community dissimilarity patterns were consistent across primers and sampling effort, richness patterns were not, suggesting that richness estimates are extremely sensitive to primer choice and sampling effort. The survey detected 64 potential NIS, with COI identifying more known NIS from port checklists but 18 S identifying more operational taxonomic units shared between three or more ports that represent un-recorded potential NIS. Overall, we conclude that eDNA metabarcoding surveys can reveal global similarity patterns among ports across a broad array of taxa and can also detect potential NIS in these key habitats. However, richness estimates and species assignments require caution. Based on results of this study, we make several recommendations for port eDNA sampling design and suggest several areas for future research.
Reptiles of the Iron Quadrangle: a species richness survey in one of the most human exploited biodiversity hotspots of the world - species vouchers
<p>The material present here is the supplementary Material of the paper: Reptiles of the Iron Quadrangle: a species richness survey in one of the most human exploited biodiversity hotspots of the world, published in Cuadernos de Herpetologia (2021). </p> <p>*Abstract: Currently, more than 10,700 species of reptiles are known to occur worldwide, of these 842 occur in Brazil. The Iron Quadrangle (IQ) is an important region in southeastern Brazil, in the state of Minas Gerais, due to the intense iron mining activity, its rich and unique biodiversity. However, data available for the reptile fauna are scattered in the literature which make the diversity of this group in the IQ remains poorly known. Here we aimed to characterize the reptile fauna of the IQ, representing the first inventory for the area. We found 128 reptile species occurring in the IQ, which corresponds to 49.23% of the reptile fauna for the state of Minas Gerais, and 15.20% of the Brazilian reptile biodiversity. Among these, three species are included in at least one national or international red-list category, four have their type-locality inside the limits of the IQ, seven had not been previously documented for the area, and four have their range extensions to be included in the IQ.</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.
Genova - Biodiversity surveys and species diversity
<p>Results of the biodiversity surveys and corresponding evaluation of the diversity of species in Genova.</p>
Eindhoven - Biodiversity surveys and species diversity
<p>Results of the biodiversity surveys and corresponding evaluation of the diversity of species in Eindhoven.</p>
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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.