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mDRONES4rivers-project: Classification results based on UAV data of project sites situated in riparian zones along federal waterways in Germany with focus on the Rhine River, Germany
<p>Spatially and temporally high-resolution data was acquired with the aid of multispectral sensors mounted on UAV and a gyrocopter platform for the purpose of classification. The work was part of the research and development project „Modern sensors and airborne remote sensing for the mapping of vegetation and hydromorphology along Federal waterways in Germany“ (mDRONES4rivers) in cooperation of the German Federal Institute of Hydrology (BfG), Geocoptix GmbH, Hochschule Koblenz und JB Hyperspectral Devices. <br> Within the project period (2019-2022) an object oriented image classification was conducted based on UAV and gyrocopter data for different sites situated in Germany along the Rivers Rhine and Oder. All published data produced within the project can be found by searching for the keyword ‘mDRONES4rivers‘. <br> In this dataset, the following classification results and metadata of the project sites situated in riparian zones along federal waterways in Germany with focus on the Rhine River, Germany is available for download:<br> • Basic & Vegetation Classification (ESRI Shapefile; abbreviation: lvl2_vegetation_units)<br> • Classification of dominant stands (ESRI Shapefile; abbreviation: lvl4_dominant_stands )<br> • Classification of substrat types (ESRI Shapefile; abbreviation: lvl4_substrate_types)<br> • associated reports (PDF; statistical and additional information on the classifiaction results and workflow)<br> The above-mentioned files are provided for download as dataset stored in one directory per projekt site and season (e.g. mDRONES4rivers_Niederwerth_2019_03_Summer_Classification.zip = projectname_projectsite_year_no.season_name.season_product). To provide an overview of all files and general background information plus data preview the following files are additionally provided: <br> • Portfolios (PDF, Detailed description of classification products and classification workflow, 1x for basic surface types, 1x for classification of vegetation units, 1x for classification of dominant stands, 1x for classification of substrate types)<br> • Color Coding table for the visualization of the classifiaction units (.xlsx)</p>
Dynamic cone penetration tests conducted at the NBS site in OAL-Austria
<p>Dynamic cone penetration tests conducted at the NBS site in OAL-Austria to infer the regolith depth and penetration resistance</p> <p>A light-weight CPT device was used, dropping a defined weight of 10kg from a defined height, while recording the number of strokes required for penetrating the soil material in vertical increments of 10 cm. </p>
Data from: Restriction site-associated DNA sequencing reveals local adaptation despite high levels of gene flow in Sardinella lemuru (Bleeker, 1853) along the northern coast of Mindanao, Philippines
<p>Stock identification and delineation are important in the management and conservation of marine resources. These were highlighted as priority research areas for Bali sardinella (<em>Sardinella lemuru</em>) which is among the most commercially important fishery resources in the Philippines. Previous studies have already assessed the stocks of <em>S. lemuru</em> between Northern Mindanao Region (NMR) and Northern Zamboanga Peninsula (NZP), yielding conflicting results. Phenotypic variation suggests distinct stocks between the two regions, while mitochondrial DNA did not detect evidence of genetic differentiation for this high gene flow species. This paper tested the hypothesis of regional structuring using genome-wide single nucleotide polymorphisms (SNPs) acquired through restriction-site associated DNA sequencing (RADseq). We examined patterns of population genomic structure using a full panel of 3,573 loci, which was then partitioned into a neutral panel of 3,348 loci and an outlier panel of 31 loci. Similar inferences were obtained from the full and neutral panels, which were contrary to the inferences from the outlier panel. While the full and neutral panels suggested a panmictic population (global F<sub>ST</sub> ~ 0, p > 0.05), the outlier panel revealed genetic differentiation between the two regions (global F<sub>ST</sub> = 0.161, p = 0.001; F<sub>CT</sub> = 0.263, p < 0.05). This indicated that while gene flow is apparent, selective forces due to environmental heterogeneity between the two regions play a role in maintaining adaptive variation. Annotation of the outlier loci returned five genes that were mostly involved in organismal development. Meanwhile, three unannotated loci had allele frequencies that correlated with sea surface temperature. Overall, our results provided support for local adaptation despite high levels of gene flow in <em>S. lemuru</em>. Management therefore should not only focus on demographic parameters (e.g., stock size, catch volume), but also consider the preservation of adaptive variation.</p>
CH4 isotopic signatures of emissions from oil and gas extraction sites in Romania
<p>Dataset linked to the manuscript "CH4 isotopic signatures of emissions from oil and gas extraction sites in Romania", submitted to Elementa: Science of the Anthropocene.</p> <p>Abstract: Methane (CH4) emissions to the atmosphere from the oil and gas sector in Romania remain highly uncertain, despite their relevance for the European Union’s goals to reduce greenhouse gas emissions. Measurements of the isotopic composition of CH4 can be used for source attribution, which is important in top-down studies of emissions from extended areas. We performed isotope measurements of CH4 in atmospheric air samples collected from an aircraft (24 locations) and ground vehicles (83 locations), around oil and gas production sites in Romania, with focus on the Romanian Plain. Ethane to methane ratios (C2:C1) were derived at 412 locations of the same fossil fuel activity clusters. The resulting isotopic signals (δ13C and δ2H in CH4) covered a wide range of values, indicating mainly thermogenic gas sources (associated with oil production) in the Romanian Plain, mostly in Prahova county (δ13C from -67.8 to -22.4 per mille V-PDB; δ2H from -255 to -138 per mille V-SMOW) but also the presence of some natural gas reservoirs of microbial origin in Dolj, Ialomia, Prahova and likely Teleorman counties. The classification based on C2:C1 ratios was generally in agreement with the one based on CH4 isotopic composition, and confirmed the characterisation of the gas origin. In several cases, the CH4 enhancements sampled from the aircraft could directly be linked to the underlying production clusters using wind data. The combination of δ13C and δ2H signals determined on these samples confirm that the oil and gas production sector is the main source of CH4 emissions in the target areas.</p>
Small mammal ARTS: Orion receiver data for site radiomapping and vole tracking, and scripts and results for localization and activity estimates
<p class="FirstParagraph">This data set accompanies "An Automated Radio-Telemetry System (ARTS) for Monitoring Small Mammals". </p> <p class="FirstParagraph">The behavior of small fossorial mammals, such as voles, is extremely difficult to observe in natural environments. Small mammals were traditionally studied with labor intensive methods such as trapping and recapture or radio telemetry via homing, which require week/months of work and produce static home range estimates.</p> <p class="FirstParagraph">In pursuit of better understanding natural history and behavioral ecology we implemented an automated radio telemetry system (ARTS) to continuously monitor small mammals. We used an isotropic antenna array coupled with broadband receivers to estimate animal positions with nonlinear least squares, nonparameteric, and Bayesian trilateration methods. We then used Lomb-Scargle periodograms to estimate activity patterns of freely-behaving Prairie voles.</p>
Maps of depths are created for the site of 50 m length. Flow types are turbulent, broken standing waves, unbroken standing waves, and rippled. The average width was 8 m and varied from 5.5 to 12 m. Bed elements included bars, rocks, and step/pools. The average depth was 0.35 m, with a maximum of 0.6 m. The average velocity was 0.4 m/s, with a maximum of 1.2 m/s (figs 10). Distribution of bottom habitats at the locations with the crayfish are as follows: megalital — 5 %, macrolithal — 30 %, mesolithal — 25 %, microlithal — 15 %, psammal — 15 %, CPOM — 10 %. Assessment by hydrobiological parameters showed that the presence of Lyngbya and Oscillatoria, as well as the increase of the number of Oligochae- in New Findings Of White Clawed Crayfish, Austropotamobius Pallipes (Decapoda, Astacidae), And Peculiarities Of Its Spatial Distribution In Neretvica (Bosnia And Herzegovina)
Maps of depths are created for the site of 50 m length. Flow types are turbulent, broken standing waves, unbroken standing waves, and rippled. The average width was 8 m and varied from 5.5 to 12 m. Bed elements included bars, rocks, and step/pools. The average depth was 0.35 m, with a maximum of 0.6 m. The average velocity was 0.4 m/s, with a maximum of 1.2 m/s (figs 10). Distribution of bottom habitats at the locations with the crayfish are as follows: megalital — 5 %, macrolithal — 30 %, mesolithal — 25 %, microlithal — 15 %, psammal — 15 %, CPOM — 10 %. Assessment by hydrobiological parameters showed that the presence of Lyngbya and Oscillatoria, as well as the increase of the number of Oligochae-
The site of an experimental oil spill located at a freshwater wetland along the St. Lawrence River re-visited after 21 years
<p>In 1999 a wetland close to Ste. Croix de Lotibiniere (Quebec, Eastern Canada) and located along the St. Lawrence River was the site of a simulated oil spill. Test plots were set up, contaminated with crude oil and subsequently used to test natural attenuation, nutrient amendment or vegetation cropping as remediation treatments. In 2020, this study revisited the former test plots to investigate any lingering effects of the original Ste. Croix study. Test plot sediments and control sediments featured detectable quantities (75 - 165 g/kg) of mid-chain n-alkanes (C10-C36), but no other kinds of hydrocarbons. Differences in hydrocarbon, total organic carbon, nitrogen and phosphorous content were not significantly different between test plot sediments and control sediments. A microbial analysis did not detect significant differences in microbial load, microbial diversity or microbial community composition between test plot sediments and control sediments. Key genes for the aerobic and anaerobic degradation of n-alkanes as well as for the aerobic degradation of polycyclic aromatic hydrocarbons were detected in all sediment samples. Abundances of these genes did not differ significantly between formerly oil-contaminated sediments and control sediments. This study shows that after 21 years, previously oil-contaminated sediments of the Ste. Croix wetland can be considered completely remediated irrespective of the performed remediation treatment.</p> <p>In this file archive are included, metadata, metagenome co-assembly, functional and taxonomic annotations, contigs and genes abundance matrices and MAGs files.</p> <p>Raw Illumina sequence data was deposited in the NCBI SRA portal under accession PRJNA818909.</p>
SCRIPTA. Site Caennais de Recherche Informatique et de Publication des Textes Anciens.
<p>SCRIPTA est une base de données des chartes normandes des Xe-XIIIe siècles. Il s’agit d’une base évolutive, non exhaustive, en cours d’enrichissement. Le corpus réunit des actes qui, pour la plupart, ont été auparavant édités dans des éditions anciennes dispersées ou qui ont été signalés dans d’autres bases de données. La base met à disposition les textes des actes et une analyse succincte, sans constituer une édition critique détaillée des documents. Les données analytiques sont les suivantes : degré d’authenticité, genre d'acte, type d'action juridique d'acte, lieu d'émission, auteur, fonction (et institution) de l’auteur, bénéficiaire de l’acte, sa fonction/institution, datation, tradition (liste des témoins, copies et éditions), bibliographie et analyse succincte (court résumé) de l'acte. Le texte des actes est donné dans sa langue originelle, sans traduction, sans notes critiques.</p>
Particulate matter concentrations (PM1, PM2.5, PM10) since 2009 for a measurement sites in Zagreb, Croatia
<p>Daily samples of PM<sub>1</sub>, PM<sub>2.5</sub> and PM<sub>10</sub> fractions have been collected continuously during 12-years period (2009-2020) at Zagreb, Croatia (45°50’7’’ N, 15°58’42’’ E, 116 m a.s.l.,). A sampling site was located in the northern, residential part of city which was characterized by modest traffic and population density. The main sources during the household heating season which usually started in October and lasted until April were gas and/or wood. Mass concentrations of PM<sub>1</sub>, PM<sub>2.5</sub> and PM<sub>10</sub> fractions were determined gravimetrically, while meteorological parameters (temperature, RH, wind speed and direction, pressure, and precipitation) were obtained from the Croatian Meteorological and Hydrological Service.</p>
Fig. 2 in Rovno Amber Caddisflies (Insecta, Trichoptera) From Different Localities, With Information About Three New Sites
Fig. 2. Polycentropodids from the new sites: 1 — Holocentropus incertus (Pictet 1856) from Olevsk; 2 — Plectrocnemia sp. from Kuchotskaya Volia; 3–4 — Holocentropus sp. from Rechitsa: 3 — habitus, 4 — genitalia.
PDF exports of pages from the Smart Data Factory web site
<p>The attached zip file contains (in all three languages of the web site, namely Italian, German, and English) the following PDF exports:</p> <ol> <li>Smart Data Factory - Main page.pdf: the main page of the Smart Data Factory web site containing general information about the Smart Data Factory as well as links to offers, past projects, and the research groups of the Faculty of Computer Science of the Free University of Bozen-Bolzano</li> <li>Smart Data Factory - Offers.pdf: an example of a list of offers.</li> <li>Smart Data Factory - Offer.pdf: an example of one offer.</li> <li>Smart Data Factory - Archive items.pdf: an example of a list of archive items (past projects).</li> <li>Smart Data Factory - Archive item.pdf: an example of an archive item.</li> <li>Smart Data Factory - Research group.pdf: an example of the presentation of a research group.</li> </ol>
Fig. 3 in Black Tern Nest-Site Fidelity In An Unstable Habitat: A Preliminary Study
Fig. 3. The distribution of Black Tern colonies at the northern part of Kaniv water reservoir. The only colonies shown here are those where the returns of birds, which had been marked in 2012–2019, were recorded.
Fig. 1. A in Terrestrial Vertebrates Of Post-Quarrying Sites In The Donbas Region Of Ukraine
Fig. 1. A digital elevation model (DEM): exemplified for the Amvrosievka quarry site (legend: meters above sea level).
Non-crop vegetation characteristics and vocalizing bird richness across 44 sites in Iowa, USA in June 2019
<p>This data was derived from field work conducted in June 2019 where sixty AudioMoth passive acoustic monitors were placed along agricultural field margins in Iowa, USA. Twenty-five of the monitoring location were established by farmer and landowner collaborators, and the remaining (35) sites were established by the author (A.P.D.). Unique vocalizing bird species were counted in ninety-five recordings from 6 to 8 days during dawn hours per site. High resolution mapping identified non-crop vegetation and texture at spatial extents ranging from 100 to 1000 meters. Pesticide and fertilizer application were collected via a survey with collaborators. Site location names are included when the research site was an Iowa State Research and Demonstration Farm (ISRF). When the site was a collaborator, the site name was anonymized to "Collaborator" to respect the privacy of participants.</p>
Multi-site environmental field recordings for audio event recognition in Upstate NY
<p>The first soundscape is located in a lightly wooded suburban area north of Albany, New York, at about 100 meters above sea level. The surrounding vegetation consists of white pines, spruces, oaks, and maples. The acoustic data was originally collected using a Zoom H2n Handy Recorder in 4-channel mode, yet only data from a single microphone capsule is presented.. Recordings were originally made at 16 bits in Waveform Audio File Format (WAV) at a frequency of 44,100 Hz. This dataset was collected from August 2019 to August 2020.</p> <p><br> The second soundscape is located in a forested area in Lake George, New York, also at about 100 meters above sea level. The surrounding vegetation consists largely of white pines. The microphone array consisted of two H2n Zoom recorders mounted perpendicularly to simulate four-channel recording conditions, yet only data from a single microphone capsule is presented. Recordings were originally made at 256 kbps in MPEG-2 Audio Layer III (MP3) format. This dataset was collected from February 2020 until February 2021.</p> <p>Once all of the audio data was collected, it was segmented into 8 second-long clips, to ensure that both biological and anthropogenic sound sources with longer call lengths were provided with sufficient temporal context, while still achieving reasonable computational efficiency. Each segment was then downsampled to 16 kHz for processing efficiency, allowing each to be represented as a 128,000-sample vector. </p> <p>Sounds</p> <p>ECMK- Eastern chipmunk "chuck"</p> <p>DGBR- dog bark</p> <p>DOWO- Downy woodpecker drum</p> <p>RNFL- rainfall</p> <p>ENGE- engine</p> <p>RCCR- remote control car</p> <p>BUBP- back-up beeper (truck)</p> <p>SREN- siren</p> <p>FFCR- fall field cricket</p> <p>DDCC- dog-day cicada</p> <p>ECMC- Eastern chipmunk "chirp"</p> <p>EGSK- Eastern gray squirrel "kuk"</p> <p>AMRO- American robin</p> <p>AMCR- American crow</p> <p>BLJA- Bluejay</p> <p>NOCA- Northern cardinal</p> <p>BCCH- Black-capped chickadee</p> <p>EAPH- Eastern phoebe</p> <p>BAWW- Black-and-white warbler</p> <p>WBNU- White-breasted nuthatch</p> <p>RBNU- Red-breasted nuthatch</p> <p>**Sounds from site 1 have no specific label tag while sounds from site 2 are specifically labeled with "-site2"</p> <p> </p>
Conflict over the eukaryote root resides in strong outliers, mosaics and missing data sensitivity of site-specific (CAT) mixture models
Abstract Phylogenetic reconstruction using concatenated loci ("phylogenomics" or "supermatrix phylogeny") is a powerful tool for solving evolutionary splits that are poorly resolved in single gene/protein trees (SGTs). However, recent phylogenomic attempts to resolve the eukaryote root have yielded conflicting results, along with claims of various artefacts hidden in the data. We have investigated these conflicts using two new methods for assessing phylogenetic conflict. ConJak uses whole marker (gene or protein) jackknifing to assess deviation from a central mean for each individual sequence, while ConWin uses a sliding window to screen for incongruent protein fragments (mosaics). Both methods allow selective masking of individual sequences or sequence fragments in order to minimize missing data, an important consideration for resolving deep splits with limited data. Analyses focused on a set of 76 eukaryotic proteins of bacterial-ancestry previously used in various combinations to assess the branching order among the three major divisions of eukaryotes: Amorphea (mainly animals, fungi and Amoebozoa), Diaphoretickes (most other well-known eukaryotes and nearly all algae) and Excavata, represented here by Discoba (Jakobida, Heterolobosea, and Euglenozoa). ConJak analyses found strong outliers to be concentrated in under-sampled lineages, while ConWin analyses of Discoba, the most under-sampled of the major lineages, detected potentially incongruent fragments scattered throughout. Phylogenetic analyses of the full data using an LG-gamma model support a Discoba sister scenario (neozoan-excavate root), which rises to 99-100% bootstrap support with data masked according to either protocol. However, analyses with two site-specific (CAT) mixture models yielded widely inconsistent results and a striking sensitivity to missing data. The neozoan-excavate root places Amorphea and Diaphoretickes as more closely related to each other than either is to Discoba, a fundamental relationship that should remain unaffected by additional taxa.
Fig. 6. —Continuation. C in A comprehensive analysis of Morales Agacino entomological expeditions in Spanish Sahara 1941-1946, with an updated checklist of collection sites and collected insect species (Insecta Polyneoptera, Hymenoptera, Coleoptera Carabidae and Tenebrionidae)
Fig. 6. —Continuation. C, Asserfa,a stony-sandy plain, northern Cap Boujdour (26°22'N, 13°58'W); D, edge of Sebkhat Tah, where Bolivaremia domenechi Morales Agacino, 1949 has been observed. Photos: Annie Garcin.
FIG. 2 in A comprehensive analysis of Morales Agacino entomological expeditions in Spanish Sahara 1941-1946, with an updated checklist of collection sites and collected insect species (Insecta Polyneoptera, Hymenoptera, Coleoptera Carabidae and Tenebrionidae)
FIG. 2. — Routes of Morales Agacino expedition in Spanish Sahara: A, localities cited in the text with the reference numbers in Table 3; the route of the 1943 mission is reconstructed based on Morales Agacino's published data (red lines); B, route of 1941, 1942, 1943 missions, after off-text map in Morales Agacino (1943).
FIG. 5 in A comprehensive analysis of Morales Agacino entomological expeditions in Spanish Sahara 1941-1946, with an updated checklist of collection sites and collected insect species (Insecta Polyneoptera, Hymenoptera, Coleoptera Carabidae and Tenebrionidae)
FIG. 5. — Distributions of nine species of Orthoptera Acridomorpha in a cline defined by maritime and continental influences in Spanish Sahara. These maps allow to figure out distributional patterns resulting from the spatialization of the continental index of Daget (1977) through the climate map of Morocco by Mokhtari et al. (2014): A, endemic species to the Atlantic coast; B, species of the Pre-Sahara and semi-deserts; C, species endemic to the Sahara; D, arenicolous species adapted to living in desert. See also georeferenced cartography.gpx in Suplementary Table 1.
FIG. 4 in A comprehensive analysis of Morales Agacino entomological expeditions in Spanish Sahara 1941-1946, with an updated checklist of collection sites and collected insect species (Insecta Polyneoptera, Hymenoptera, Coleoptera Carabidae and Tenebrionidae)
FIG. 4. — Phamphagulus taxa in Spanish Sahara: A, Distribution of Pamphagulus vicinus Ramme, 1931, Pamphagulus mateui mateui Morales Agacino, 1949 and Pamphagulus mateui audebdidetensis Morales Agacino, 1949 (Orthoptera Acridomorpha Dericorythidae); B, C, habitus of Pamphagulus vicinus Ramme, 1931: B, male, specimen MNHN-EO-CAELIF159; C, female, specimen MNHN-EO- CAELIF160. Locality numbers: see Tables 3 and 5. After Morales Agacino (1949).
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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)
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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.