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Figure 1 in First record of four snapper fishes (Perciformes: Lutjanidae) from Odisha, East coast of India
Figure 1. Lutjanus guilcheri (Fourmanoir).
Complete Data and Results for "Four-of-a-kind? Comprehensive atmospheric characterisation of the HR~8799 planets with VLTI/GRAVITY"
<p><strong>Four-of-a-kind? Comprehensive atmospheric characterisation of the HR~8799 planets with VLTI/GRAVITY</strong></p> <p>We explored the atmospheres of the HR 8799 system of directly imaged planets using petitRADTRANS atmospheric retrievals. This required reprocessing existing data, preparing new observations from VLTI/GRAVITY and combining additional archival spectroscopic and photometric datasets. We ran 95 retrievals across the four planets, and include here the full set of outputs from the sampling process, as well as synthesised results for each retrieval. Finally, we also include templates for running these retrievals.</p> <p>This data, together with the results of the retrievals and templates for running similar emission spectra retrievals are included in this Zenodo archive. Additional README files are included throughout the archive in order to explain file structures, units, and to provide original references where necessary. An archived repository of the petitRADTRANS code can be found at <span><a href="https://doi.org/10.5281/zenodo.10892021">https://doi.org/10.5281/zenodo.10892021</a>,</span> while the up-to-date repository is available at <span><a href="https://gitlab.com/mauricemolli/petitRADTRANS">https://gitlab.com/mauricemolli/petitRADTRANS</a>.</span></p>
Figure 3 in First record of four snapper fishes (Perciformes: Lutjanidae) from Odisha, East coast of India
Figure 3. Lutjanus quinquelineatus (Bloch).
Figure 2 in First record of four snapper fishes (Perciformes: Lutjanidae) from Odisha, East coast of India
Figure 2. Lutjanus madras (Valenciennes).
Legacy effects of four decades of insecticide applications on contemporary benthic macroinvertebrates in eastern Canadian rivers
<p>These files support the manuscript "Legacy effects of four decades of insecticide applications on contemporary riverine benthic macroinvertebrates," which has been published in <em>Environmental Pollution </em>(https://doi.org/10.1016/j.envpol.2025.126397). This manuscript evaluates the relative importance of historical insecticide applications and modern environmental variables in explaining benthic macroinvertebrate assemblages at 274 sites across the province of New Brunswick, Canada.</p> <p>No new data was generated for the work described in this manuscript. Historical insecticide application data for the province of New Brunswick were taken from Heartz et al. 2023 (<a href="https://doi.org/10.1002/ecy.4068">https://doi.org/10.1002/ecy.4068</a>), and benthic macroinvertebrate data were downloaded from the publicly available CABIN database (<a href="https://open.canada.ca/data">https://open.canada.ca/data</a>, record ID 13564ca4-e330-40a5-9521-bfb1be767147). The authors cannot make their compiled data set publicly available because the subset of CABIN data used for this analysis includes privately maintained data that are only available upon request from respective stakeholders. Please contact the corresponding author for guidance on obtaining these data directly from CABIN. </p> <p>The attached files include</p> <ul> <li><strong>analysis_R_scripts</strong>: All R codes required to reproduce our analysis. <ul> <li><em>01_cabin_prep_BMI_data</em> cleans the CABIN benthic macroinvertebrate data for analysis.</li> <li><em>02_cabin_prep_env_data</em> cleans the CABIN site-level environmental data for analysis.</li> <li><em>03_pesticide_etl_calculation</em> calculates the estimated toxicity load (ETL) in each reach and catchment we studied. </li> <li><em>04_ pesticide_apps_per_year</em> calculates the number of years each insecticide was applied in each reach and catchment we studied.</li> <li><em>05_site_year_selection_script</em> subsets the CABIN data to include only one observation per site and calculates univariate indices (e.g., %EPT) for each site.</li> <li><em>06_data_merge_for_analysis</em> compiles all data (insecticide applications and environmental variables at the reach and catchment scales + CABIN macroinvertebrate and site-level environmental data)</li> <li><em>07_univariate_analysis</em> performs multiple regression analysis with the merged data.</li> <li><em>08_mulivariate_analysis_familydata</em> performs PCA and RDA analysis with the merged data.</li> <li><em>09_misc_figures</em> renders figures used in the manuscript text.</li> <li><em>10_site_year_selection_100x</em> loops over script #5 100x to confirm that our results were robust to data subsetting and imputation.</li> <li><em>11_data_merge_100x</em> loops over script #6 100x to confirm that our results were robust to data subsetting and imputation.</li> <li><em>12_univariate_analysis_100x</em> loops over script #7 100x to confirm that our results were robust to data subsetting and imputation.</li> </ul> </li> </ul>
19328_2020_10_31_downUpshift_four_2_0_2_glu_dual_phl__glt1_ura8_ura8__00 (part 3)
High throughput time lapse experiment. Details can be found on the 'txt' files inside.
19328_2020_10_31_downUpshift_four_2_0_2_glu_dual_phl__glt1_ura8_ura8__00 (part 2)
High throughput time lapse experiment. Details can be found on the 'txt' files inside.
19328_2020_10_31_downUpshift_four_2_0_2_glu_dual_phl__glt1_ura8_ura8__00 (part 1)
High throughput time lapse experiment. Details can be found on the 'txt' files inside.
A labelled dataset of the loud calls of four vertebrates collected using passive acoustic monitoring in Malaysian Borneo
<p><em>Passive acoustic monitoring data collection</em></p> <p>We collected data using first generation Swift autonomous recording units (ARUs) (Koch et al. 2016) with a microphone sensitivity of −44 (+/−3) dB re 1 V/Pa. The microphone frequency response was not measured but is assumed to be flat (+/− 2 dB) in the frequency range 100 Hz to 7.5 kHz. The analog signal was amplified by 40 dB and digitized (16-bit resolution) using an analog-to-digital converter (ADC) with a clipping level of −/+ 0.9 V. We collected acoustic data from one primary conservation area in Sabah, Malaysia: Danum Valley Conservation Area (with 11 recording units from March to July 2018). Danum Valley covers an area of roughly 440 km², and is characterized by lowland dipterocarp forest. Unlike many tropical forest regions, this area is considered 'aseasonal' due to its lack of clearly differentiated wet and dry seasons (Walsh and Newbery 1999). In Danum Valley, the ARUs recorded at a sampling rate of 16 kHz. All recordings were saved in waveform audio (.wav) format, with files of 2-hr duration. We affixed each recording unit to trees approximately 2-m above the ground and recorded continuously over 24 hours. We set the units on a 750 m grid structure, and preliminary field tests indicate that with these recording settings the detection range of gibbon vocalizations is ~ 400 m.</p> <p> </p> <p><em>Acoustic data processing </em></p> <p>We randomly chose approximately 500 h of recordings from Danum Valley Conservation Area to use to create a training dataset. We used a band-limited energy detector (BLED) to identify potential sounds of interest in the gibbon frequency range. For the BLED detector, we convert the 2-hr recordings into a spectrogram using a 1,600-point (100 ms) Hamming window (3 dB bandwidth = 13 Hz) with 0% overlap and a 2,048-point DFT, with the "seewave" package (Sueur et al. 2008). We then filtered the spectrogram to focus on the desired frequency range, specifically 0.5–1.6 kHz for Northern grey gibbons. For each unique time window in the recording, we determined the total energy across frequency bins which gave a single value for every 100 ms interval. Utilizing the "quantile" function in base R, we established the threshold to delineate signal from noise. Preliminary tests with varied quantile values revealed that the 15th quantile led to optimized recall for our target signal. This approach resulted in 1,439 unique sound events. The sound events were then annotated by a single observer (DJC) using a custom-written function in R to visualize the spectrograms into the following categories: great argus pheasant (<em>Argusianus argus</em>) long and short calls (Clink et al. 2021), helmeted hornbills (<em>Rhinoplax vigil</em>), rhinoceros hornbills (<em>Buceros rhinoceros</em>), female gibbons (<em>Hylobates funereus</em>) and a catch-all “noise” category. </p> <p><em>Update Version 5 and later</em></p> <p>Includes labeled test clips from a second conservation area, Maliau Basin Conservation Area, Sabah, Malaysia recorded during August 2019. The ARUs recorded at a sampling rate of 16 kHz. All recordings were saved in waveform audio (.wav) format, with files of 2-hr duration. We affixed each recording unit to trees approximately 2-m above the ground and recorded continuously over 24 hours.</p> <p> </p> <p><strong>References</strong></p> <p>Clink, D. J., Groves, T., Ahmad, A. H., & Klinck, H. (2021). Not by the light of the moon: Investigating circadian rhythms and environmental predictors of calling in Bornean great argus. <em>PloS one</em>, <em>16</em>(2), e0246564.</p> <p>Koch, R., Raymond, M., Wrege, P., & Klinck, H. (2016). SWIFT: A small, low-cost acoustic recorder for terrestrial wildlife monitoring applications. In <em>North American Ornithological Conference</em> (p. 619). Washington, D.C.</p> <p>Sueur, J., Aubin, T., & Simonis, C. (2008). Seewave: a free modular tool for sound analysis and synthesis. <em>Bioacoustics</em>, <em>18</em>, 213–226.</p> <p>Walsh, R. P., & Newbery, D. M. (1999). The ecoclimatology of Danum, Sabah, in the context of the world’s rainforest regions, with particular reference to dry periods and their impact. <em>Philosophical transactions of the Royal Society of London. Series B, Biological sciences</em>, <em>354</em>(1391), 1869–83. https://doi.org/10.1098/rstb.1999.0528</p> <p>Webb, C. O., & Ali, S. (2002). Plants and vegetation of the Maliau Basin Conservation Area, Sabah, East Malaysia. <em>Final Report to Maliau Basin Management Committee</em>.</p> <p> </p>
Dataset for "Effects of drought on carbonyl sulfide exchange in four plant species"
<p>Additional funding:</p> <p><span>Tyrolian Science Fund (UNI-404/2318)</span></p> <p><span>FWF I03859</span></p>
Chromatograms obtained by GC-MS of the four essential oils (Mentha pulegium, Origanum vulgare, Rosmarinus officinalis, Myrtus communis).
<p>The four selected bioactive EOs (Mentha pulegium, Origanum vulgare, Rosmarinus officinalis, Myrtus communis) was performed using gas chromatography (GC) (Agilent 7890A Series) coupled to mass spectrometry (MS) equipped with a multimode injector and a 123-BD11 column of dimension (15 m × 320 μm × 0.1 μm) at Moroccan Foundation for Advanced Science, Innovation and Research (MAScIR) Institute.</p> <p>This file showed the outputs of the chromatogram obtained by GC-MS of the four essential oils (Mentha pulegium, Origanum vulgare, Rosmarinus officinalis, Myrtus communis).</p>
Supplementary material S30: The trend in times intervals of jolting pulses for four mite individuals on various substrates (petri-dish, brood-comb and honeycomb).
<p>Jolt occurrence time intervals with respect to time. Data are shown here for a second and third mite on petri-dish (a, b and c, d respectively), a second mite on brood-comb (e, f) and the mite that produces audible jolting pulses on the empty honeycomb that is referred to in the main text (g, h). Jolt occurrences and time between consecutive instances of jolting are showcased in both linear (a, c, e, g) and logarithmic (b, d, f, h) forms. A change in the colour of the data points is indicative of the mite moving to a new position on the substrate.</p>
Four historical tree-ring chronologies and underlying data derived from dendrochronological research on Batavia shipwreck timbers
<p>This dataset comprises four tree-ring chronologies and underlying tree-ring data derived from the dendrochronological research on the shipwreck timbers of the <em>Batavia</em> shipwreck. The undated tree-ring series have also been included.</p> <p>For context information about this dendrochronological dataset, please refer to the publication:</p> <p>Daly A, Domínguez-Delmás M, van Duivenvoorde W (2021) <em>Batavia</em> shipwreck timbers reveal a key to Dutch success in 17th-century world trade. PLOS ONE 16(10): e0259391. <a href="https://doi.org/10.1371/journal.pone.0259391">https://doi.org/10.1371/journal.pone.0259391</a> </p> <p> </p>
Fig. 2 in Transfer of the Malagasy genera Humbertianthus and Macrostelia to Hibiscus (Malvaceae) with description of four new species
Fig. 2. – Known distribution of the seven species of Hibiscus L. highlighted in this paper.
Four organic sea surface temperature proxies (UK'37, TEXH86, RI-OH' and LDI) in the westernmost Mediterranean for the last 35 kyr
<p>We present a high-resolution paleotemperature reconstruction from a marine sediment core (GP04PC) recovered in the westernmost Mediterranean, the Alboran Sea basin, over the last 35 kyr using for the first time in pararell four independent organic sea surface temperature (SST) proxies (U<sup>K'</sup><sub>37</sub>,<sup> </sup>TEX<sup>H</sup><sub>86</sub>,RI-OH' and LDI). We also present the δ<sup>18</sup>O of planktonic foraminifera <em>G. bulloides</em> record together with records of bulk parameters (total organic carbon content, δ<sup>13</sup>C<sub>org</sub>) and the accumulation rates of different biomarkers, providing insights in terrestrial input and primary productivity variations. </p> <p>We have also examined the Bayesian calibrations BAYSPLINE for U<sup>K'</sup><sub>37 </sub>and BAYSPAR for TEX<sub>86</sub>, although the non-Bayesian calibrations are used in this study.</p> <p> </p> <p> </p>
Visitation rate of four bee groups within the Calanques National park, Marseille, France
<p>This dataset presents the number of visits and visitation rates realized by four wild bee groups (small bees - < 10-12 mm, large bees > 12 mm, bumblebees and honey bees) on Mediterranean plant species. Data were collected during field surveys taking place from March to June in 2017 and 2018 in the Calanques National Park, Marseille, France on 17 sites.</p> <p>In each site (i.e. 100 m² plots), to maximize the record of bee visitation rates, we first determined the most flowered patches through a visual observation and then we chose the 3 one-square meters most flowered patches to observe plant-bee interactions. An observation consisted in the recording of the visitation rate of each bee group on each plant species in one meter square for 5 minutes per patch in 2017 and 10 minutes per patch in 2018. A session consisted of the sum of observations of all plant-bee interactions on the three one-square-meter patches (i.e. 15 min per plot in 2017 and 30 min per plot in 2018). Nine sessions were performed in 2017 per plot and 5 sessions in 2018 per plot for a total of 135 minutes of observations per plot in 2017 and 150 minutes of observations per plot in 2018. Observations were made between 8h00 and 18h00 and when weather conditions were favorable (no windy or rainy days). </p> <p>Data contains the plant species, the plant family, the site's name, coordinates in WGS84, the date, the week calendar number, the year, the number of visits realized by small bees, large bees, honeybees, bumblebees, period of observation, then visitation rates of each bee group, visited plant richness on each plot each week and cover of each plant species in each site. Each line corresponds to a plant species observed during one observation. Each visit was counted when a bee plunged its head into the flower.</p>
Figure 96 in Four new lithophilic species of Scorpiops Peters 1861 (Scorpiones Scorpiopidae) from peninsular India
Figure 96. Scorpiops lioneli sp. n., male, paratype BHNS SC 263 in vivo habitus.
Figure 33 in Four new lithophilic species of Scorpiops Peters 1861 (Scorpiones Scorpiopidae) from peninsular India
Figure 33. Scorpiops nagphani sp. n., female, paratype BNHS SC 256 in vivo habitus.
Figure 65 in Four new lithophilic species of Scorpiops Peters 1861 (Scorpiones Scorpiopidae) from peninsular India
Figure 65. Scorpiops neera sp. n., male, holotype in vivo habitus.
Figure 1 in Four new lithophilic species of Scorpiops Peters 1861 (Scorpiones Scorpiopidae) from peninsular India
Figure 1. Scorpiops vrushchik sp. n., male, holotype in vivo habitus.
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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.