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1,572 results for “sediments”
Fig. 2. a in Small Free-Living Heterotrophic Flagellates from Marine Sediments of Gippsland Basin, South-Eastern Australia
Fig. 2. a – Chilomastix cuspidata, showing general appearance of cell; b – Goniomonas amphinema, showing general appearance of cell; c – G. pacifica, note two flagella diverging; d – Percolomonas similis, note ventral groove; e – Bodo platyrhynchus; f – Neobodo curvifilus; g – N. saliens; h–i – Hemistasia phaeocysticola, note a papillum (arrow); j – Bordnamonas tropicana, showing general appearance and mouth (arrow); k – Rhynchomonas nasuta; l–o – Rhynchobodo simius; l – tubular ingestion organelle (arrow); m, o – showing groove; n – general appearance of cell; p–q – Rhynchopus amitus; r–s – Spironema multiciliatum; t – Amastigomonas debruynei, general appearance of cell; u – Amastigomonas mutabilis, note anterior flagellum projecting from sleeve and recurrent flagellum; v – Apusomonas sp.; w – Psammosa unguis nov. comb., general appearance of cell; x–y – Mantamonas plastica; x – note anterior flagellum (arrow) and y – ventral depression. All micrographs are DIC images. Scale bar: 5 µm for all figures.
Fig. 1. a in Small Free-Living Heterotrophic Flagellates from Marine Sediments of Gippsland Basin, South-Eastern Australia
Fig. 1. a – Chilomastix cuspidata, b – Rhynchopus amitus, c – Spironema multiciliatum, d – Psammosa unguis nov. comb., e – Apusomonas sp., f – Rhynchobodo formica, g – Mantamonas plastica, h – Roombia truncata, i – Thaumatomastix setifera, j – Ancyromonas impluvium nov. spec., k – Helkesimastix faecicola, l – Kurnaimonas celeris nov. spec., m – Sinistermonas sinistrorsus nov. spec., n – Kiitoksia kaloista, o – Protist '1'. Scale bar: 10 µm for all figures.
Fig. 4. a in Small Free-Living Heterotrophic Flagellates from Marine Sediments of Gippsland Basin, South-Eastern Australia
Fig. 4. a – Carpediemonas membranifera; b – Kipferlia bialata; c – Discocelis saleuta, note a short flagellum; d – Metopion fluens, showing general appearance of cell, note shorter flagellum (arrow); e–f – Kurnaimonas celeris nov. spec., showing general appearance of cell; g – Pseudophyllomitus granulatus; h – Helkesimastix faecicola, showing general appearance and note short flagellum (arrow); i – Metromonas grandis, showing general appearance of cell and note the folded margin on the left side and short flagellum (arrow); j – Metromonas simplex, showing general appearance of cell and note short flagellum (arrow); k – Kiitoksia kaloista, showing two flagella and note short flagellum (arrow); l – Sinistermonas sinistrorsus nov. spec., showing general appearance of cell, and note flagellar insertion and beating pattern of anterior flagellum; m – Telonema subtilis, showing general appearance; n – Protist '1'. All micrographs are DIC images. Scale bar: 5 µm for all figures.
Fig. 3. a–b in Small Free-Living Heterotrophic Flagellates from Marine Sediments of Gippsland Basin, South-Eastern Australia
Fig. 3. a–b – Rhynchobodo formica; c – Massisteria marina, general appearance of cell showing pseudopodia and flagella (arrow); d–f – Cercomonas sp.; d – note two acronematic flagella; e – general appearance; f – note flagellar orientation; g–h – Roombia truncata, note cell attached to the substrate by the tip of the posterior flagellum and note extrusomes; i – Protaspa obliqua, note anterior protrusion; j–k – Thaumatomastix setifera, note spines around the body; j – general appearance of cell; k – ventral face showing a deep groove and pseudopodia; l–m – Ancyromonas sigmoides of different cells; l – note slightly thick anterior flagellum with acronematic tip and broad rostrum; m – note thick anterior flagellum and acute rostrum; n–p – Ancyromonas impluvium nov. spec., showing general appearance of cell and note flagellar insertion. All micrographs are DIC images with the exceptions of (d) and (p) which are phase contrast images. Scale bar: 5 µm for all figures.
Compilations of Palaeogene deep-sea diatom-bearing sediments and associated data
<p><strong>deep_sea_diatoms.xls</strong> contains a compilation of Palaeogene deep-sea diatom-bearing sediments and associated cherts.</p> <p><strong>rads_from_smear_slides.csv</strong> is an update on the radiolarian dataset reported in Renaudie (2016).</p> <p><strong>ageprofiles_tab.csv</strong> contains a compilation of deep-sea drilling sites containing sediments of specific ages.</p>
The Influence of Diatoms on Hydromechanical Properties of Marine Sediments
<p>Each tab represents the data necessary to re create the graphs in the associated paper "The Influence of Diatoms on Hydromechanical Properties of Marine Sediments". The tabs are in the same order chronoligically as the graphs in the paper.</p>
Sediment thickness of the USA from seismic receiver functions
<p>Data relating to the results of "Sediment thickness of the contiguous United States from seismic receiver functions" (submitted).</p> <p> </p> <p>Summary dataset of sediment thicknesses measured at seismic stations across the USA. Original reciever functions obtained from the IRIS EARS database. The data is provided in two formats, simple txt and geojson. Both files contain the same data. For each station, the receiver function delay time (in seconds) and two estimates of sediment thickness (in kilometres) are given.</p> <p>UPDATE v2: The addition of further stations from the BK network in California's Central Valley</p>
Imaging the sediment cover offshore central Chile with surface-wave dispersion and P-wave conversion using DAS
<p>This repository contains codes and data used to reproduce the figures in the paper <em>Vernet, C. et al, "Imaging the sediment cover offshore central Chile with surface-wave dispersion and P-wave conversion using distributed acoustic sensing", 2025, (<a href="https://doi.org/10.1029/2024JB030507">https://doi.org/10.1029/2024JB030507</a>).</em></p>
Porewater concentrations of nitrate, nitrite, ammonium, manganese, and iron in sediments from the Atacama and Kermadec Trench regions
<p>The file presents data collected during cruises on <em>RV </em>Tangaroa<em> </em>(TAN1711, 2017) to the Kermadec Trench and <em>RV</em> Sonne (SO261, 2018) to the Atacama Trench. Sample collection and analyses are described, and results are discussed in Thamdrup, B. et al. Anammox bacteria drive fixed nitrogen loss in hadal trench sediments<strong>. </strong>Proc. Natl. Acad. Sci. USA, in press, doi: 10.1073/pnas.2104529118.</p>
The fate of sediment after a large earthquake
<p>This folder contains the Supplemental material related to Francis et al 2021; The fate of sediment after a large earthquake, Submitted to JGR Earth Surface<br> The folder contains 3 sub-folders and 2 excel spreadsheets.</p> <p>ChannelWidthSurveys - This folder contains the shape files of the 17 surveyed catchments and the jupyter notebook (ChannelDepositNotebook.ipynb) which is used to generate the Tributary channel deposit sediment budget.</p> <p>MassMovementInventory - This folder contains the shapefiles which are the basis of the mass movement sediment budget. More information on the origin and the attributes of these files can be found in Fan, X. et al. 2019. Two multi-temporal datasets that track the enhanced landsliding after the 2008 Wenchuan earthquake. Earth System Science Data 11(1), pp. 35–55. Available at: https://www.earth-syst-sci-data.net/11/35/2019/.</p> <p>MassBalanceFiles - This folder contains the jupyter notebook (MonteCarloSedimentBudgets.ipynb) which generates the sediment budget described in Francis et al 2021. The .txt and .csv files are the inputs and outputs of this notebook. See the notebook itself for more information on these files.</p> <p>TributaryChannelDepositSedimentBudget.xlsx - This file is the excel folder showing the processed results of ChannelDepositNotebook.ipynb. The file contains the final results and the processing methodology to allow the reader to reproduce the results.</p> <p>MassBudget.xlsx - This folder contains the final results of the sediment budget described in Francis et al, 2021. This excel file is made up of copying and pasting the output .txt files of MonteCarloSedimentBudgets.ipynb.</p>
Database for the Geospatial Synthesis of Biogeochemical Attributions of Porphyrins to Oil Pollution in Marine Sediments of the Gulf of México
<p>This dataset is associated with the journal article "Geospatial Synthesis of Biogeochemical Attributions of Porphyrins to Oil Pollution in Marine Sediments of the Gulf of México" by Muñoz-Arriola and Macias-Zamora (2022). The porphyrin and biogeochemical data were obtained by and analyzed at the Universidad Autónoma de Baja California's Instituto de Investigaciones Oceanológicas. The samples were collected to identify the effects of natural and human-originated oil spills in the Campeche Sound, and these efforts are part of the oceanographic campaign Xaman-Ek.</p> <p> </p> <p>Associated references are:</p> <p>Munoz-Arriola, F. and V. Macias-Zamora (2022) <em>Geospatial Synthesis of Biogeochemical Attributions of Porphyrins to Oil Pollution in Marine Sediments of the Gulf of México</em>. Geosciences. https://doi.org/10.3390/ geosciences12020077.</p> <p>Macias-Zamora, J. V., J. A. Villaescusa-Celaya; A. Munoz-Barbosa; and G. Gold-Bouchot (1999). Trace metals in sediment cores from the Campeche shelf, Gulf of Mexico. Environmental Pollution. Vol 104:69-77.</p> <p> </p>
Data from: Central Mongolian lake sediments reveal new insights on climate change and equestrian empires in the Eastern Steppes
<p>The data set includes the results of ICP-OES, CNS, biomarker, and stable isotope analyses published in the research paper:</p> <p><strong>Struck, J., Bliedtner, M., Strobel, P., Taylor, W., Biskop, S., Plessen, B., Klaes, B., Bittner, L., Jamsranjav, B., Salazar, G., Szidat, S., Brenning, A., Bazarradnaa, E., Glaser, B., Zech, M., Zech, R.: Central Mongolian lake sediments reveal new insights on climate change and equestrian empires in the Eastern Steppes. Scientific Reports, 12, 2829, (2022). DOI: https://doi.org/10.1038/s41598-022-06659-w</strong></p> <p>For further information, in particular, the analyses and methods applied, we refer the reader/user to the original research paper and the supporting information published in Scientific Reports.</p> <p> </p> <p> </p>
Vegetation changes over the last centuries in the Lower Lake Constance region reconstructed from sediment-core environmental DNA
<p>Many European lake ecosystems, including their respective catchment areas, underwent anthropogenic environmental changes over the last centuries. This has resulted in changes in the aquatic and terrestrial vegetation, but historical records on the composition of the past vegetation on centennial scale are scarce. In this study, we examined changes in the terrestrial and aquatic plant communities in and around Lower Lake Constance using metabarcoding of sedimentary DNA (sedDNA) of three cores from different sub- basins covering the past, up to 300 years. We successfully identified an average of c. 3000 sequence variants (molecular operational taxonomic units - MOTUs) and obtained a taxonomically annotated dataset of 127 species, 104 genera and 72 families. We could detect major changes in the terrestrial and aquatic vegetation of the Lower Lake Constance region by examining the cores. For example, alpha diversity decreased in the last c. 100 years, and this decrease was more pronounced in the terrestrial than in the aquatic plant community. Unlike the terrestrial plant-community, the current aquatic plant- community composition partially resembles the community from before the 20th-century eutrophication phase of the lake. In addition to changes that can be attributed to anthropogenic impacts, we also captured the effect of DNA sedimentation on the terrestrial DNA diversity representation in sediments during periods of extensive flooding and potentially as a consequence of extremely cold winters. With 1sedDNA from Lower Lake Constance, we provide a new local dataset to investigate and extend the historical changes of different shoreline habitats and to identify characteristic and invasive plant species. Such highly-resolved datasets spanning the past centuries can provide detailed information on human environmental history in densely populated regions that have undergone severe changes in the recent past.</p>
Biogeomorphic modeling to assess the resilience of tidal-marsh restoration to sea level rise and sediment supply - Supporting code and data
<p>Code and data to reproduce figures and analyses of the paper:</p> <p>Gourgue, O., van Belzen, J., Schwarz, C., Vandenbruwaene, W., Vanlede, J., Belliard, J.-P., Fagherazzi, S., Bouma, T.J., van de Koppel, J., and Temmerman, S.: Biogeomorphic modeling to assess resilience of tidal marsh restoration to sea level rise and sediment supply, Earth Surf. Dynam., submitted.</p> <p>Standard Python dependencies:</p> <ul> <li>GDAL</li> <li>Geopandas</li> <li>Matplotlib</li> <li>NumPy</li> <li>Rasterio</li> <li>SciPy</li> <li>Seaborn</li> <li>Shapely</li> <li>scikit-learn</li> </ul> <p>Third-party Python dependencies:</p> <ul> <li>Centerline (https://github.com/fitodic/centerline)</li> <li>pputils (https://github.com/pprodano/pputils)</li> <li>pysheds (https://github.com/mdbartos/pysheds)</li> </ul> <p>In-house Python dependencies:</p> <ul> <li>Demeter 1.0.5 (https://doi.org/10.5281/zenodo.5205258)</li> <li>OGTools 1.1 (https://doi.org/10.5281/zenodo.3994952)</li> <li>TidalGeoPro 0.1 (https://doi.org/10.5281/zenodo.5205285)</li> </ul>
Sand and gravel sediment flux data, San Antonio River, Texas
<p>Dataset consists of field observations of sand and gravel sediment fluxes and bed material in the lower San Antonio River, Texas. A Helley-Smith bedload sampler was deployed at three locations over stream discharges that span two orders of magnitude. Details are given in Haschenburger (2021), Fractional Transport Rates in a Poorly Sorted Sand-bed River, Geomorphology, 389, 107797, https://doi.org/10.1016/j.geomorph.2021.107797</p>
ChRM and grain-size data of deep-sea sediments in the Central Philippine Sea
<p>The Philippine Sea is a typical region of eolian dust reposition and is located within the Western Pacific Warm Pool. Here, we use the paleo-magnetic stratigraphy and the grain-size distributions of Quaternary abyssal deposits in the Central Philippine Sea to investigate the factors controlling regional sedimentary and paleoenvironmental changes. Our principal results are as follows: (1) A reliable geochronologic framework for Quaternary sediments in the Central Philippine Sea is established. (2) An eastward expansion of the regional depocenter in the Middle Pleistocene is observed. (3) The mean grain size of the abyssal sediments is 7–8 μm, and there are only minor differences between the sites. Comparison of the geochronological framework with various paleoenvironmental events during the Mid-Pleistocene Transition shows that sedimentary processes can be correlated to a major transition in global climate which affected regions from the Asian interior to the tropical Pacific, and that changes in aeolian sedimentation are likely the predominant factor responsible. A derived grain-size proxy of the sedimentary dynamics and its comparison with various paleoenvironmental proxies show that the relative contributions are roughly estimated as 23%, 9%, and 68% for aeolian inputs, oceanic circulation, and the tropical Pacific zonal SST gradient, respectively in the studied region. The relative importance of tropical processes in abyssal sedimentary dynamics highlights the possibility of the long-term influence of (sub)mesoscale eddies in the upper ocean, via regional upwelling and unique submarine topography, on the deepest part (>5000 m) of the Central Philippine Sea, from meteorological to geological timescales.</p>
Datasets for the publication "Sedimentation Kinetics of Hydrous Ferric Oxides in Ferruginous, Circumneutral Mine Water"
<p>This file contains datasets that were generated during laboratory-based column sedimentation experiments. The article was published in Environmental Science & Technology (accepted April 8, 2022).</p>
Data to reproduce the results presented in Sehgal et al. 2022. Water Resources Research, https://doi.org/10.1029/2021WR030624 ("Inferring suspended sediment carbon content and particle size at high-frequency from the optical response of a submerged spectrometer")
<p>This repository consists data to reproduce results as presented in: "Inferring suspended sediment carbon content and particle size at high-frequency from the optical response of a submerged spectrometer", Water Resorces Research. Kindly refer to the readme.text file to navigate through the dataset.</p> <p> </p> <p> </p>
Data from: eDNA metabarcoding of log hollow sediments and soils highlights the importance of substrate type, frequency of sampling and animal size, for vertebrate species detection
<p>Fauna monitoring often relies on visual monitoring techniques such as camera trappings, which have biases leading to underestimates of vertebrate species diversity. Environmental DNA (eDNA) has emerged as a new source of biodiversity data that may improve biomonitoring; however, eDNA based assessments of species richness remain relatively untested in terrestrial environments. We investigated the suitability of fallen log hollow sediment as a source of vertebrate eDNA, across two sites in south-western Australia - one with a Mediterranean climate and the other semi-arid. We compared two different approaches (camera trapping and eDNA metabarcoding) for monitoring of vertebrate species, and investigated the effect of other factors (frequency of species, timing of visits, frequency of sampling, body size) on vertebrate species detectability. Metabarcoding of hollow sediments resulted in the detection of higher species richness in comparison Hollow sediment detected higher species richness (29 taxa: six birds, three reptiles and 20 mammals) to metabarcoding of soil at the entrance of the hollow (13 taxa: three birds, two reptiles and eight mammals). We detected 31 taxa in total with eDNA metabarcoding and 47 with camera traps, with 14 taxa detected by both (12 mammals and two birds). By comparing camera trap data with eDNA read abundance, we were able to detect vertebrates through eDNA metabarcoding that had visited the area up to two months prior to sample collection. Larger animals were more likely to be detected, and so were vertebrates that were identified multiple times in the camera traps. These findings demonstrate the importance of substrate selection, frequency of sampling, and animal size, on eDNA based monitoring. Future eDNA experimental design should consider all these factors as they affect detection of target taxa. </p>
Seasonal sediment plumes in the Krishna-Godavari basin using satellite observations - Dataset
<p>Seasonal plume patterns of diffuse attenuation coefficient at the wavelength of 490 nm, K<sub>d</sub>(490), in the coastal waters of Krishna-Godavari, southeast coast of India basin, are examined through remote sensing data collected from July 2002 to October 2021 by the Moderate Resolution Imaging Spectroradiometer (MODIS) on the Aqua platform. This dataset provide point values extracted for K<sub>d</sub>(490) and SST at 16.32°N, 82.603°E in a 3x3 grid for turbidity region for the analysis of inter-annual variability in (a) spring, (b) summer, (c) autumn, and (d) winter during July 2002 to October 2021.</p>
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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.