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74 results for “Sediment Core”
Ice, water, and sediment pigment concentrations from Beaufort Sea lagoons core program stations, 2023-24
Bottom ice (< 20 cm), water column, and undisturbed surface sediment samples from the Beaufort Lagoon Ecosystem Long Term Ecological Research programs were collected, in tandem, from core program sites in ice-cover (~April), ice break-up (~June), and open water (~August) seasons of 2023, and ice-cover 2024, to quantify algal pigment concentrations and variations in an annual cycle. We also ran historical samples from 2021 sampling seasons. This data can be used with analysis programs such as CHEMTAX or PhytoClass to elucidate microalgal community structure. Fourteen pigments were measured, including chlorophyll a, fucoxanthin, zeaxanthin, alloxanthin, peridinin, prasinoxanthin, lutein, chlorophyll c<sub>3</sub>, 19-hexanoyloxyfucoxanthin, and 19-butanoyloxyfucoxanthin. Phaeopigments (pheophytin, pheophorbide, and chlorophyllide a) were also included in these analyses. For sediment samples, the values of chlorophyll a, fucoxanthin, zeaxanthin, alloxanthin, peridinin, pheophytin, pheophorbide, and chlorophyllide a can be found in the core program pigment dataset, which is a continuously collected data set (<a href="https://doi.org/10.6073/pasta/5294f45c9c7287903078926a487f1fd7" style="text-decoration: underline;">Sediment pigment concentrations</a>). Pigment concentrations were measured using high-precision liquid chromatography (HPLC). Concentrations are represented as μg L<sup>-1</sup> for both ice and water column samples, and as μg g<sup>-1</sup> for sediment samples.
North Carolina Outer Banks, USA Coastal Foredune Sediment Cores - Grain Size Data & Core Log Descriptions
<p>This repository includes sediment core data collected at seven sites along the northern Outer Banks, North Carolina, USA. From north to south, the sites include Pine Island, Corolla Reserve, Duck, the US Army Corps of Engineers Field Research Facility (FRF) North, FRF South, Southern Shores (i.e., Hillcrest Beach Access), and Nags Head (Bonnett St. Beach Access).</p><p>At each site, internal dune sedimentology and stratigraphy were characterized using sediment vibracores, each 1.5–2.2 m long, collected along a cross-shore transect from the dune toe to the dune heel. Coring locations were selected based on dune morphology to capture the stratigraphy of the dune toe, stoss slope, primary dune crest, lee slope, swale, and secondary dune crest, as applicable. Sediment core locations were documented using RTK-GPS and are included in the .kmz file.</p><p>All sediment cores were split, photographed, described for sedimentary structures, texture (as compared to standards), mineralogy, and color (Munsell, 2012). Sediment cores were described using the Modified Burmister System in 10-cm intervals, with additional intervals added as needed to capture stratigraphic units with thicknesses less than 10 cm but greater than 1 cm. Sediment core log descriptions are included in the NOAA_NCDunes_Vibracore_CoreLogs.xlsx data file.</p><p>Sediment size and shape were analyzed from oven-dried samples using a CAMSIZERX2Ⓡ. These data are included in the Dune_Grain_Size_camsizer_outputs.csv data file. Metrics reported for each sample include the following: Site, Core ID, Sample Number, Depth (cm below ground surface), Elevation (m, NAVD88), D2 (mm), D5 (mm), D10 (mm), D16 (mm), D25 (mm), D50 (mm), D75 (mm), D84 (mm), D90 (mm), D95 (mm), D98 (mm), average grain symmetry, average grain sphericity, average grain aspect ratio, percent pebble, percent granule, percent very coarse sand, percent coarse sand, percent medium sand, percent fine sand, percent very fine sand, and percent silt.</p><p><strong>More details regarding these measurements can be found in the following manuscript:</strong></p><p>Davis, E.H., Hein, C.J., Cohn, N., White, A.E., Zinnert, J.C. Differences in internal sedimentologic and biotic structure between natural, managed, and constructed coastal foredunes (in review).</p>
Organic Matter, Geochemical, Visible Spectrocolorimetric Properties, Radiocesium Properties, and Grain Size of Potential Source Material, Target Sediment Core Layers and Laboratory Mixtures for Conducting Sediment Fingerprinting Approaches in the Mano Dam Reservoir (Hayama Lake) Catchment, Fukushima Prefecture, Japan
<p>The current dataset was compiled to study sediment fingerprintings practices, i.e tracer selection and contribution modelling. Organic matter, elemental geochemistry, visible difuse spectrocolorimetric properties, radiocesium properties, and grain size were analysed were analysed in potential source material that may supply sediment to coastal rivers, here the upper part of the Mano river, draining the main Fukushima radioactive pollution plume (Japan). Four potential soil source materials (<em>n</em> = 68) were considered: undecontaminated cropland (<em>n</em> = 24), as non-decontaminated soil before the application of local decontamination policies, remediated cropland (<em>n</em> = 10), as decontaminated soil after the application of local decontamination policies, forest soils (n = 24) and subsurface material originating from channel bank collapse or landslides (<em>n</em> = 10; referred to as subsoil). A sediment core was collected in the Mano Dam lake (Hayama lake) on the 6th June 2021 and was sectionned into 1-cm layers (<em>n</em> = 38). Laboratory mixtures (<em>n</em> = 27) were made to assess different contribution levels from the sources.</p> <p>The current dataset comprises four .csv files including data and metadata information and their respective descriptions of variables. The data set is composed of soil samples, sediment core layer and laboratory mixtures. Laboratory mixtures were prepared to provide a dataset to calibrate/validate un-mixing models implemented to address this research question and analysed in the same conditions and using the same equipment as the source/target material.</p> <p>Recommended encoding format: <strong>latin1</strong></p>
Organic and inorganic data for soil cores from Brazil and Florida Bay seagrasses to support Howard et al 2018, CO2 released by carbonate sediment production in some coastal areas may offset the benefits of seagrass “Blue Carbon” storage, Limnology and Oceanography, DOI: 10.1002/lno.10621
Using piston corers, soils from Florida Bay and Brazilian seagrass meadows were collected to complete organic and inorganic carbon inventories for the top 1 m of soil. Instrumental analyses and loss on ignition at 500C were used to measure C content of downcore slices.
Palaeoecological records from BJM2 sediment core (Sebkha Boujmel, Southern Tunisia. 33°18'30.96" N, 11°5'0.68" E)
<p>Palaeoecological records from BJM2 sediment core (Sebkha Boujmel, Southern Tunisia. 33°18’30.96” N, 11°5’0.68” E (Latitude Y 33.3086, Longitude X 11.083522).</p> <p>1. Conventional AMS radiocarbon dates and reservoir-corrected and 2σ range calibrated ages from Sebkha Boujmel (BJM2 core).</p> <p>2. Output of the age-depth model for BJM2 core indicating depth and associated mean date for each cm (cal yr BP). The age model was obtained by third-degree polynomial regression with 10k model iteration using the package Clam 2.2.</p> <p>3. Pollen percentage for the three ecological groups (Mediterranean, steppe and desert taxa). The percentages are calculated with respect to a basic sum that only includes these three groups. Pollen taxa and types from the same genus or family and with the same ecology are grouped; including Boraginaceae (Moltkiopsis ciliata, Onosma and Echium), Ephedra sp. (Ephedra fragilis-t. and Ephedra distachia-t.) and Zygophyllaceae (Fagonia, Nitraria and Zygophyllum). Percentage of aquatics pollen are calculated based on the total sum of pollen grains identified in each pollen spectrum.</p> <p>4. Pollen and clay mineralogy data from Sebkha Boujmel. Percentages of (1) <strong>fresh water</strong> (Cyperaceae, Glyceria, Juncus, Lemna, Potamogeton, Rumex aquaticus-t., Typha/Sparganium-t.) and <strong>(2) Mediterranean tree and shrub</strong> (Buxus, Ceratonia, Cistus, Juniperus, Lamiaceae, Myrtus, Nerium, Olea, Papaveraceae, Pinus, Pistacia, Quercus ilex-t., Quercus deciduous-t., Rhus tripartita-t.) pollen taxa. (3) <strong>Wet / dry (W / D) pollen ratio</strong> (Poaceae + Cyperaceae/Asteraceae Cichorioideae + Asteraceae Asteroideae + Amaranthaceae Cornulaca/Traganum-t.). (4) <strong>Percentages of desert pollen taxa</strong> (Apiaceae, Asphodelus, Asteraceae Asteroideae, Asteraceae Cichorioideae, Calligonum, Capparis, Cistanche, Cleome, Cornulaca/Traganum-t., Crassulaceae, Cucurbitaceae, Echium, Ephedra distachia-t., Ephedra fragilis-t., Fagonia, Helianthemum, Malvaceae, Moltkiopsis ciliata, Neurada, Nitraria, Onosma, Reaumuria, Tamarix and Zygophyllum). (5) <strong>Illite</strong> <strong>[%] (Ill) / Kaolinite [%] (Kln) ratio</strong> and (6) <strong>Palygorskite percentages [%] (Plg)</strong>.</p> <p>5. Pollen percentage of Artemisia and selected anthropogenic pollen indicators (APIs) including cultivated (Cerealia-t., Corchorus, Ficus, Olea, Phoenix, Vitis), nitrophilous (Aizoaceae, Emex, Peganum, Polygonum) and introduced (Acacia cyanophylla-t., Casuarina, Eucalyptus) plant taxa. Percentage are calculated based on the total sum of pollen grains identified in each pollen spectrum.</p> <p>6. Pollen counts for BJM2 core (pollen grain count for each taxon by sample). + Lycopodium (added), Lycopodium (counted) and Sample weight [gr].</p> <p>7. Clay Mineralogy of BJM2 sediment core. </p> <p>Smectite [%] (Sme), METHOD/DEVICE: X-ray diffraction, clay fraction</p> <p>Illite [%] (Ill), METHOD/DEVICE: X-ray diffraction, clay fraction</p> <p>Palygorskite [%] (Plg), METHOD/DEVICE: X-ray diffraction, clay fraction</p> <p>Kaolinite [%] (Kln), METHOD/DEVICE: X-ray diffraction, clay fraction</p> <p>Chlorite [%] (Chl), METHOD/DEVICE: X-ray diffraction, clay fraction</p>
Qiime2 classifiers (rbcl, Mollusc 18s) for testing the validity of using eDNA for carbon origin analysis from sediment cores
<p>Qiime2 formatted classifiers that were created for a Natural England funded project by researchers at the James Hutton Institute. The pilot project aims to test the validity of using eDNA for carbon origin analysis from sediment cores. These classifiers for the rbcl and 18 Mollusc genes were made using RESCRIPt and Qiime2. </p> <p>The scripts used to created these classifiers are available at the James Hutton ICS GitHub <a href="https://github.com/HuttonICS/blue-carbon-db">blue-carbon-db</a> . The files are as follows:</p> <p><a href="../api/records/10046481/draft/files/mollusc-espineira-classifier.qza/content" target="_blank" rel="noopener noreferrer">mollusc-espineira-classifier.qza</a> is a classifer built from ncbi 18s Mollusc sequences, trained on the primer set from Espiñeira et al (2009).</p> <div>rbcl-vasselon-zimmerman-F3-R1-classifier.qza is a classifer built from ncbi rbcl sequences, trained on the F3 and R1 primer set fromVasselon et al (2017).</div> <p> </p> <p> </p> <p><strong>Important: </strong>If you use these classifiers please be aware of the process used to create them and be sure to review the methods. These databases were created by downloading data from the NCBI in October 2023, sequence data available at the NCBI changes over time. To create the most up to date database a fresh download and re-evaluations of the databases would be preferable. All method and scripts can be found at <a href="https://github.com/HuttonICS/blue-carbon-db">blue-carbon-db </a></p> <p>If you use these database please reference this repository along with RESCRIPt and Qiime2 </p> <p> </p> <p>Espiñeira, M., González-Lavín, N., Vieites, J. M. and Santaclara, F. J. 2009 Development of a method for the genetic identification of commercial bivalve species based on mitochondrial 18S rRNA sequences. J Agric Food Chem, 28, 495-502 https://doi.org/10.1021/jf802787d</p> <p> </p> <p>Vasselon, V., Rimet, F., Tapolczai, K. and Bouchez, A. 2017. Assessing ecological status with diatoms DNA metabarcoding: Scaling-up on a WFD monitoring network (Mayotte island, France). Ecological Indicators, 82, 1-12 <a title="Persistent link using digital object identifier" href="https://doi.org/10.1016/j.ecolind.2017.06.024" target="_blank" rel="noreferrer noopener">https://doi.org/10.1016/j.ecolind.2017.06.024</a></p>
Core log descriptions and sediment grain size data for Hurricane Ian sediment cores collected in Lee County, Florida, USA
<p>These data represent qualitative and quantitative measurements of sediment cores collected from various environments following the landfall of Hurricane Ian. These sediment cores were collected using pound coring techniques up to 2m into the subsurface to characterize the sedimentological signature of storm deposits resulting from Hurricane Ian. More details regarding these measurements and interpretations of storm deposits can be found in the folllowing manuscript:</p> <p>McCormick, W.M., Briggs, T.R., Hauptman, L.H., Wang, P., Morphologic and sedimentological signatures resulting from Hurricane Ian, southwest Florida, USA: Insight into intra-storm bidirectional sediment transport processes (In Review). </p>
Lake Cadagno sediment core hyperspectral imaging and pigment data tables
<p>Data Tables related to the manuscript "Hyperspectral imaging sediment core scanning tracks high-resolution Holocene variations in (an)oxygenic phototrophic communities at Lake Cadagno, Swiss Alps" in submission. </p>
Phosphorus Content of Belwood Reservoir Sediment Core
<p><strong>On February 14, 2018, four sediment cores were obtained from Belwood Lake, an approximately 7-km2 reservoir in the upper Grand River Watershed that was created in 1941 as a result of dam construction.Of these four, one core, , 8.7 cm internal diameter and 47 cm long, was selected for sediment core dating and laboratory analysis. Cores were collected using a Glew hammer-driven gravity corer fitted with a lucite tube and were subsequently transported to the lab, where they were sectioned at 0.5-cm intervals. Sediment samples were sealed in plastic bags and refrigerated at 4℃ until undergoing further analysis. One of the four cores collected (47 cm long), was selected for sediment core dating and laboratory analysis.</strong></p> <p><strong>In the laboratory, sequential loss-on-ignition (LOI) analysis was performed using ~0.5-g subsamples of wet sediment from each core slice, as described previously, to obtain the organic matter and carbonate content. The sediment P content of core slices was determined by IC-OES (Thermo Scientific iCAP 6300) after digestion with potassium persulfate-sulfuric acid . A sediment core chronology was developed based on gamma ray spectrometric determination of 210Pb activity at contiguous 0.5-cm intervals, using previously described methods.</strong></p>
Testing alternative hypotheses for the decline of cichlid fish in Lake Victoria using fish fossils time series from sediment cores
<p>Lake Victoria is well known for its high diversity of endemic fish species that provide livelihoods for millions of people. The lake garnered widespread attention during the twentieth century as major environmental and ecological changes modified the fish community with the extinction of ~40% of endemic cichlid species by the 1980s. Suggested causal factors include anthropogenic eutrophication, fishing, and introduced non-native species but their relative importance remains unresolved because monitoring data started in the 1970s when changes were already underway. Here, for the first time, we reconstruct two time series, covering the last ~200 years, of fish assemblage using fish teeth preserved in lake sediments. Two sediment cores Lake Victoria (Mwanza Gulf), were subsampled continuously at intra-decadal resolution, and teeth were identified to major taxa: Cyprinoidea, Haplochromini, Mochokidae, and Oreochromini. None of the fossils could be confidently assigned to non-native Nile Perch. Our data show significant decreases in haplochromine and oreochromine cichlid fish abundances began long before Nile Perch's arrival, while cyprinoids have generally been increasing. Our study is the first to reconstruct a time series of fish assemblage in Lake Victoria extending deeper back in time than the past 50 years, helping shed light on processes underlying Lake Victoria's biodiversity loss.</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>
Linked collectors and determiners for: (Appendix 7) Abundance of Neogloboquadrina pachyderma in sediment core MD01-2444.
Natural history specimen data linked to collectors and determiners held within, "(Appendix 7) Abundance of Neogloboquadrina pachyderma in sediment core MD01-2444". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/7c87ebc8-f762-11e1-a439-00145eb45e9a">https://bionomia.net/dataset/7c87ebc8-f762-11e1-a439-00145eb45e9a</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/7c87ebc8-f762-11e1-a439-00145eb45e9a">https://gbif.org/dataset/7c87ebc8-f762-11e1-a439-00145eb45e9a</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: (Appendix 9) Stable oxygen isotope record of Globigerina bulloides, and abundances of Neogloboquadrina pachyderma and ice-rafted debris in sediment core MD99-2331.
Natural history specimen data linked to collectors and determiners held within, "(Appendix 9) Stable oxygen isotope record of Globigerina bulloides, and abundances of Neogloboquadrina pachyderma and ice-rafted debris in sediment core MD99-2331". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/7c8fa7a0-f762-11e1-a439-00145eb45e9a">https://bionomia.net/dataset/7c8fa7a0-f762-11e1-a439-00145eb45e9a</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/7c8fa7a0-f762-11e1-a439-00145eb45e9a">https://gbif.org/dataset/7c8fa7a0-f762-11e1-a439-00145eb45e9a</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: (Appendix 8) Stable oxygen isotope record of Globigerina bulloides, and abundances of Neogloboquadrina pachyderma and ice-rafted debris in sediment core MD99-2339.
Natural history specimen data linked to collectors and determiners held within, "(Appendix 8) Stable oxygen isotope record of Globigerina bulloides, and abundances of Neogloboquadrina pachyderma and ice-rafted debris in sediment core MD99-2339". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/7c8bc98c-f762-11e1-a439-00145eb45e9a">https://bionomia.net/dataset/7c8bc98c-f762-11e1-a439-00145eb45e9a</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/7c8bc98c-f762-11e1-a439-00145eb45e9a">https://gbif.org/dataset/7c8bc98c-f762-11e1-a439-00145eb45e9a</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: (Appendix 6) Stable oxygen isotope record of Globigerina bulloides and abundance of Neogloboquadrina pachyderma in sediment core MD95-2041.
Natural history specimen data linked to collectors and determiners held within, "(Appendix 6) Stable oxygen isotope record of Globigerina bulloides and abundance of Neogloboquadrina pachyderma in sediment core MD95-2041". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/7c86987c-f762-11e1-a439-00145eb45e9a">https://bionomia.net/dataset/7c86987c-f762-11e1-a439-00145eb45e9a</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/7c86987c-f762-11e1-a439-00145eb45e9a">https://gbif.org/dataset/7c86987c-f762-11e1-a439-00145eb45e9a</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: (Appendix 5) Stable oxygen isotope record of Globigerina bulloides, and abundances of Neogloboquadrina pachyderma and ice-rafted debris in sediment core MD95-2039.
Natural history specimen data linked to collectors and determiners held within, "(Appendix 5) Stable oxygen isotope record of Globigerina bulloides, and abundances of Neogloboquadrina pachyderma and ice-rafted debris in sediment core MD95-2039". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/7c82cc38-f762-11e1-a439-00145eb45e9a">https://bionomia.net/dataset/7c82cc38-f762-11e1-a439-00145eb45e9a</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/7c82cc38-f762-11e1-a439-00145eb45e9a">https://gbif.org/dataset/7c82cc38-f762-11e1-a439-00145eb45e9a</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: (Appendix 4) Stable oxygen isotope record of Globigerina bulloides and abundances of Neogloboquadrina pachyderma and ice-rafted debris in sediment core MD95-2040.
Natural history specimen data linked to collectors and determiners held within, "(Appendix 4) Stable oxygen isotope record of Globigerina bulloides and abundances of Neogloboquadrina pachyderma and ice-rafted debris in sediment core MD95-2040". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/7c7f09f4-f762-11e1-a439-00145eb45e9a">https://bionomia.net/dataset/7c7f09f4-f762-11e1-a439-00145eb45e9a</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/7c7f09f4-f762-11e1-a439-00145eb45e9a">https://gbif.org/dataset/7c7f09f4-f762-11e1-a439-00145eb45e9a</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: (Appendix 3) Stable oxygen isotope record of Globigerina bulloides and abundance of Neogloboquadrina pachyderma in sediment core MD99-2341.
Natural history specimen data linked to collectors and determiners held within, "(Appendix 3) Stable oxygen isotope record of Globigerina bulloides and abundance of Neogloboquadrina pachyderma in sediment core MD99-2341". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/7c7dd412-f762-11e1-a439-00145eb45e9a">https://bionomia.net/dataset/7c7dd412-f762-11e1-a439-00145eb45e9a</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/7c7dd412-f762-11e1-a439-00145eb45e9a">https://gbif.org/dataset/7c7dd412-f762-11e1-a439-00145eb45e9a</a>. Formatted as a Frictionless Data package.
A simplified palaeoceanography archiving system (PARIS) and GUI for storage and visualisation of marine sediment core proxy data vs age and depth.
<p>Scientific discovery can be aided when data is shared following the principles of findability, accessibility, interoperability, reusability (FAIR) data (Wilkinson et al., 2016). Recent discussions in the palaeoclimate literature have focussed on defining the ideal database format for storing data and associated metadata. Here, we highlight an often overlooked primary process in widespread adoption of FAIR data, namely the systematic creation of machine readable data at source (i.e. at the field and laboratory level). We detail a file naming and structuring method that was used at LSCE to store data in text file format in a way that is machine-readable, and also human-friendly to persons of all levels of computer proficiency, thus encouraging the adoption of a machine-readable ethos at the very start of a project. Thanks to the relative simplicity of downcore palaeoclimate data, we demonstrate the power of this simple but powerful file format to function as a basic database in itself: we provide a Matlab-based GUI tool that allows users to search and visualise data by sediment core location, proxy type and species type. The adoption of similarily accessible, machine-readable file formats at other laboratories will promote data sharing within projects, while also allowing for the automation of submission of data to online database repositories with particular formatting and/or metadata requirements, thus reducing post-hoc workload.</p>
Radiometric dating of sediment cores from three alpine lakes in Utah, United States, with stable isotope data
<p>We collected sediment cores from three alpine lakes in Utah, United States, to isolate dormant <em>Daphnia </em>eggs for a resurrection ecology experiment. Our question was whether radioactive fallout from above-ground nuclear weapons testing at the Nevada Test Site in the 1950s and 1960s caused increased mutation rates and population evolution in <em>Daphnia</em>. That work is ongoing. Here, we publish radioisotope dating profiles from our sediment cores.</p>
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.