cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.65dp86
title: Occurrence Download

description: A dataset containing 4884 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Silene nutans L.",
 "MediaType is Image",
 "BasisOfRecord is Human Observation"
 ]
}

 The dataset includes 4884 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0409352-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.d669xe
title: Occurrence Download

description: A dataset containing 28734 species occurrences available in GBIF matching the query:
{
 "StateProvince" : [
 "is Gansu"
 ]
}

 The dataset includes 28734 records from 264 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0154701-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2qbqsa
title: Occurrence Download

description: A dataset containing 69241 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Castor canadensis Kuhl, 1820)",
 "HasCoordinate is one of (true)",
 "OccurrenceStatus is one of (Present)"
 ]
}

 The dataset includes 69241 records from 109 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0076320-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.a87o6m
title: Occurrence Download

description: A dataset containing 2803 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Leptodactylus fragilis (Brocchi, 1877)"
 ]
}

 The dataset includes 2803 records from 85 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013484-190813142620410/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f23g6j
title: Occurrence Download

description: A dataset containing 265 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "OccurrenceStatus is Present",
 "TaxonKey is Selaginella tamariscina (P.Beauv.) Spring"
 ]
}

 The dataset includes 265 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0276733-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.eepj5k
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lathyrus inconspicuus",
 "Country is Qatar",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011388-250920141307145/datasets/export for details.
DOI: 10.15468/7pdci4
title: uncultured marine picoeukaryote strain:Peuk_V4_NWP2 Raw sequence reads

description: We aim to determine spatial and temporal distribution and diversity of marine picoeukaryotes in marginal seas of the northwestern Pacific Ocean.
DOI: 10.15468/dl.tp5dj5
title: Occurrence Download

description: A dataset containing 409988 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Alectoris rufa)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence, Human Observation, Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 409988 records from 1492 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011337-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/kesq8b
title: Magadalen Islands Spatio Temporal (MIST) Large Fraction

description: Farm and control large fraction protists samples pyrosequencing 454 raw sequence reads
DOI: 10.5281/zenodo.17190730
title: MRI Dataset

description: A brain is a brain....
DOI: 10.5281/zenodo.17190729
title: MRI Dataset

description: A brain is a brain....
DOI: 10.15468/x27frk
title: Mediterranean mud volcano flow Targeted loci

description: Mud volcanoes (MVs) expel mobilized muds, gases, and fluids from the subsurface at convergent margins. These muds and fluids originate from numerous sources and depths that range from methanogenic sediment layers, destabilizing gas hydrate deposits, clay dehydration reactions, and thermogenic hydrocarbon sourcesand thus represent a convenient window into the deep biosphere. The proposed sequencing opportunity will address bacterial and archaeal community diversity in recent mud flows of the Venere Mud Volcano and underlying mud volcano sediments to assess how mud flow deposition and subsurface fluids influence microbial community composition and dynamics. We sequenced 16S V4V5 amplicons from bacterial and archaeal communities at varying mud flow depths with contrasting deep fluid chemistries.
DOI: 10.15468/dl.prhqm7
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lathyrus inconspicuus",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011390-250920141307145/datasets/export for details.
DOI: 10.15468/n1n0wt
title: Marine sediment Raw sequence reads

description: The microbial community influenced by bioturbation of macrofauna
DOI: 10.15468/uhcixl
title: Bacteria (16S) and Eukaryotes (18S) from the Sor Rondane Mountains (East Antarctica)

description: A bacterial and microeukaryotic biodiversity study, using pyrosequencing analysis on a 454 GS FLX+ platform
of partial SSU rRNA genes in terrestrial and aquatic habitats of the Sør Rondane Mountains, including soils, on mosses, endolithic communities, cryoconite holes and supraglacial and subglacial meltwater lenses.
DOI: 10.15468/fiw0w3
title: marine metagenome Targeted Locus (Loci)

description: The goal of this project is to examine and integrate taxonomic, genetic, and functional diversity in marine lakes in Palau and Indonesia. Samples have been collected at multiple depths in multiple lakes since 2010. DNA was extracted from filtered water samples, and archaeal/bacterial 16S rRNA genes were amplified and then sequenced (using 454 in 2010 and Illumina thereafter).
DOI: 10.15468/dl.zpqp29
title: Occurrence Download

description: A dataset containing 3373 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is one of (Allium moly)"
 ]
}

 The dataset includes 3373 records from 120 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011392-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17044/scilifelab.30138382
title: Adrenal proteomics

description: <b>Proteomic data comparing men1 mice +/- adrenals with men1+/+ adrenals.</b>The MEN1 mouse is a conventional heterozygous knockout mouse (<i>Men1</i><sup><em> </em></sup><sup>+/-</sup>), which was a kind gift from Professor Hayward of the Queensland Institute of Medical Research, Herston, Australia. Deletion of the second exon of the <i>Men1</i> gene produces heterozygous non-sense mutation.Adrenals of ten MEN1 mice with ages from 10 to 13 months were used, and adrenals of ten wild type mice (<i>Men1</i><sup><em>+/+</em></sup>) of the same age range served as controls. From each animal, one gland was subjected to protein profiling and the contralateral gland was either formalin-fixed/paraffin-embedded for immunohistochemical analysis or lysate for western blot analysis.<br>Dissected adrenal glands (n=10/genotype) were minced and homogenized, protein was extracted, denatured, reduced and digested as previously described (14). Briefly, the samples were homogenized in the presence of octyl-ß-D-glucopyranoside, Tris-HCl, NaCl and EDTA in PBS solution. Protease cocktail inhibitor (Sigma-Aldrich, Steinheim, Germany) was added during lysis. After incubation and centrifugation of the lysate, the clear supernatant was collected for mass spectrometry and western blotting. The total protein content was determined using DC Protein Assay Kit (BioRad Laboratories, Hercules, Ca, USA) with bovine serum as standard.For mass spectrometry analysis, 35 µg of protein was dissolved in 8M urea and acetonitrile (ACN) (1:1) containing NH<sub>4</sub>HCO<sub>3</sub> (50 mM). A volume of 10 µL of 45 mM DTT was added to the samples for incubation at 50°C for 15 mins. After cooling, 10 µL of 100 mM IAA was added to the samples for incubation at room temp in a dark room. The samples were then transferred to 3kDa spin filters (Pall Life Sciences, Ann Arbor, MI, USA) for three steps of purification. A volume of 100 µL of 50 mM NH<sub>4</sub>HCO<sub>3</sub> was added to the filter, followed by centrifugation at 14000 xg for 10 mins. Progressively, 250 µL of 1:1 2% ACN/50 mM NH<sub>4</sub>HCO<sub>3</sub> and 150 µL of 50 mM NH<sub>4</sub>HCO<sub>3</sub> were added separately, then filter centrifugation as above followed. Spin filters were transferred to new vials and 50 µL of 5% trypsin was applied for digestion at 37°C overnight in dark room. Samples were centrifuged and tryptic peptides collected. Residual peptides on the filters were collected by applying 100 µL of 50% ACN and 1% HAc, and the eluate was pooled with the first filtrate. Eluted peptides were dried using Speedvac system ISS110 (Thermo Scientific, Waltham, USA), and peptides re-dissolved in 30µL 0,1% formic acid (FA) before mass spectrometry analysis.
DOI: 10.17044/scilifelab.30138382.v1
title: Adrenal proteomics

description: <b>Proteomic data comparing men1 mice +/- adrenals with men1+/+ adrenals.</b>The MEN1 mouse is a conventional heterozygous knockout mouse (<i>Men1</i><sup><em> </em></sup><sup>+/-</sup>), which was a kind gift from Professor Hayward of the Queensland Institute of Medical Research, Herston, Australia. Deletion of the second exon of the <i>Men1</i> gene produces heterozygous non-sense mutation.Adrenals of ten MEN1 mice with ages from 10 to 13 months were used, and adrenals of ten wild type mice (<i>Men1</i><sup><em>+/+</em></sup>) of the same age range served as controls. From each animal, one gland was subjected to protein profiling and the contralateral gland was either formalin-fixed/paraffin-embedded for immunohistochemical analysis or lysate for western blot analysis.<br>Dissected adrenal glands (n=10/genotype) were minced and homogenized, protein was extracted, denatured, reduced and digested as previously described (14). Briefly, the samples were homogenized in the presence of octyl-ß-D-glucopyranoside, Tris-HCl, NaCl and EDTA in PBS solution. Protease cocktail inhibitor (Sigma-Aldrich, Steinheim, Germany) was added during lysis. After incubation and centrifugation of the lysate, the clear supernatant was collected for mass spectrometry and western blotting. The total protein content was determined using DC Protein Assay Kit (BioRad Laboratories, Hercules, Ca, USA) with bovine serum as standard.For mass spectrometry analysis, 35 µg of protein was dissolved in 8M urea and acetonitrile (ACN) (1:1) containing NH<sub>4</sub>HCO<sub>3</sub> (50 mM). A volume of 10 µL of 45 mM DTT was added to the samples for incubation at 50°C for 15 mins. After cooling, 10 µL of 100 mM IAA was added to the samples for incubation at room temp in a dark room. The samples were then transferred to 3kDa spin filters (Pall Life Sciences, Ann Arbor, MI, USA) for three steps of purification. A volume of 100 µL of 50 mM NH<sub>4</sub>HCO<sub>3</sub> was added to the filter, followed by centrifugation at 14000 xg for 10 mins. Progressively, 250 µL of 1:1 2% ACN/50 mM NH<sub>4</sub>HCO<sub>3</sub> and 150 µL of 50 mM NH<sub>4</sub>HCO<sub>3</sub> were added separately, then filter centrifugation as above followed. Spin filters were transferred to new vials and 50 µL of 5% trypsin was applied for digestion at 37°C overnight in dark room. Samples were centrifuged and tryptic peptides collected. Residual peptides on the filters were collected by applying 100 µL of 50% ACN and 1% HAc, and the eluate was pooled with the first filtrate. Eluted peptides were dried using Speedvac system ISS110 (Thermo Scientific, Waltham, USA), and peptides re-dissolved in 30µL 0,1% formic acid (FA) before mass spectrometry analysis.
DOI: 10.15468/yw9wpv
title: Ecological Genomics of a Seasonally Anoxic Fjord; Saanich Inlet

description: Saanich Inlet is a seasonally anoxic fjord opening to the Strait of Georgia on the southeast coast of Vancouver Island, British Columbia. It is approximately 24 kilometers long with a maximal basin depth of 234 meters and receives limited freshwater input from the surrounding watershed. A shallow glacial entrance sill 75 meters deep restricts circulation within interior and basin waters for most of the year. During spring and summer months, restricted circulation combined with high levels of primary productivity in surface waters lead to oxygen loss with concomitant water column stratification indicated by accumulation of methane (CH4), Ammonia (NH3) and Hydrogen Sulfide (H2S). In late summer and fall, oxygenated nutrient-rich ocean waters upwelling through the Strait cascade into Saanich Inlet shoaling anoxic bottom waters upward and transforming the redox chemistry of the water column. This process is stable on decadal time scales exhibiting a relatively narrow deviation in the depth distribution of the oxycline at different times of year. The recurring seasonal development of water column anoxia followed by deep-water renewal enables spatiotemporal profiling of microbial community structure and function across a wide range of water column redox states.
DOI: 10.15468/gwcimv
title: Abyssal Baseline Study & Geophysical Survey (ABYSSLINE 02)_AB01_Re-sequenced Targeted loci environmental

description: Abyssal sediments, polymetallic nodules, and water-column samples were collected from the UKSRL1, OMS claim area as well as APEI within the Clarion-Clipperton fracture zone in the Pacific Ocean. The ABYSSLINE 2015 Cruise took place aboard the research vessel Thomas G. Thompson (R/V Thompson) between February 12, 2015 and March 25, 2015, as an expedition jointly funded and supported by Seabed Resources Limited and Ocean Mineral Singapore. The chief objective of the AB02 was to conduct an evaluation of biological and environmental baseline conditions in the UK-1 contract area, and the OMS contract area at depths ranging from 3900 to 4400 meters (m) in the Clarion-Clipperton Zone (CCZ; also known as the Clarion Clipperton Fracture Zone). Specifically, the study targeted two 30 by 30 kilometer (km) areas; one in the UK-1 contract area and one in the OMS contract area, centered approximately at 13 degrees 49 minutes North, 116 degrees 36 minutes West (13 49 N, 116 36 W) and 13 degrees 49 minutes North, 116 degrees 36 minutes West (13 49 N, 116 36 W), respectively.
DOI: 10.15468/jhh5bp
title: Diesel contamination of Antarctic soils and sediments

description: Hydrocarbon contamination is a threat resulting from human activity in Antarctica because of the low degradation rate due to the cold climate conditions and the seasonal freezing and thawing of soil in summer ice-free areas like the Antarctic Peninsula. Hydrocarbons can accidentally reach soil and sediments and distribute underground, likely affecting the biota and causing changes in bacterial communities. Monitoring and study of the distribution of hydrocarbons and the consequent response of the microbiota helps in the design of bioremediation strategies and elaboration of contingency plans, both required by the Antarcic Treaty.
DOI: 10.15468/evbomc
title: Microbial eukaryote 454 Roche sequencing in estuarine ecosystems

description: Using 454 Roche sequencing of the 18S nSSU taxonomy marker, we investigate which of the focal natural drivers are most strongly associated with microbial metazoan and sampled protist diversity across the full salinity gradient of estuarine ecosystems. The data cover two geographically proximate estuaries (Thames and Mersey, UK) with contrasting histories of anthropogenic stress.
DOI: 10.15468/dl.epv484
title: Occurrence Download

description: A dataset containing 154 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Africa",
 "Country is Cameroon",
 "TaxonKey is Erythrina sigmoidea"
 ]
}

 The dataset includes 154 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011393-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/4a5b4m
title: Title: eDNA metabarcoding enriches traditional trawl survey data for monitoring biodiversity in the marine environment - Dataset 1 (16S rRNA genetic marker)

description: Marine Protected Areas require comprehensive monitoring to ensure objectives are achieved; however, monitoring natural ecosystems at scale is challenged by the biodiversity it aims to measure. Environmental DNA (eDNA) metabarcoding holds promise to address this monitoring
challenge. We conducted paired sampling at 54 sites for fish and invertebrate assemblages in the Northwest Atlantic using groundfish trawls and eDNA metabarcoding of benthic seawater using four genetic markers (12S rRNA, 16S rRNA, 18S rRNA, and CO1). This dataset is from the 16S rRNA genetic marker only; results from the 12S marker are also available within GBIF.

Compared to trawling, eDNA detected similar patterns of species turnover, larger estimates of gamma diversity, and smaller estimates of alpha diversity. A total of 63.6% (42/66) of fish species captured by trawling were detected by eDNA, along with an additional 26 species. Of the 24 missed detections by eDNA, 12 were inevitable as they lacked reference sequences. We demonstrate that eDNA is capable of detecting patterns of community assemblage and species turnover in an offshore environment, emphasizing its strong potential for a non-invasive, comprehensive, and scalable tool for biodiversity monitoring supporting marine conservation programmes.

This work was published by He et al. (2023) in the ICES Journal of Marine Science (DOI: 10.1093/icesjms/fsad083).[This dataset was processed using the GBIF Metabarcoding Data Toolkit.]
DOI: 10.15468/30uzpl
title: PAH-contaminated sediment from the Lagos Lagoon, Nigeria

description: sediment metagenome
DOI: 10.15468/dl.tw6pur
title: Occurrence Download

description: A dataset containing 2410047 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Alcedo atthis)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence, Human Observation, Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 2410047 records from 2849 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011329-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8uffey
title: Occurrence Download

description: A dataset containing 4418 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Acanthurus coeruleus Bloch & Schneider, 1801",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen, Material sample)"
 ]
 }
 },
 "CoordinateUncertaintyInMeters is less than 10000"
 ]
}

 The dataset includes 4418 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004219-250415084134356/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10724933
title: Dataset and supplement for "Time-dependent nuclear energy-density functional theory toolkit for neutron star crust: dynamics of a nucleus in a neutron superfluid"

description: This dataset provides data that has been used to create plots in'Time-dependent nuclear energy-density functional theory toolkit for  neutron star crust: dynamics of a nucleus in a neutron superfluid'.

It provides also headers for WBSk toolkit to recreate all data.

https://wbsk.fizyka.pw.edu.pl/

 

The table below provides the list of accompanying movies, with information about applied external force F and given density of the inner crust. We have selected only these cases where quantum vortices are nucleated.




Density [1/fm^3]
Force F [MeV]
file name
YouTube link


0.0023
0.5
n0.002F0.5r1.mp4
https://youtu.be/PaOM3R9bJww


0.0023
1.0
n0.002F1.0r1.mp4
https://youtu.be/ocR_l77S_Cc


0.0058
0.5
n0.006F0.5r1.mp4
https://youtu.be/TVKxAqJ-r50


0.0058
1.0
n0.006F1.0r1.mp4
https://youtu.be/wsGtvhutXGs


0.0058
2.0
n0.006F2.0r1.mp4
https://youtu.be/GS0yziDBZ68


0.0104
1.0
n0.010F1.0r1.mp4
https://youtu.be/8yw_k4nyn9k


0.0104
2.0
n0.010F2.0r1.mp4
https://youtu.be/nlANRhzhVp8


0.0148
2.0
n0.015F2.0r1.mp4
https://youtu.be/pu3LfHhtqvU
description: This work was financially supported by the (Polish) National Science Center Grants No. 2021/40/C/ST2/00072 (DP), 2021/43/B/ST2/01191 (PM), 2022/45/B/ST2/00358 (GW, AZ). This work was also supported by the Fonds de la Recherche Scientifique (Belgium) under Grant No. PDR T.004320 (NC). 

We acknowledge PRACE for awarding us access to resource Piz Daint based in Switzerland at Swiss National Supercomputing Centre (CSCS), decision No. 2021240031.We acknowledge Polish high-performance computing infrastructure PLGrid for awarding this project access to the LUMI supercomputer, owned by the EuroHPC Joint Undertaking, hosted by CSC (Finland) and the LUMI consortium through PLL/2022/03/016433.