cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.qb5p3r
title: Occurrence Download

description: A dataset containing 16339 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-113.26904 25.62012,-112.33915 17.37407,-100.4932 12.24082,-91.01643 9.0819,-87.46264 3.94865,-94.57022 -1.97433,-89.0421 -9.0819,-79.17047 -16.18947,-72.0629 -24.48164,-74.43209 -34.74814,-77.98588 -50.14788,-68.90398 -61.20411,-61.01857 -46.70558,-42.03502 -32.54324,-31.10855 -6.59484,-42.16046 1.79406,-49.69552 9.68793,-55.65071 23.37038,-79.29932 29.17969,-82.50732 28.95996,-97.36084 26.2793,-99.29443 24.21387,-99.55811 23.02734,-99.11865 21.09375,-98.59131 20.47852,-98.63525 21.09375,-97.93213 20.34668,-97.00928 18.85254,-95.91064 18.2373,-95.20752 17.8418,-95.3833 17.18262,-95.95459 16.91895,-97.229 17.22656,-100.08545 17.97363,-103.68896 20.87402,-104.43604 22.28027,-108.21533 26.2793,-113.26904 26.14746,-113.2251 25.66406,-113.26904 25.62012))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Aedes aegypti (Linnaeus, 1762)"
 ]
}

 The dataset includes 16339 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0251752-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bxmtbs
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Diplazium rodriguezii A.Rojas"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0157263-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v5y1dm
title: Occurrence Download

description: A dataset containing 932 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Month is May",
 "Year 1800-1950",
 "DatasetKey is EOD – eBird Observation Dataset",
 "HasCoordinate is true",
 "TaxonKey is Cardinalis cardinalis (Linnaeus, 1758)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 932 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009866-171219132708484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ceazdu
title: Occurrence Download

description: A dataset containing 281930 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Freshwater fish of the Netherlands, 1800-2019"
 ]
}

 The dataset includes 281930 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0273174-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fheclm
title: Occurrence Download

description: A dataset containing 101 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Heterodon nasicus Baird & Girard, 1852"
 ]
}

 The dataset includes 101 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008286-190918142434337/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kh3sag
title: Occurrence Download

description: A dataset containing 185 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Acrodictys M.B.Ellis"
 ]
}

 The dataset includes 185 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068150-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.frc4ar
title: Occurrence Download

description: A dataset containing 191432 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "GadmGid is BRA.21_1"
 ]
}

 The dataset includes 191432 records from 490 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068157-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/nzwc83h278.1
title: The PCR primer pairs and sequence data of the psbK-psbI, trnE-trnT, ycf1, and matK regions from Strobilanthes bantonensis Lindau

description: This dataset includes the PCR primer pairs and psbK-psbI, trnE-trnT, ycf1, matK regions from Strobilanthes bantonensis Lindau collected in Cao Bang province, Vietnam. The trnE-trnT, psbK-psbI, ycf1 sequences (hypervariable regions with nucleotide diversity (Pi) values greater than 0.02), and the matK barcode were downloaded from the chloroplast genome of Strobilanthes bantonensis (GenBank: MT576695.1) as the basis for designing PCR primer pairs to amplify the trnE-trnT, psbK-psbI, ycf1, and matK regions. The designed PCR primer pairs have the characteristics shown in Table 1. The trnE-trnT space region sequence is 692 bp in length; the psbK-psbI space region sequence is 385 bp in length; the ycf1 gene region is 786 bp in length; the matK gene region is 962 bp in length.
DOI: 10.5281/zenodo.15187399
title: Faux et al. Supplemental Movies S1-S4 and Supplemental Table S1
DOI: 10.5281/zenodo.15187400
title: Faux et al. Supplemental Movies S1-S4 and Supplemental Table S1
DOI: 10.15468/szjpfn
title: Llamara 1 evaporites metagenome

description: Domal evaporitic structures on Salar de Llamara are analyzed to study microbial diversity in the community inhabiting the evaporite.
DOI: 10.15468/g47m73
title: Bacteria exposure experiment North Sea

description: Bacterial sequencing (V3-V4 16S rDNA region) of plastic debris exposed for 5 or 10 months at the North Sea environment
DOI: 10.15468/dl.5xu88k
title: Occurrence Download

description: A dataset containing 36 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-31.74465 40.47888,28.45988 40.47888,28.45988 64.52051,-31.74465 64.52051,-31.74465 40.47888))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Halichoerus grypus macrorhynchus"
 ]
}

 The dataset includes 36 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011700-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xanraa
title: Occurrence Download

description: A dataset containing 761 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Spain",
 "TaxonKey is Clathrus archeri"
 ]
}

 The dataset includes 761 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011698-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x99abg
title: Occurrence Download

description: A dataset containing 199 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Luehdorfia chinensis)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 2000",
 "Year is less than or equal to 2025",
 "Country is China"
 ]
}

 The dataset includes 199 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011697-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/n9seu9
title: Eukaryotic microbial community at the LTER site Helgoland Roads

description: Water samples were collected from the long-term ecological research (LTER) site at Helgoland and the eukaryotic microbial community was assessed. 18S V4 region was amplified using the primer set 528iF /964iR and amplicon sequencing was performed on an Illumina MiSeqTM sequencer in a 2 × 300 bp paired-end run.
DOI: 10.15468/dvxd2d
title: Municipal Pensacola Beach Sand Metagenome

description: This study investigated the successional patterns of functional and taxonomic diversity for over one year after the Deepwater Horizon oil was deposited on Pensacola Beach sands (FL, USA), using metagenomic and 16S rRNA gene amplicon techniques.
DOI: 10.15468/dl.9fq2jt
title: Occurrence Download

description: A dataset containing 93 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-99.24672 18.07188,-85.16787 18.07188,-85.16787 23.69688,-99.24672 23.69688,-99.24672 18.07188))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Balistes capriscus",
 "Year 2000-2025"
 ]
}

 The dataset includes 93 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011699-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7c9pum
title: Occurrence Download

description: A dataset containing 44 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 (Aloe dichotoma)"
 ]
}

 The dataset includes 44 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011702-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/d87a1l
title: Oxic sediment - Extracellular Metagenome

description: SSU 16S pyrosequencing project of the microbial metagenome of an oxic deep-sea sediment from the Eastern Mediterranean.
DOI: 10.15468/dl.nx7s5w
title: Occurrence Download

description: A dataset containing 6 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is France",
 "Geometry POLYGON((-31.74465 40.47888,28.45988 40.47888,28.45988 64.52051,-31.74465 64.52051,-31.74465 40.47888))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Halichoerus grypus macrorhynchus"
 ]
}

 The dataset includes 6 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011701-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/6j2zrq
title: Microbial community 16S rRNA from Fram Strait water samples PS85 2014

description: Several depths of the full water column of two stations (HGIV and N4) were sequenced in order to correlate the communities of the Fram Strait water column at HAUSGARTEN with benthic communities. DNA from CTD samples was extracted and the v3v4 region of the 16S rRNA was sequenced with Illumina MiSeq.
DOI: 10.15468/prgx3b
title: Arctic benthos Targeted Locus (Loci)

description: Biogeography of Arctic benthic bacteria. This study examines the influence of global change on the structural and functional diversity of microbial communities in Arctic sediments. Biogeography of Arctic benthic bacteria sampled at the deep-sea, long-term observatory HAUSGARTEN in the Arctic Ocean.
DOI: 10.15468/lxdhan
title: Prokaryotic community response to microalgal lysates

description: Changes in the community structure of heterotrophic prokaryotes in the open tropical Pacific in response to dissolved organic matter derived from microalgal lysates
DOI: 10.15468/cyywud
title: Structuring effect of environmental variables on protistan diversity patterns in two anoxic marine basins

description: The tenet that 'everything is everywhere, but the environment selects' has influenced microbiology for several decades, and is still debated controversially. However, the proof or disproof of the hypothesis still remains difficult. Scant data from prokaryotic studies suggest that at least over large distances historical separation may overwhelm environmental effects, challenging the above mentioned hypothesis. Though, at smaller spatial scales, environmental effects seem to dominate diversity patterns, while distance effects are of secondary importance. We tried to contribute to the ongoing discussion by investigating patterns of protistan diversity from two geographically separated marine anoxic basins (Cariaco Basin, Venezuela, Framvaren Fjord, Norway). To take distance and environmental effects into account, each basin was sampled at two different locations along an environmental gradient. Biodiversity patterns were analyzed by applying the 454 sequencing technique. Resulting data sets were used to examine overall diversity of samples under study and to compare recorded community patterns based on taxonomic composition and similarity indices. By combining our results with contextual data from both sampling sites we tested for distance effects in relation to contemporary environmental effects.
DOI: 10.15468/y8ywzp
title: Sulfate-dependant microbially induced corrosion of mild steel in the deep sea: a 10-year microbiome study.

description: Metal corrosion in seawater has been extensively studied in surface and shallow waters. However, infrastructure is increasingly being installed in deep-sea environments, where extremes of temperature, salinity, and high hydrostatic pressure increase the costs and logistical challenges associated with monitoring corrosion. Moreover, there is currently only a rudimentary understanding of the role of microbially induced corrosion, which has rarely been studied in the deep-sea. We report here an integrative study of the biofilms growing on the surface of corroding mooring chain links that had been deployed for 10 years at ~2 km depth and developed a model of microbially induced corrosion based on flux-balance analysis.
DOI: 10.25326/pcvm-hq23
title: Atmospheric simulation chamber study: Guaiacol + OH - Gas-phase oxidation - product study - 2023-05-15
DOI: 10.15468/dl.px34nk
title: Occurrence Download

description: A dataset containing 459 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "OccurrenceStatus is Present",
 "TaxonKey is Parahyaena brunnea",
 "Year 1995-2025"
 ]
}

 The dataset includes 459 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011706-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4adkd9
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Lynx lynx isabellinus"
 ]
}

 The dataset includes 12 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011704-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mutuh4
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Trifolium pannonicum",
 "Country is Belgium",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011707-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/skzlp3
title: Distribution and composition of thiotrophic mats in the hypoxic zone of the Black Sea (150-170m water depth, Crimea margin)

description: Distribution and composition of thiotrophic mats were analyzed using high-resolution biogeochemical and community fingerprinting at the outer shelf of the Northwestern Black Sea. Dives with the submersible JAGO showed accumulations of organic matter forming dark patches on the seafloor, which were covered by mat-forming whitish microbial filaments. Where the Black Sea chemocline met the seabed (between 150 - 170 m), these mats covered between 25 to 55 % of the seafloor, and appeared to form a belt of 3 km width. The mats were composed of Beggiatoa-like large filamentous sulfur bacteria based on 16S rRNA sequences from the mat. The microbial community under the mats was enriched with taxa affiliated with polymer degrading, fermenting and sulfate reducing microorganisms. Under the mats, higher organic matter accumulation, as well as higher remineralization and sulfate reduction rates were measured compared to outside the mat. Mat-covered and mat-free sediments showed similar degradability of the bulk organic matter pool, suggesting that the higher sulfide fluxes and subsequent development of the thiotrophic mats in the patches are consequences of the accumulation of organic matter rather than its qualitative composition. Our observations suggest that the key factors for the distribution of thiotrophic mat-forming communities near to the Crimean shelf break are (1) hypoxic conditions repressing grazers and favoring thiotrophic bacteria and (2) the specific seafloor topography that enhances the accumulation of labile organic matter.
DOI: 10.15468/aqhh2k
title: CARBOM cruise 2013 flow cytometry sorted phytoplankton
DOI: 10.5281/zenodo.17191563
title: Breast cancer raw datasets to preprocess
DOI: 10.5281/zenodo.17191564
title: Breast cancer raw datasets to preprocess
DOI: 10.15468/dl.qa4uhh
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Trifolium pannonicum",
 "Country is Czechia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011709-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17617/3.z9gmje
title: Quantification of verapamil metabolites in patient-specific hepatocyte organoids, periportal liver assembloids and primary hepatocytes by mass spectrometry

description: The objective of the experiment was to compare the efficiency of drug metabolism in patient-specific hepatocyte organoids (h-HepOrg), periportal liver assembloids (Assmbl) and primary hepatocytes cultured in standard 2D-hepatocyte monolayer culture (Hep2D). The samples were incubated with the pharmaceutical compound verapamil. Following this, verapamil metabolites were measured in the medium and cell extracts by high-resolution mass spectrometry . The quantification of metabolite norverapamil was achieved by utilizing isotopically labelled internal standard 13C3 spiked into samples as described in Yuan etal.
The data comprises files in .raw format (ThermoFischerScientific). Files description: 1. type of biological material, donor code and analyzed fraction (supernatant or cell extract) are included in the metadata of each file; 2. each sample was provided in three biological repeats; 3. each biological repeat was measured in four technical replicates.
description: Xcalibur (ThermoFischedScientific), 3.0
DOI: 10.15468/dl.j3x53k
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Trifolium pannonicum",
 "Country is Canada",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011708-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4xanjz
title: Occurrence Download

description: A dataset containing 1587775 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-6.54368 36.86581,-6.53157 36.05803,-5.45456 35.94055,-5.04312 36.1558,-4.70428 36.60397,-4.61957 36.97224,-5.11572 37.47331,-5.95071 37.78001,-6.54368 36.86581))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Tracheophyta"
 ]
}

 The dataset includes 1587775 records from 168 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011655-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/m7dx33
title: Microbial biogeography of 925 geothermal springs in New Zealand

description: Geothermal springs are model ecosystems to investigate microbial biogeography as they represent discrete, relatively homogenous habitats, are distributed across multiple geographical scales, span broad geochemical gradients, and have reduced metazoan interactions. Here, we report the largest known consolidated study of geothermal ecosystems to determine factors that influence biogeographical patterns. We measured bacterial and archaeal community composition, 46 physicochemical parameters, and metadata from 925 geothermal springs across New Zealand (13.9100.6 C and pH &lt;19.7). We determined that diversity is primarily influenced by pH at temperatures &lt;70 C; with temperature only having a significant effect for values &gt;70 C. Further, community dissimilarity increases with geographic distance, with niche selection driving assembly at a localised scale. Surprisingly, two genera (Venenivibrio and Acidithiobacillus) dominated in both average relative abundance (11.2% and 11.1%, respectively) and prevalence (74.2% and 62.9%, respectively). These findings provide an unprecedented insight into ecological behaviour in geothermal springs, and a foundation to improve the characterisation of microbial biogeographical processes.
DOI: 10.15468/yr5rmw
title: Microflora Danica: Bacterial 16S rRNA genes from operons

description: This project contains the near full-length 16S rRNA gene data belonging to the Microflora Danica project. The Microflora Danica project encompasses over 10,000 samples from across Denmark, taken between 2019 and 2023 with the goal to cover as much of the microbial diversity in the investigated habitats as possible. 
For the bacterial 16S UMI rRNA gene data and eukaryotic operon data see https://doi.org/10.15468/33qqsm and https://doi.org/10.15468/ea7jvq, respectively. 

In the project the UMI 16S rRNA gene sequences was used together with near full-length 16S rRNA gene sequences to construct the Microflora Danica 16S rRNA gene reference database (https://zenodo.org/records/12605769) and to investigate the 16S rRNA gene sequence diversity and novelty of species representative sequences. Furthermore, the UMI 16S rRNA gene data was solely used for the estimation of the bacterial richness of the Danish terrestrial habitats and in the analysis of different diversity metrics in the manuscript (https://doi.org/10.1101/2024.06.27.600767). 

DISCLAIMER: The 16S rRNA gene data from the bacterial operons should be used for investigation of occurrence only, and are not fit for analysis of diversity metrics:

Funding was provided by the Poul Due Jensen/Grundfos Foundation.
Associated metadata is also available from github (https://github.com/cmc-aau/mfd_wiki).[This dataset was processed using the GBIF Metabarcoding Data Toolkit.]