cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.zvc5pc
title: Occurrence Download

description: A dataset containing 290 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Observation.org, Nature data from around the World",
 "Geometry POLYGON((-3.75706 42.19471,-0.40126 42.19471,-0.40126 43.81587,-3.75706 43.81587,-3.75706 42.19471))",
 "TaxonKey is Rana temporaria Linnaeus, 1758"
 ]
}

 The dataset includes 290 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015690-240216155721649/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.a5mqpp
title: Occurrence Download

description: A dataset containing 71 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ilex nothofagifolia Kingdon-Ward"
 ]
}

 The dataset includes 71 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029408-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yv4zk8
title: Occurrence Download

description: A dataset containing 279 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Romerolagus diazi (Ferrari-Pérez, 1893)"
 ]
}

 The dataset includes 279 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008586-160118175350007/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rtrsmt
title: Occurrence Download

description: A dataset containing 137173 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Datura stramonium L."
 ]
}

 The dataset includes 137173 records from 1486 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039267-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/h6kx79
title: Annual Dynamics of Microeukaryotic Communities in the West Spitsbergen Current (2018-2019)

description: 18S rRNA amplicon sequences derived from autonomous sampling in the West Spitsbergen Current (mooring F4-S-3).
DOI: 10.15468/1unq0h
title: Incubation of marine methane seep sediments with a bioorthogonal amino acid

description: In marine sediments, anaerobic oxidation of methane (AOM) is primarily catalyzed by syntrophic consortia of anaerobic methane-oxidizing archaea (ANME) and sulfate-reducing bacteria (SRB). We applied bioorthogonal non-canonical amino acid tagging (BONCAT) using a high-throughput approach to detecting protein synthesis in individual cells, on sediments from deep-sea methane seeps. Sediment samples have been incubated in the presence or absence of methane and a bioorthogonal amino acid. V6 regions of bacterial and archaeal 16S rRNA genes were amplified using general primers, tagged, and analyzed for shifts in the microbial community during time of incubation.
DOI: 10.15468/dl.asey7g
title: Occurrence Download

description: A dataset containing 40 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "OccurrenceStatus is Present",
 "TaxonKey is Cinnamomum migao"
 ]
}

 The dataset includes 40 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011147-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rsdbks
title: Occurrence Download

description: A dataset containing 2764 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Balaenoptera edeni brydei"
 ]
}

 The dataset includes 2764 records from 50 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011148-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mvmcg5
title: Occurrence Download

description: A dataset containing 362 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sarracenia purpurea",
 "Country is Sweden",
 "HasCoordinate is true"
 ]
}

 The dataset includes 362 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011145-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xfvbfb
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Balaenoptera edeni edeni"
 ]
}

 The dataset includes 4 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011149-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/fjzwjd
title: 22V-SMAR-TVG10 Targeted Locus (Loci)

description: Bacterial Diversity of Deep-sea Environment
DOI: 10.15468/6uhlfb
title: Marine DNA/RNA samples from Western English Channel site L4

description: Marine DNA/RNA samples from Western English Channel site L4. The seasonal structure of microbial communities in the Western English Channel - 2007 Here we present a multi-omic study of the Bacterial and Archaeal diversity found at the L4 long-term marine observatory. We have previously generated a six year time series from L4 that showed that the bacterial community shows strong seasonal structuring and diversity peaks every year on the winter solstice. Here we further confirm this pattern by extending this study to include genes and transcripts generated for eight additional time points in 2008. This data includes further 16S datasets as well as eight metagenomes (1.2GB) and eight metatranscriptomes (157MB). These time points cover three seasons (Jan, April and August) and include day and night (diel) samples. In addition, the August samples (4) include 4 consecutive samplings within 24 hours at six hour intervals. Using these data we test whether Archaea also show the same observed seasonal patterns and whether these patterns hold true at the gene (functional) level. Analysis of this combined data set allows five main conclusions to be drawn. First, Archaea show evidence of following the same seasonal patterns as Bacteria, but have ~6% the richness. Second, for both Bacteria and Archaea, we confirm that higher 16S diversity reflects higher diversity at the gene-level (including expressed genes) and this diversity also peaks at the winter solstice. Third, interestingly, detectable diversity appears to be higher at night, and this is of special potential relevance as there is more diversity in winter when nights are longer. Fourth, despite the diversity of these communities, night and day samples taken using Lagrangian (drift) sampling were successful in isolating the same community suggesting communities are more structured than is commonly believed. Finally, this data, as expected, contains a large proportion of orphan genes without known homologues. When compared to the housekeeping genes identified through SEED subsystem classification, these unknown genes appear to be driving the differences between samples across seasons. This underscores the importance of determining the functions of more of these sequences in the future. In summary, this study further confirms the strong seasonal patterns characterizing both the bacterial and archaeal communities at this important marine site. The finding that, despite the huge diversity of these communities, there are evident signs of predictable patterns and detectable stability over time provides compelling evidence that renewed efforts should
DOI: 10.15468/kjv7q2
title: Comparision of different commercial library preparations kits for soil metagenomics studies

description: In this study, we want to compare the sequencing results using different technology in library preparation in a high diversity custom soil sample. For that, we have selected four different commercial kits including different inputs.
In addition to this, we want to test the behavior of the libraries onto the sequencer in terms of clustering and data output.
It will generate the most accurate workflow to the scientific community in their metagenomic experiments.
DOI: 10.15468/2cdhz0
title: Turf_Chronosequence_16S_ITS

description: soil 16S and ITS amplicon from different ecosystems
DOI: 10.15468/zkjo9v
title: Arctic microbiome along Svalbard Cross Shelf transects

description: Global worming and climate change has been manifested in the decrease of the Arctic Ocean see ice extent and thickness. The thinner sea-ice regime that the Arctic has been facing changed Arctics primary productivity and biogeochemistry. Understand the dynamics of the microbial communities that feed Arctic phytoplankton and biologically derived carbon export will be worthwhile in order to draw future trends. In this study we present a comprehensive analysis of the biogeographic patters of Arctic microbiome diversity and distribution along two oceanographic transects in the Marginal Ice Zone around Svalbard, within strong environmental gradients (Ripfjorden, Kongsfjorden). A total of 11 stations were sample at three depths (surface, chlorophyll maximum and bottom) during the Norwegian Polar Institute MOSJ-ICE 2016 plankton-monitoring program. Samples were concentrated on board through Sterivex 0.2 mm filtration and preserved at -80oC for later DNA extraction. Amplification of 16S rRNA and 18S rRNA genes were performed and sequenced in Illumina MiSeq with a sequence depth of about 100 thousand readpairs. The prokaryotic and eukaryotic MOSJ-ICE16 data sets collection comprises highly complex and diverse microbial communities with a marked biogeographic pattern of distribution. Strong links were identified between bacterioplanckton and phytoplankton/picophytoplankton distribution driven by environmental and biogeochemical forces, most relevant to unravel the role of microbial pathways in supporting Arctic Ocean Primary productivity and system integrity.
DOI: 10.15468/dl.6sstgy
title: Occurrence Download

description: A dataset containing 346 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sarracenia purpurea",
 "Country is Switzerland",
 "HasCoordinate is true"
 ]
}

 The dataset includes 346 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011150-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/0kqnj5
title: VAG Mine Pit Pond Metagenome

description: The Vermont Asbestos Group (VAG) mine provides an experimental model to investigate resident microbial communities exposed simultaneously to multiple environmental stressors. The VAG Pit Pond and its Outlet present an alkaline aquatic environment, contaminated with asbestos-laden mine tailings and a variety of heavy metals.As no information is available on the microbial community structure of this aquatic ecosystem, our first goal was to characterize the taxonomic profile of its resident microorganisms. Investigations of human-induced perturbation have provided little understanding of microbial community dynamics. The overarching goal of this project is to expand our knowledge of these microbial community interactions using a combination of sequence-based and function-based methodologies. The work lays the foundation for study of microbial dynamics in ecological and geochemical processes of human-impacted environments.
DOI: 10.15468/hnwalj
title: marine sediment metagenome Raw sequence reads

description: XSD marine sediment metagenome Raw sequence reads
DOI: 10.15468/vm2rle
title: Seawater metagenome Targeted loci environmental

description: Red conger eel (Genypterus chilensis, Guichenot) is a native Chilean species whose meat is characterized by high gastronomic demand and is now part of the Chilean aquaculture diversification program. Two disease outbreaks derived from its intensified aquaculture farming have been reported and were associated with Vibrio spp. and Tenacibaculum spp. However, the role of individual species is not clear because there is a lack of information about the bacterial community composition associated with the rearing environment of healthy specimens of this fish species. This study examined the microbial community in the seawater of a G. chilensis aquaculture facility using both culture-based methods and 16S rRNA amplicon sequencing of the V4V5 region using Illumina MiSeq.
DOI: 10.15468/dl.5gedus
title: Occurrence Download

description: A dataset containing 259 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 (Agave vilmoriniana)"
 ]
}

 The dataset includes 259 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011151-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5sywrk
title: Occurrence Download

description: A dataset containing 22929 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tecoma stans",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 22929 records from 487 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011152-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8yv578
title: Occurrence Download

description: A dataset containing 353 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-1.61637 43.42271,-1.61178 43.42271,-1.61178 43.42683,-1.61637 43.42683,-1.61637 43.42271))",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 353 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011153-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/zcxqqk
title: River sediments Metagenome

description: Mining activities have introduced contamination to surrounding aquatic and terrestrial environments, causing adverse impacts to human health and the environment. Indigenous microbial communities are responsible for biogeochemical cycling in diverse environments, indicating the potential to remediate the contamination introduced by the mining activities. Antimony has been extensively mined in China and Sb contamination in mining areas has been frequently encountered. However, the microbial composition and structure in response to antimony contamination has remained overlooked. Here we selected a watershed heavily contaminated by an antimony tailing from an upstream mine. We obtained comprehensive geochemical data (specifically, physical-chemical properties and different antimony extraction fractions) from river water and sediments at different depths. In addition, the indigenous microbial communities were profiled by high-throughput sequencing from 16 sediment samples (535,390 valid reads).
DOI: 10.15468/dl.njhdyy
title: Occurrence Download

description: A dataset containing 17350 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Australia",
 "HasCoordinate is true",
 "Year is 1904"
 ]
}

 The dataset includes 17350 records from 86 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011139-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zd4s34
title: Occurrence Download

description: A dataset containing 310 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((6.71942 52.64858,6.68894 52.55186,6.69856 52.48099,6.84435 52.45821,6.85296 52.44859,6.93901 52.43695,6.98457 52.47289,7.01343 52.42935,7.05697 52.39848,7.07165 52.36355,7.02706 52.27543,7.04579 52.25923,7.0706 52.22987,7.27396 52.28847,7.51145 52.3094,7.47039 52.53803,7.3287 52.60404,7.22163 52.60404,7.1999 52.74895,7.07329 52.76908,7.04888 52.63943,6.71942 52.64858))",
 "OccurrenceStatus is Present",
 "TaxonKey is Amphibia",
 "Year 2025-2025"
 ]
}

 The dataset includes 310 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011154-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/qj6wr7
title: Exploration of soil bacterial diversity in organic and conventional agriculture fields in Sri Lanka

description: This research aimed to collect biodiversity data from organic and conventional agricultural fields in Sri Lanka in order to investigate the soil bacterial distribution. The agricultural fields belonged to the 24 main agroecological zones of Sri Lanka.  Data was collected by eDNA metabarcoding, where the V4 region of the 16S rDNA gene was analysed to capture the soil bacterial diversity. The dataset consists of 4,149 different georeferenced, occurrence records. 

The research was carried out at the Sri Lanka Institute of Nanotechnology and was funded by the National Research Council of Sri Lanka.
DOI: 10.15468/lqsgn8
title: North Pacific Subtropical Gyre Microbial Community

description: 16S amplicon libraries were collected as a portion of the Seasonal and decadal changes in temperature drive Prochlorococcus ecotype distribution patterns, also known as Prochlorococcus of Warming Ocean Waters (POWOW) Cruise series. The samples were collected in January 2013 (KM1301) and July 2013 (KM1312) in the Eastern North Pacific Ocean. The goal of this project was to characterize ecosystem scale changes associated with shifts in temperature.
DOI: 10.15468/u2su8v
title: Great Sippewissett Marsh Plot nirS Targeted Locus

description: nirS amplicon sequences from Great Sippewissett Marsh plot fertilization experiments
DOI: 10.5281/zenodo.15768088
title: Calculated phonon spectrum and superexchange interactions in the dimerized phase of CuGeO3

description: This repository contains the input and output data of density functional theory calculations of the phonon spectrum of CuGeO3 using VASP and Phonopy and the input and output data for a total energy mapping analysis (TEMA) used to estimate the superexchange interactions. 

The repository is related to the article

L. Spitz, A. Razpopov, S. Biswas, H. Lane, S. E. Nikitin, K. Iida, R. Kajimoto, M. Fujita, M. Arai, M. Mourigal, Ch. Rüegg, R. Valentí, B. Normand, "Phonon spectrum in the spin-Peierls phase of CuGeO3", arXiv:2507.12409 (2025)

The input and output files as well as their usage are described in README.txt. A summary of the phonon frequencies calculated using the files provided in phonon_relaxed_struct.zip is given in CuGeO3_phonon_table.pdf.
DOI: 10.5281/zenodo.17184408
title: Calculated phonon spectrum and superexchange interactions in the dimerized phase of CuGeO3

description: This repository contains the input and output data of density functional theory calculations of the phonon spectrum of CuGeO3 using VASP and Phonopy and the input and output data for a total energy mapping analysis (TEMA) used to estimate the superexchange interactions. 

The repository is related to the article

L. Spitz, A. Razpopov, S. Biswas, H. Lane, S. E. Nikitin, K. Iida, R. Kajimoto, M. Fujita, M. Arai, M. Mourigal, Ch. Rüegg, R. Valentí, B. Normand, "Phonon spectrum in the spin-Peierls phase of CuGeO3", arXiv:2507.12409 (2025)

The input and output files as well as their usage are described in README.txt. A summary of the phonon frequencies calculated using the files provided in phonon_relaxed_struct.zip is given in CuGeO3_phonon_table.pdf.
DOI: 10.15468/lebdhj
title: Western Antarctic Peninsula Bacteria (Mesocosm exp.)

description: Amplicon sequencing data of the 16S SSU rRNA marker gene of bacteria in four Mesososm experiments that spanned the spring transitional period (August–December 2013) in surface waters of the Western Antarctic Peninsula (WAP). Each mesocosm consisted of nearshore surface seawater (50 L) incubated in the laboratory for 10 days. 

Further details in: Luria, C. M., Amaral-Zettler, L. A., Ducklow, H. W., Repeta, D. J., Rhyne, A. L., & Rich, J. J. (2017). Seasonal shifts in bacterial community responses to phytoplankton-derived dissolved organic matter in the Western Antarctic Peninsula. Frontiers in microbiology, 8, 2117.
DOI: 10.15468/wjxf0m
title: Surface sediment raw sequence reads 1

description: Diversity of bacteria in surface sediment from Lake Bosten in xinjiang Province, China
DOI: 10.15468/a5yya7
title: Metabarcoding of eDNAbyss water samples

description: Water from different depths was prefiltered in situ using Salsa pump or collected in CTD bottled before being filtered onboard to retain small cell sizes or nucleic acids (DNA/RNA). Nucleic acids were extracted from filters and submitted to a PCR-ligation protocols using 6 sets of primers pairs targeting metazoans (2 primer pairs targeting a fragment of Cytochrome Oxydase I and one of rDNA18S V1-V2), microeukaryotes (2 primer pairs targeting rDNA 18S V4 and V9) and prokaryotes (2 sets of primer pairs targeting rDNA16S V4-V5 respectively defined for prokaryotes in general, and archaebacterial in particular).
DOI: 10.15468/dl.8ww4z7
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sarracenia rubra",
 "Country is Belgium",
 "HasCoordinate is true"
 ]
}

 The dataset includes 3 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011158-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/ktwewp
title: Aeolian microbial dispersal limitation to Antarctica (2017)

description: Amplicon sequencing dataset (Illumina MiSeq) targeting Bacteria (16S ssu rRNA) and Fungi (ITS) in samples (n=110) from soils and aerosol in the McMurdo Dry Valleys and New Zealand.
DOI: 10.15468/dl.rgqqus
title: Occurrence Download

description: A dataset containing 16 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-95.96368968039339 17.634588213730133,-94.11942738531143 17.634588213730133,-94.11942738531143 19.4788505088121,-95.96368968039339 19.4788505088121,-95.96368968039339 17.634588213730133))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Carangoides bartholomaei"
 ]
}

 The dataset includes 16 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011157-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/swgmxm
title: marine sediment metagenome Raw sequence reads

description: Microbial diversity survey of shallow tropical marine sediment.
DOI: 10.15468/dl.pwx58t
title: Occurrence Download

description: A dataset containing 3089 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Uganda",
 "TaxonKey is Balaeniceps rex"
 ]
}

 The dataset includes 3089 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011156-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.