cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/woqstn
title: Metabolically active microbial communities in marine sediment under high-CO2 and low-pH extremes

description: Sediment-hosting hydrothermal systems in the Okinawa Trough maintain a large amount of liquid, supercritical and hydrate phases of CO2 in the seabed. The emission of CO2 may critically impact the geochemical, geophysical and ecological characteristics of the deep-sea sedimentary environment. So far it remains unclear whether microbial communities that have been detected in such high-CO2 and low-pH habitats are metabolically active, and if so, what the biogeochemical and ecological consequences for the environment are. In this study, RNA-based molecular approaches and radioactive tracer-based respiration rate assays were combined to study the density, diversity and metabolic activity of microbial communities in CO2-seep sediment at the Yonaguni Knoll IV hydrothermal field of the southern Okinawa Trough. In general, the number of microbes decreased sharply with increasing sediment depth and CO2 concentration. Phylogenetic analyses of community structure using reverse-transcribed 16S ribosomal RNA showed that the active microbial community became less diverse with increasing sediment depth and CO2 concentration, indicating that microbial activity and community structure are sensitive to CO2 venting. Analyses of RNA-based pyrosequences and catalyzed reporter deposition-fluorescence in situ hybridization data revealed that members of the SEEP-SRB2 group within the Deltaproteobacteria and anaerobic methanotrophic archaea (ANME-2a and -2c) were confined to the top seafloor, and active archaea were not detected in deeper sediments (1330?cm in depth) characterized by high CO2. Measurement of the potential sulfate reduction rate at pH conditions of 39 with and without methane in the headspace indicated that acidophilic sulfate reduction possibly occurs in the presence of methane, even at very low pH of 3. These results suggest that some members of the anaerobic methanotrophs and sulfate reducers can adapt to the CO2-seep sedimentary environment; however, CO2 and pH in the deep-sea sediment were found to severely impact the activity and structure of the microbial community.
DOI: 10.15468/dl.gz8uvd
title: Occurrence Download

description: A dataset containing 616 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ravenala madagascariensis",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 616 records from 82 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011264-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/6pzeer
title: Bacteria in Antarctic glacial foreland soils

description: Amplicon sequencing dataset (Illumina MiSeq) of Bacteria (16S ssu rRNA) in an Antarctic glacial foreland soil gradient
DOI: 10.15468/dl.vyhz7y
title: Occurrence Download

description: A dataset containing 1946 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 (Aletris farinosa)"
 ]
}

 The dataset includes 1946 records from 86 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011265-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/stybfl
title: 16S rRNA genes Random survey

description: Sequencing of 16S genes from fractions of 15N and 13C SIP experiments
DOI: 10.15468/c7v99b
title: South China Normal University mangrove sediment Targeted Locus (Loci)

description: South China Normal University mangrove sediment samples
DOI: 10.15468/otrtgr
title: Study of microbial diversity from sediment samples of the SaiGon-DongNai system

description: The main goal is to study the microbial diversity in polluted river affected by urban and industrial activities.
DOI: 10.15468/dl.4spdjx
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Colutea media",
 "Country is Sweden",
 "HasCoordinate is true"
 ]
}

 The dataset includes 27 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011268-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/7wxk67
title: marine sediment metagenome Raw sequence reads

description: Using environmental samples to study the community structure of anammox bacteria in Bohai sediments.
DOI: 10.15468/dl.8fkwm3
title: Occurrence Download

description: A dataset containing 18 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Colutea media",
 "Country is Belgium",
 "HasCoordinate is true"
 ]
}

 The dataset includes 18 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011267-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/evmmvi
title: Potential microbial consortium involved in biodegradation of diesel in mangrove sediment explored by metagenomics analysis

description: This study aimed to explore microbial communities potentially involved in diesel-, hexadecane- and phenanthrene- degradation in microcosm studies, constructed using mangrove sediment from Bangkhuntein, Bangkok, Thailand
DOI: 10.15468/8ttvnv
title: Hangzhou-sediment-sample Raw sequence reads

description: This is the result of amplicon sequencing of multiple microbial functional genes in sediment samples
DOI: 10.15468/dl.rh9hvz
title: Occurrence Download

description: A dataset containing 748 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-66.85545 11.72121,-66.49496 11.72121,-66.49496 12.0039,-66.85545 12.0039,-66.85545 11.72121))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Porites astreoides, Montastraea cavernosa, Siderastrea siderea, Siderastrea radians, Agaricia agaricites, Stephanocoenia intersepta, Manicina areolata, Colpophyllia natans, Pseudodiploria strigosa, Diploria labyrinthiformis, Meandrina meandrites, Eusmilia fastigiata, Dichocoenia stokesii, Porites porites, Porites furcata, Orbicella annularis, Orbicella faveolata, Orbicella franksi, Pseudodiploria clivosa, Isophyllia sinuosa, Isophyllia rigida, Mycetophyllia aliciae, Mycetophyllia ferox, Mycetophyllia lamarckiana, Scolymia cubensis, Scolymia lacera, Agaricia tenuifolia, Agaricia lamarcki, Agaricia humilis, Porites divaricata, Madracis auretenra, Madracis decactis, Porites colonensis, Acropora palmata, Acropora cervicornis, Dendrogyra cylindrus, Meandrina jacksoni, Solenastrea bournoni, Solenastrea hyades, Favia fragum, Agaricia grahamae, Helioseris cucullata, Madracis carmabi, Porites branneri, Oculina diffusa)"
 ]
}

 The dataset includes 748 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011269-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t6s9d8
title: Occurrence Download

description: A dataset containing 531 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is China",
 "TaxonKey is Lecanora"
 ]
}

 The dataset includes 531 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011266-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/s0haiz
title: Copepod induced bacterial community Raw sequence reads

description: Live copepods from the North Atlantic subtropical gyre were collected and rinsed to be used in bioassay-type experiments. Bacteria present in various seawater and copepod treatments were analyzed by targeting the 16S rRNA V3-V4 region. In this study, copepods were observed to increase growth of bacteria which were released to their surroundings. Additionally, copepods may be responsible for inhibiting or inducing growth of specific bacterial groups.
DOI: 10.5281/zenodo.17190408
title: Distinct CD8+ Effector Memory TCR Repertoires Reveal Enhanced HIV-Specific Responses and Biomarker Potential in HIV Controllers
DOI: 10.5281/zenodo.17190409
title: Distinct CD8+ Effector Memory TCR Repertoires Reveal Enhanced HIV-Specific Responses and Biomarker Potential in HIV Controllers
DOI: 10.15468/dl.p3z2au
title: Occurrence Download

description: A dataset containing 2948 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Retama monosperma",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 2948 records from 107 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011270-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/sm6fpz
title: eDNA from Gulf of Mexico Ecosystems and Carbon Cruise 2021 (GOMECC-4)

description: Seawater was collected on board the NOAA ship Ronald H. Brown as part of the fourth Gulf of Mexico Ecosystems and Carbon Cycle (GOMECC-4) cruise from September 13 to October 21, 2021. Sampling for GOMECC-4 occurred along 16 coastal-offshore transects across the entire Gulf of Mexico and an additional line at 27N latitude in the Atlantic Ocean. We also collected eDNA samples near Padre Island National Seashore (U.S. National Parks Service), a barrier island located off the coast of south Texas. Vertical CTD sampling was employed at each site to measure discrete chemical, physical, and biological properties. Water sampling for DNA filtration was conducted at 54 out of 141 total sites and three depths per site (surface, deep chlorophyll maximum, and near bottom) to capture horizontal and vertical gradients of bacterial, protistan, and metazoan diversity across the Gulf.
DOI: 10.15468/tbheiw
title: DOM nutrient stress experiment bacterial communities

description: These sequences include bacterioplankton 16S rDNA amplicons both environmental samples from the Santa Barbara Channel, CA, USA, and from subsequent remineralization bioassays. Bioassays were amended with dissolved organic carbon from nutrient-stressed diatoms.
DOI: 10.15468/cf7zy2
title: General soil fungi from 150 German grassland and 150 German forest plots from 2011, 2014 and 2017 (Illumina MiSeq)

description: The German Biodiversity Exploratories aim to regularly monitor general fungi in German soils. The project considers 150 grassland and 150 forest plots in total, which are distributed along a north-south transect across Germany. The three sites, each consisting of 50 grassland and 50 forest plots, are Schorfheide-Chorin in Northern Germany, Hainich-Duen in Central Germany and Swabian Alb in the South of the country. Grasslands and forests are characterized by different land-use intensities and management regimes, respectively. The arbuscular mycorrhiza fungi were assessed using Illumina MiSeq sequencing of the internal transcripted spacer2 (ITS2) region after a joint soil sampling carried out in May 2011, 2014 and 2017, each time on all 300 plots.
DOI: 10.15468/dl.59zmkt
title: Occurrence Download

description: A dataset containing 328 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 (Alkanna orientalis)"
 ]
}

 The dataset includes 328 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011271-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/ftgolj
title: Microbial diversity and skin mucosal microbiota in farmed Atlantic salmon with ulcerative disorders, raw sequence reads

description: The Norwegian aquaculture of Atlantic salmon Salmo salar is hampered by ulcerative disorders associated with bacterial infections. Studying the composition of microbial communities on skin mucus, and how the microbiota is structured in ulcers will enhance our understanding of ulcer etiology. To achieve this we used seawater farmed Atlantic salmon and sampled the base and edge of ulcers at the end of winter (April) and at the end of summer (September), in addition to skin-mucus of healthy individuals. In order to assess microbiota associated to the host and to get a better insight into the environmental ecology we additionally sampled the seawater column and sediment layer underneath the farm facility in addition to the distal intestine of Atlantic salmon.
DOI: 10.15468/u34cfh
title: eDNA-based occurrence dataset on fungi of fine woody debris studied in Northwestern Siberia

description: To study the total DNA of the dead wood community, we used an approach of standardised substrates (Shumskaya et al. 2023) developed to describe the community in the early stages of wood decay. Sterilised wooden dowels of three tree species (pine, larch and birch) were buried among forest litter in peatland and forest habitats and were extracted at two-week intervals throughout two years. The collected dowels were wrapped in sterile bags and dried at 40°C for a day. A total of 189 wood dowels were extracted by the end of the second season. The same number of samples of environmental DNA, extracted from the wood, were obtained and stored at −20°C until being processed.Metabarcoding of the ITS2 region (Illumina MiSeq platform) revealed about 1600 SHs and 750 Linnean species. The obtained sequences were processed using QIIME2 (Quantitative Insights Into Microbial Ecology 2, version 2023.9).The dataset represent an occurrence dataset with the DNA-derived extension table based on guidelines (Abarenkov et al. 2023). The first table (Occurrence Core) has 20 fields to describe features of samples and observed taxonomic occurrences with their abundances (number of reads). The related DNA-derived data table contains sequences linked to each occurrence with their metadata.
DOI: 10.15468/dl.6cbmav
title: Occurrence Download

description: A dataset containing 29 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cullen americanum",
 "Country is Belgium",
 "HasCoordinate is true"
 ]
}

 The dataset includes 29 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011272-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/zgst2e
title: Marine metagenome ICM_BSR

description: Examining the Free-Living and Particle-Associated Bacterial Community in the Black Sea''s Suboxic Zone.
DOI: 10.15468/dl.t8r7du
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011273-250920141307145/datasets/export for details.
DOI: 10.15468/dl.r8w57j
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cullen americanum",
 "Country is Netherlands",
 "HasCoordinate is true"
 ]
}

 The dataset includes 15 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011274-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/gwhsvo
title: Sediment of acid mine drainage Targeted loci environmental

description: Sediments from an ancient gold mine in La Carolina, San Luis, Argentina.
DOI: 10.5281/zenodo.17190425
title: LIFT - Optimisation of Livestock Farming using Innovative Tools

description: Agriculture University Of Athens

Lab of Farm Structures

 

ΜΕΤΡΟ 16 - Project partner 

 ΥΠΟΜΕΤΡΟ  16.1 – 16.2 “ΊΔΡΥΣΗ ΚΑΙ ΛΕΙΤΟΥΡΓΙΑ ΕΠΙΧΕΙΡΗΣΙΑΚΩΝ ΟΜΑΔΩΝ ΤΗΣ ΕΥΡΩΠΑΪΚΗΣ ΣΥΜΠΡΑΞΗΣ ΚΑΙΝΟΤΟΜΙΑΣ ΓΙΑ ΤΗΝ ΠΑΡΑΓΩΓΙΚΟΤΗΤΑ ΚΑΙ ΤΗ ΒΙΩΣΙΜΟΤΗΤΑ ΤΗΣ ΓΕΩΡΓΙΑΣ” ΔΡΑΣΗ 2: «Υλοποίηση του επιχειρησιακού σχεδίου (project) των Επιχειρησιακών Ομάδων της ΕΣΚ για την παραγωγικότητα και βιωσιμότητα της γεωργίας
DOI: 10.5281/zenodo.17190424
title: LIFT - Optimisation of Livestock Farming using Innovative Tools

description: Agriculture University Of Athens

Lab of Farm Structures

 

ΜΕΤΡΟ 16 - Project partner 

 ΥΠΟΜΕΤΡΟ  16.1 – 16.2 “ΊΔΡΥΣΗ ΚΑΙ ΛΕΙΤΟΥΡΓΙΑ ΕΠΙΧΕΙΡΗΣΙΑΚΩΝ ΟΜΑΔΩΝ ΤΗΣ ΕΥΡΩΠΑΪΚΗΣ ΣΥΜΠΡΑΞΗΣ ΚΑΙΝΟΤΟΜΙΑΣ ΓΙΑ ΤΗΝ ΠΑΡΑΓΩΓΙΚΟΤΗΤΑ ΚΑΙ ΤΗ ΒΙΩΣΙΜΟΤΗΤΑ ΤΗΣ ΓΕΩΡΓΙΑΣ” ΔΡΑΣΗ 2: «Υλοποίηση του επιχειρησιακού σχεδίου (project) των Επιχειρησιακών Ομάδων της ΕΣΚ για την παραγωγικότητα και βιωσιμότητα της γεωργίας
DOI: 10.15468/dl.3rsku3
title: Occurrence Download

description: A dataset containing 23279 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Australia",
 "HasCoordinate is true",
 "Year is 1910"
 ]
}

 The dataset includes 23279 records from 107 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011262-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/r3ndq1
title: Global biogeography of desert cyanobacteria

description: Amplicon sequencing dataset (454 pyrosequencing) of Bacteria (16S ssu rRNA) and Cyanobacteria (nifH) in cold desert quartz rocks
DOI: 10.15468/dl.wdssyx
title: Occurrence Download

description: A dataset containing 870649 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Spain",
 "TaxonKey is Mammalia",
 "Year 2019-2025"
 ]
}

 The dataset includes 870649 records from 81 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011196-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/llkbhz
title: XRU sediment metagenome Metagenome

description: To investigate the influence of wetland types on the composition and structure of microbial communities.
DOI: 10.15468/dl.3chvn2
title: Occurrence Download

description: A dataset containing 6368 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 acuminatum)"
 ]
}

 The dataset includes 6368 records from 97 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011277-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/oop2ef
title: Marine Sediment from the Berkeley Bay Targeted Locus (Loci)

description: Community analysis (16S) of a marine samples enriched with perchlorate
DOI: 10.15468/esofq6
title: Natural seawater bacterial community in exopolysaccharides utilization

description: We report the microbial EPS degradation in incubation experiments with seawater from estuarine and open ocean sites (surface and deep water), shifts in microbial community structure during the incubation were investigated. Microbial genomic DNA was extracted from the polycarbonate membranes (microbial cells filtered) and the 16S rRNA gene sequences were amplified by PCR. To understand the changes in the bacterial community structure during the early stage of the incubations, we classified the OTUs based on their phylogenetic affiliations and determined their relative proportions on the total number of sequencing reads.
DOI: 10.15468/kt4dqv
title: Metagenomics of Ojo de Campo

description: Water samples from Ojo de Campo Lake were sequenced and analyzed
DOI: 10.15468/33artc
title: COI data from: Environmental DNA metabarcoding differentiates between micro-habitats within the rocky intertidal (Shea & Boehm, 2024)

description: This is mitochondrial Cytochrome c Oxidase I gene (COI) metabarcoding data of surface seawater metazoan communities from three distinct locations in the rocky intertidal, Pillar Point, Half Moon Bay, California, USA that were sampled over one tidal exposure period on 28 January 2022. This work is associated with a publication in Environmental DNA (https://doi.org/10.1002/edn3.521).
[This dataset was processed using the GBIF eDNA converter tool.]
DOI: 10.15468/dl.p92sjd
title: Occurrence Download

description: A dataset containing 707 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Mushrooms Flora of Nepal at Central Department of Botany, Tribhuvan University, Nepal"
 ]
}

 The dataset includes 707 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011278-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.shc46w
title: Occurrence Download

description: A dataset containing 36 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cullen americanum",
 "Country is Portugal",
 "HasCoordinate is true"
 ]
}

 The dataset includes 36 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011279-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zznjuz
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cullen americanum",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011280-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/psyfjq
title: Global Spore Sampling Project: a global, standardized dataset of airborne fungal DNA

description: Novel methods for sampling and characterizing biodiversity hold great promise for re-evaluating patterns of life across the planet. The sampling of airborne spores with a cyclone sampler, and the sequencing of their DNA, have been suggested as an efficient and well-calibrated tool for surveying fungal diversity across various environments. These data originate from the Global Spore Sampling Project, comprising 2,768 samples collected during two years at 47 outdoor locations across the world. Each sample represents fungal DNA extracted from 24 m3 of air. We applied a conservative bioinformatics pipeline that filtered out sequences that did not show strong evidence of representing a fungal species. The pipeline yielded 27,954 species-level operational taxonomic units (OTUs). Each OTU is accompanied by a probabilistic taxonomic classification, validated through comparison with expert evaluations. To examine the potential of the data for ecological analyses, we partitioned the variation in species distributions into spatial and seasonal components, showing a strong effect of the annual mean temperature on community composition.[This dataset was processed using the GBIF Metabarcoding Data Toolkit.]