cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.p4q8nf
title: Occurrence Download

description: A dataset containing 17 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dioscorea plantaginifolia R.Knuth"
 ]
}

 The dataset includes 17 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0155201-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4q2b8x
title: Occurrence Download

description: A dataset containing 4725 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "TaxonKey is Pinus taeda L."
 ]
}

 The dataset includes 4725 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0073388-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jiauam
title: Occurrence Download

description: A dataset containing 962 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Mormoops megalophylla tumidiceps Miller, 1902"
 ]
}

 The dataset includes 962 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000321-190918142434337/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zd3bq7
title: Occurrence Download

description: A dataset containing 58348 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Medicago falcata L."
 ]
}

 The dataset includes 58348 records from 383 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0268322-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ak65ug
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Caloramphus fuliginosus (Temminck, 1830)",
 "BasisOfRecord is Specimen",
 "DecimalLongitude is greater than 65",
 "DecimalLongitude is greater than or equal to 137.4"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038043-231002084531237/datasets/export for details.
DOI: 10.15468/dl.3rylnz
title: Occurrence Download

description: A dataset containing 22782 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lactuca sativa L."
 ]
}

 The dataset includes 22782 records from 240 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007438-170826194755519/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h3284f
title: Occurrence Download

description: A dataset containing 43 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Reptiles de la Ecoreserva Apiay (Villavicencio, Meta) - Proyecto Ecoreservas"
 ]
}

 The dataset includes 43 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046894-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ygeaw9
title: Occurrence Download

description: A dataset containing 125624 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Spain",
 {
 "or" : [
 "TaxonKey is Geranium pyrenaicum subsp. pyrenaicum",
 "TaxonKey is Geranium lanuginosum Lam.",
 "TaxonKey is Geranium cataractarum Coss.",
 "TaxonKey is Geranium cinereum Cav.",
 "TaxonKey is Geranium dolomiticum Rothm.",
 "TaxonKey is Geranium cazorlense Heywood",
 "TaxonKey is Geranium maderense Yeo",
 "TaxonKey is Geranium bohemicum L.",
 "TaxonKey is Geranium sylvaticum L.",
 "TaxonKey is Geranium collinum Stephan ex Willd.",
 "TaxonKey is Geranium pratense L.",
 "TaxonKey is Erodium L'Hér.",
 "TaxonKey is Galium L.",
 "TaxonKey is Galium moldavicum (Dobrocz.) Franco",
 "TaxonKey is Galium valentinum Lange",
 "TaxonKey is Galium arenarium Loisel.",
 "TaxonKey is Galium pulvinatum Boiss.",
 "TaxonKey is Galium tunetanum Lam.",
 "TaxonKey is Galium viridiflorum Boiss. & Reut.",
 "TaxonKey is Galium pyrenaicum Gouan",
 "TaxonKey is Galium rotundifolium L.",
 "TaxonKey is Galium litorale Guss.",
 "TaxonKey is Galium boreale L.",
 "TaxonKey is Galium cracoviense Ehrend.",
 "TaxonKey is Galium javalambrense López Udias, Mateo & M.B.Crespo"
 ]
 }
 ]
}

 The dataset includes 125624 records from 107 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007433-160623103540712/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wpg579
title: Occurrence Download

description: A dataset containing 3136 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Allium senescens L."
 ]
}

 The dataset includes 3136 records from 82 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046886-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hb5qe7
title: Occurrence Download

description: A dataset containing 2495 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Helenium autumnale L."
 ]
}

 The dataset includes 2495 records from 118 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007433-170826194755519/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jgfyw9
title: Occurrence Download

description: A dataset containing 23 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Esterhazya nanuzae V.C.Souza"
 ]
}

 The dataset includes 23 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038047-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vr0si1
title: Occurrence Download

description: A dataset containing 142 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Oreochromis upembae (Thys van den Audenaerde, 1964)"
 ]
}

 The dataset includes 142 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007434-150615163101818/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rghc2q
title: Occurrence Download

description: A dataset containing 3118 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sparus aurata Linnaeus, 1758",
 "Year 2013-2023"
 ]
}

 The dataset includes 3118 records from 45 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023998-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gatpax
title: Occurrence Download

description: A dataset containing 3144 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Viburnum erosum Thunb.)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 3144 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016155-240425142415019/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.lrzkri
title: Occurrence Download

description: A dataset containing 18 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Dryopsis nidus (Baker) Holttum & P.J.Edwards"
 ]
}

 The dataset includes 18 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007434-160311141623029/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r8twda
title: Occurrence Download

description: A dataset containing 114412 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Myocastor coypus (Molina, 1782)"
 ]
}

 The dataset includes 114412 records from 1353 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038064-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wvxyqc
title: Occurrence Download

description: A dataset containing 129 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rosa sambucina Koidz.",
 "HasCoordinate is true",
 "Country is Japan",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 129 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0204152-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e9mv6p
title: Occurrence Download

description: A dataset containing 147270 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Canis lupus Linnaeus, 1758"
 ]
}

 The dataset includes 147270 records from 557 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0286717-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vu4prm
title: Occurrence Download

description: A dataset containing 864 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Otomops martiensseni (Matschie, 1897)"
 ]
}

 The dataset includes 864 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0204160-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6gn6qk
title: Occurrence Download

description: A dataset containing 84 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mussaenda erythrophylla",
 "Country is India",
 "HasCoordinate is true"
 ]
}

 The dataset includes 84 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020026-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nektyz
title: Occurrence Download

description: A dataset containing 351362 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Dendroctonus micans, Dendroctonus murrayanae, Dendroctonus punctatus, Dendroctonus simplex, Dendroctonus terebrans, Hylurgus rufipennis, Xyleborus glabratus, Contarinia constricta, Contarinia pseudotsugae, Anastrepha compressa, Bombus impatiens, Streptopelia chinensis, Streptopelia roseogrisea, Cyanoliseus patagonus, Agama agama, Physignathus cocincinus, Candoia carinata, Epicrates cenchria, Chamaeleo calyptratus, Chamaeleo gracilis)",
 "BasisOfRecord is one of (Machine Observation, Human Observation, Observation)",
 "HasCoordinate is true",
 "Year is greater than or equal to 1990"
 ]
}

 The dataset includes 351362 records from 242 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019979-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tnnnms
title: Occurrence Download

description: A dataset containing 6 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mussaenda erythrophylla",
 "Country is Seychelles",
 "HasCoordinate is true"
 ]
}

 The dataset includes 6 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020027-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25574/26757
title: Chandra X-ray Observatory ObsId 26757

description: Spacetime and Spectra: Joint Chandra/EHT Observations of Sgr A* and M87
DOI: 10.15468/dl.ar2fa2
title: Occurrence Download

description: A dataset containing 596 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Caracterización biológica en el Ecoparque Aguacatal y en el Ecobarrio Aguacatal, Cali, Valle del Cauca"
 ]
}

 The dataset includes 596 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020030-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25574/27738
title: Chandra X-ray Observatory ObsId 27738

description: Understanding the orbital evolution of the repeating partial tidal disruption: J0456-20
DOI: 10.15468/dl.wbnebe
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Paphia euglypta",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Occurrence evidence)",
 {
 "not" : {
 "OccurrenceStatus" : [
 "is one of (Absent)"
 ]
 }
 }
 ]
}

 The dataset includes 3 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020029-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6rqntn
title: Occurrence Download

description: A dataset containing 41664 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Agrostis canina",
 "Year is less than or equal to 2000",
 "Year is greater than or equal to 1970",
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 1000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 41664 records from 206 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020028-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.21227/tawm-e882
title: "PCA used for build and apply the anatomy-constrained neural-SDE for pre-treatment prediction of pelvic organ motion"

description: "These are the mean DVF and 12 principal components used for building and applying the neural-SDE for pre-treament prediciton of pelvic organ motion"
DOI: 10.15468/dl.47jsrm
title: Occurrence Download

description: A dataset containing 26 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Material sample, Specimen)",
 "Continent is North America",
 "Country is Mexico",
 "GadmGid is MEX.17_1",
 "Month is one of (January, February, April, March, May, November, October, September, August, December, July, June)",
 "OccurrenceStatus is Present",
 "TaxonKey is Viguiera",
 "Year 1765-2025"
 ]
}

 The dataset includes 26 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020032-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.d2yvpm
title: Occurrence Download

description: A dataset containing 437 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Inventario florístico y faunístico del Parque Nacional Barranca del Cupatitzio, Michoacán"
 ]
}

 The dataset includes 437 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020031-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17156551
title: Procedural Barriers to Political Candidacy: Gender, Discouragement, and Candidate Persistence∗
DOI: 10.5281/zenodo.17156552
title: Procedural Barriers to Political Candidacy: Gender, Discouragement, and Candidate Persistence∗
DOI: 10.15468/dl.eptvw9
title: Occurrence Download

description: A dataset containing 592 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Caracterización de Fauna del Banco de Hábitat del Bosque Seco Tropical Antioquia de Terrasos"
 ]
}

 The dataset includes 592 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020033-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.k4rvt7
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020034-250914085247600/datasets/export for details.
DOI: 10.15468/dl.88v8bb
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Paphia rotundata",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Occurrence evidence)",
 {
 "not" : {
 "OccurrenceStatus" : [
 "is one of (Absent)"
 ]
 }
 }
 ]
}

 The dataset includes 7 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020035-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.12605768
title: Microflora Danica

description: Microflora Danica

Scope

Microflora Danica (MFD) is set to create the compendium of the microbial populations of Denmark using 10.000+ metagenomic samples encompassing soils, waters and sediments from natural, agricultural and built environments.

More than 50 subprojects are included in MFD, with various degrees of spatial resolutions, depth of associated data and technical challenges. This wiki is meant to help the researchers in navigating the various subprojects, data and results from MFD.

The first flagship manuscript "Microflora Danica: the atlas of Danish environmental microbiomes" is available as a preprint on bioRxiv. The data are publicly available, its findings can be explored and reproduced starting from The MFD Atlas page of this wiki.

Introduction

Microflora Danica is the Atlas of the enviromental microbiomes of Denmark. It relies upon a large scale dataset encompassing 10,683 shotgun metagenomes, 412 near full-length 16S UMI datasets and 450 bacterial and eukaryotic rRNA operon collections, linked to a detailed 5-level habitat ontology. The manuscript determines that while human-disturbed habitats have high alpha diversity, the same species reoccur, revealing hidden homogeneity and underlining the importance of natural systems for total species (gamma) diversity. In-depth studies of nitrifiers, a functional group closely linked to climate change, challenge existing perceptions regarding habitat preference and discover several novel nitrifiers as more abundant than canonical nitrifiers. Together, the Microflora Danica dataset provides an unprecedented resource and the foundation for answering fundamental questions underlying microbial ecology: what drives microbial diversity, distribution and function.

Data

This project encompasses additional data files belonging to the Microflora Danica project. Here we deopisted:



Metagenomic assemblies.

Metagenome bins (MQ MAGs). 

The MFG (Microflora Global) 16S rRNA gene reference database (unclustered and clustered at 98.7% ANI).

Metagenomic derived 16S rRNA gene fragments derived from the 10km reference grid representative samples.

Genus-aggregated observational tables of the 16S rRNA gene fragments (counts and relative abundance) as well as versions of these subjected to random subsampling without replacement.

OTU tables of the 16S UMI, 16S and 18S sequences from operons. 

Data used in the analysis for evaluation of the effect of drying performed for the agricultural samples. 

Supplementary data for nitrifier analysis (including packages for GraftM).

Supplementary data for metagenomic marker gene analysis (including package for SingleM). 


Other resources

The sequencing data, and metagenome bins (HQ MAGs, >90 % completeness <5 % contamination) are available in NCBI under bioproject PRJNA1071982. Associated metadata are also available in github (https://github.com/cmc-aau/mfd_wiki).The near-full length 16S UMI as well as the near-full length 16S and 18S from the bacterial and eukaryotic operons has also been deposited in GBIF. 

This project is supported by the Poul Due Jensen/Grundfos foundation.