cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh1232410.09fu
title: SH1232410.09FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.5281/zenodo.13169346
title: Datasets belonging to the publication "Allelic variants confer Arabidopsis adaptation to small regional environmental differences".

description: Datasets belonging to the publication "Allelic variants confer Arabidopsis adaptation to small regional environmental differences".

A short description of each file is found below. Samples in the Variant Call Format (VCF) files are named according to how they are stored in the National Center for Biotechnology Information (NCBI) BioSample database. Detailed descriptions of how each file was generated are found in the manuscript.

Dartmap_Dutch_1001G_nuclear.vcf.gz

2,712,612 bi-allelic SNPs and 353,974 bi-allelic small indels called in the DartMap panel and the Dutch 1001G accessions (collectively referred to as DartMap + 1001G panel for brevity) relative to the Arabidopsis thaliana Col-0 nuclear genome reference sequence.

Dartmap_Dutch_1001G_mitochondrial.vcf.gz

231 bi-allelic SNPs and 23 bi-allelic small indels called in the DartMap panel and the Dutch 1001G accessions (collectively referred to as DartMap + 1001G panel for brevity) relative to the A. thaliana Col-0 mitochondrial genome reference sequence.

Dartmap_Dutch_1001G_chloroplast.vcf.gz

400 bi-allelic SNPs and 79 bi-allelic small indels called in the DartMap panel and the Dutch 1001G accessions (collectively referred to as DartMap + 1001G panel for brevity) relative to the A. thaliana Col-0 chloroplast genome reference sequence.

Dartmap_CNVs.vcf.gz

29,155 copy number variants (CNVs) called in the DartMap panel relative to the A. thaliana Col-0 reference genome.

Dartmap_Dutch_1001G_neighbouring_countries_nuclear.vcf.gz

Filtered VCF file containing variants of the DartMap + 1001G panel and that of neighbouring countries relative to the A. thaliana Col-0 nuclear genome reference sequence. Used for population structure analysis in the manuscript.

Dartmap_Dutch_1001G_neighbouring_countries_mitochondrial.vcf.gz

Filtered VCF file containing variants of the DartMap + 1001G panel and that of neighbouring countries relative to the A. thaliana Col-0 mitochondrial genome reference sequence. Used for population structure analysis in the manuscript.

Dartmap_Dutch_1001G_neighbouring_countries_chloroplast.vcf.gz

Filtered VCF file containing variants of the DartMap + 1001G panel and that of neighbouring countries relative to the A. thaliana Col-0 chloroplast genome reference sequence. Used for population structure analysis in the manuscript.

Dartmap_GWAS_GEA.vcf.gz

Filtered VCF file containing all variants of the DartMap panel that were used for all genome-wide association (GWA) and genome-environment association (GEA) analyses.

DartMap_phenotypical_data.xlsx

All relevant phenotypical data of the DartMap panel. 

Dartmap_sample_ids_NCBI_sample_names.csv

Table showing which numerical ID of each DartMap sample corresponds to which NCBI BioSample ID.
DOI: 10.5281/zenodo.13169347
title: Datasets belonging to the publication "Allelic variants confer Arabidopsis adaptation to small regional environmental differences".

description: Datasets belonging to the publication "Allelic variants confer Arabidopsis adaptation to small regional environmental differences".

A short description of each file is found below. Samples in the Variant Call Format (VCF) files are named according to how they are stored in the National Center for Biotechnology Information (NCBI) BioSample database. Detailed descriptions of how each file was generated are found in the manuscript.

Dartmap_Dutch_1001G_nuclear.vcf.gz

2,712,612 bi-allelic SNPs and 353,974 bi-allelic small indels called in the DartMap panel and the Dutch 1001G accessions (collectively referred to as DartMap + 1001G panel for brevity) relative to the Arabidopsis thaliana Col-0 nuclear genome reference sequence.

Dartmap_Dutch_1001G_mitochondrial.vcf.gz

231 bi-allelic SNPs and 23 bi-allelic small indels called in the DartMap panel and the Dutch 1001G accessions (collectively referred to as DartMap + 1001G panel for brevity) relative to the A. thaliana Col-0 mitochondrial genome reference sequence.

Dartmap_Dutch_1001G_chloroplast.vcf.gz

400 bi-allelic SNPs and 79 bi-allelic small indels called in the DartMap panel and the Dutch 1001G accessions (collectively referred to as DartMap + 1001G panel for brevity) relative to the A. thaliana Col-0 chloroplast genome reference sequence.

Dartmap_CNVs.vcf.gz

29,155 copy number variants (CNVs) called in the DartMap panel relative to the A. thaliana Col-0 reference genome.

Dartmap_Dutch_1001G_neighbouring_countries_nuclear.vcf.gz

Filtered VCF file containing variants of the DartMap + 1001G panel and that of neighbouring countries relative to the A. thaliana Col-0 nuclear genome reference sequence. Used for population structure analysis in the manuscript.

Dartmap_Dutch_1001G_neighbouring_countries_mitochondrial.vcf.gz

Filtered VCF file containing variants of the DartMap + 1001G panel and that of neighbouring countries relative to the A. thaliana Col-0 mitochondrial genome reference sequence. Used for population structure analysis in the manuscript.

Dartmap_Dutch_1001G_neighbouring_countries_chloroplast.vcf.gz

Filtered VCF file containing variants of the DartMap + 1001G panel and that of neighbouring countries relative to the A. thaliana Col-0 chloroplast genome reference sequence. Used for population structure analysis in the manuscript.

Dartmap_GWAS_GEA.vcf.gz

Filtered VCF file containing all variants of the DartMap panel that were used for all genome-wide association (GWA) and genome-environment association (GEA) analyses.

DartMap_phenotypical_data.xlsx

All relevant phenotypical data of the DartMap panel. 

Dartmap_sample_ids_NCBI_sample_names.csv

Table showing which numerical ID of each DartMap sample corresponds to which NCBI BioSample ID.
DOI: 10.5281/zenodo.13382828
title: Datasets belonging to the publication "Allelic variants confer Arabidopsis adaptation to small regional environmental differences".

description: Datasets belonging to the publication "Allelic variants confer Arabidopsis adaptation to small regional environmental differences".

A short description of each file is found below. Samples in the Variant Call Format (VCF) files are named according to how they are stored in the National Center for Biotechnology Information (NCBI) BioSample database. Detailed descriptions of how each file was generated are found in the manuscript.

Dartmap_Dutch_1001G_nuclear.vcf.gz

2,712,612 bi-allelic SNPs and 353,974 bi-allelic small indels called in the DartMap panel and the Dutch 1001G accessions (collectively referred to as DartMap + 1001G panel for brevity) relative to the Arabidopsis thaliana Col-0 nuclear genome reference sequence.

Dartmap_Dutch_1001G_mitochondrial.vcf.gz

231 bi-allelic SNPs and 23 bi-allelic small indels called in the DartMap panel and the Dutch 1001G accessions (collectively referred to as DartMap + 1001G panel for brevity) relative to the A. thaliana Col-0 mitochondrial genome reference sequence.

Dartmap_Dutch_1001G_chloroplast.vcf.gz

400 bi-allelic SNPs and 79 bi-allelic small indels called in the DartMap panel and the Dutch 1001G accessions (collectively referred to as DartMap + 1001G panel for brevity) relative to the A. thaliana Col-0 chloroplast genome reference sequence.

Dartmap_CNVs.vcf.gz

29,155 copy number variants (CNVs) called in the DartMap panel relative to the A. thaliana Col-0 reference genome.

Dartmap_Dutch_1001G_neighbouring_countries_nuclear.vcf.gz

Filtered VCF file containing variants of the DartMap + 1001G panel and that of neighbouring countries relative to the A. thaliana Col-0 nuclear genome reference sequence. Used for population structure analysis in the manuscript.

Dartmap_Dutch_1001G_neighbouring_countries_mitochondrial.vcf.gz

Filtered VCF file containing variants of the DartMap + 1001G panel and that of neighbouring countries relative to the A. thaliana Col-0 mitochondrial genome reference sequence. Used for population structure analysis in the manuscript.

Dartmap_Dutch_1001G_neighbouring_countries_chloroplast.vcf.gz

Filtered VCF file containing variants of the DartMap + 1001G panel and that of neighbouring countries relative to the A. thaliana Col-0 chloroplast genome reference sequence. Used for population structure analysis in the manuscript.

Dartmap_GWAS_GEA.vcf.gz

Filtered VCF file containing all variants of the DartMap panel that were used for all genome-wide association (GWA) and genome-environment association (GEA) analyses.

DartMap_phenotypical_data.xlsx

All relevant phenotypical data of the DartMap panel. 

Dartmap_sample_ids_NCBI_sample_names.csv

Table showing which numerical ID of each DartMap sample corresponds to which NCBI BioSample ID.
DOI: 10.15468/dl.vcm5wh
title: Occurrence Download

description: A dataset containing 1876 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Justicia gendarussa Burm.fil."
 ]
}

 The dataset includes 1876 records from 146 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0105976-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.defz2u
title: Occurrence Download

description: A dataset containing 1299 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Justicia adhatoda L."
 ]
}

 The dataset includes 1299 records from 121 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0105978-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vngkdb
title: Occurrence Download

description: A dataset containing 5017 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Austria",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Rhododendron ferrugineum L."
 ]
}

 The dataset includes 5017 records from 37 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0105979-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qcmegm
title: Occurrence Download

description: A dataset containing 346 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rosa brunonii Lindl."
 ]
}

 The dataset includes 346 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0105980-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vkxzpj
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Diglyphus albiscapus, Diglyphus albiscapus, Diglyphus albiscapus, Diglyphus albiscapus Erdos, Diglyphus albiscapus Erdös, 1951, Diglyphus albiscapus Erdös, 1951, Diglyphus albiscapus Erdos, 1951, Diglyphus albiscapus Erdös, 1951, Diglyphus albiscapus Erdös, 1951)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Living Specimen, Machine Observation, Literature Occurrence)",
 "Geometry POLYGON((-180 -90,180 -90,180 90,-180 90,-180 -90))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0105983-240626123714530/datasets/export for details.
DOI: 10.15468/dl.u3zmy3
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Diglyphus albiscapus, Diglyphus albiscapus, Diglyphus albiscapus, Diglyphus albiscapus Erdos, Diglyphus albiscapus Erdös, 1951, Diglyphus albiscapus Erdös, 1951, Diglyphus albiscapus Erdos, 1951, Diglyphus albiscapus Erdös, 1951, Diglyphus albiscapus Erdös, 1951)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Living Specimen, Machine Observation, Literature Occurrence)",
 "Geometry POLYGON((-180 -90,180 -90,180 90,-180 90,-180 -90))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0105984-240626123714530/datasets/export for details.
DOI: 10.15468/dl.7ttnj2
title: Occurrence Download

description: A dataset containing 1371 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is The Vascular Plant Collection at the Herbarium MSB, Universität München"
 ]
}

 The dataset includes 1371 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0105982-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.18167/dvn1/vazlk7
title: Jeu de données sur le devenir du chlordécone dans les réseaux trophiques du sol dans un agroécosystème bananier en Martinique

description: [FR] Données sur les ratios isotopiques (C et N) et sur la contamination de la macrofaune du sol par la chlordécone (CLD) et un de ses produits de transformation : le chlordécole (CLDOH). Les invertébrés du sol ont été collectés sur les parcelles du projet BANABIO situées sur la station expérimentale de Rivière Lézarde. Le delta 15 et le Delta 13C ainsi que les niveaux de contamination en CLD et CLDOH ont été mesurés sur 14 espèces d'invertébrés et un lézard prédateurs représentatifs des réseaux trophiques du sol des agroécosytèmes de Martinique. Pour chaque espèce, plusieurs individus ont été regroupés afin d'atteindre une masse suffisante pour permettre l'analyse des 2 molécules étudiées. Les analyses de contamination ont été réalisées par l'équipe Pesticides et biotoxines marines (PBM) de l'Agence nationale de sécurité sanitaire de l'alimentation, de l'environnement et du travail (ANSES) à Maison-Alfort (France). Les analyses isotopiques ont été analysées à l'Atelier de Quantifications Isotopiques (AQUI) de l'unité de recherche B&PMP à Montpellier, France. [EN] Data on isotope ratios (C and N) and contamination of soil macrofauna by chlordecone (CLD) and one of its transformation products: chlordecole (CLDOH). Soil invertebrates were collected on the BANABIO project plots located on the Rivière Lézarde experimental station. Delta 15 and Delta 13C, as well as CLD and CLDOH contamination levels, were measured on 14 invertebrate species and one predatory lizard representative of soil food webs in Martinique's agroecosystems. For each species, several individuals were grouped together in order to reach a sufficient mass for analysis of the 2 molecules studied. Contamination analyses were carried out by the Pesticides and Marine Biotoxins (PBM) team of the Agence nationale de sécurité sanitaire de l'alimentation, de l'environnement et du travail (ANSES) in Maison-Alfort (France). Isotopic analyses were performed at the Atelier de Quantifications Isotopiques (AQUI) of the B&PMP research unit in Montpellier, France.
DOI: 10.15468/dl.9y38xz
title: Occurrence Download

description: A dataset containing 13156 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hexasepalum teres (Walter) J.H.Kirkbr."
 ]
}

 The dataset includes 13156 records from 388 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0105985-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4um7hd
title: Occurrence Download

description: A dataset containing 7200 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Herissantia crispa (L.) Brizicky"
 ]
}

 The dataset includes 7200 records from 313 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0105986-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xk3ncj
title: Occurrence Download

description: A dataset containing 43 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Anthracoceros montani (Oustalet, 1880)"
 ]
}

 The dataset includes 43 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0105992-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4xd7a3
title: Occurrence Download

description: A dataset containing 1843 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rosa sericea Lindl."
 ]
}

 The dataset includes 1843 records from 71 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0105989-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hh7c94
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Diglyphus albiscapus, Diglyphus albiscapus, Diglyphus albiscapus, Diglyphus albiscapus Erdos, Diglyphus albiscapus Erdös, 1951, Diglyphus albiscapus Erdös, 1951, Diglyphus albiscapus Erdos, 1951, Diglyphus albiscapus Erdös, 1951, Diglyphus albiscapus Erdös, 1951)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Living Specimen, Machine Observation, Literature Occurrence)",
 "Geometry POLYGON((-180 -90,180 -90,180 90,-180 90,-180 -90))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0105994-240626123714530/datasets/export for details.
DOI: 10.15468/dl.sn39tu
title: Occurrence Download

description: A dataset containing 42228 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heliotropium europaeum L."
 ]
}

 The dataset includes 42228 records from 788 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0105991-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15156/bio/sh3407470.08fu
title: SH3407470.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3407471.08fu
title: SH3407471.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3407472.08fu
title: SH3407472.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3407473.08fu
title: SH3407473.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.