cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.25577301
title: Effects of net type, tow duration, and day or night sampling on the metagenetic composition of marine zooplankton

description: <b>Abstract</b>DNA metabarcoding to determine the species composition and diversity of marine zooplankton communities is a rapidly advancing field, where the standardization of methods has yet to be fully achieved. The calibration of metagenetic composition with species records from traditional morphology-based sampling is particularly challenging because molecular identification does not rely on the presence of intact specimens. We used an experimental approach to compare the effects of sampling gear (ring-, Manta- and WP2 net), day and night (DN) sampling, and tow duration (5-, 10- and 15-minute tows) on the metagenetic composition of marine zooplankton samples collected in coastal waters of eastern South Africa. High-throughput sequencing of the cytochrome c oxidase subunit I (COI) gene region, followed by taxonomic assignment of amplicon sequence variants at 97% similarity to barcode records, was used to identify species in samples. Metabarcoding detected a total of 224 species, of which 92% matched prior occurrence records. Malacostraca was the best-represented taxonomic class (49%) followed by Copepoda (21%), Actinopterygii (21%), and Gastropoda (9%). Metagenetic species counts ranged from 9–61 species per tow, with high proportions of private species in replicate tows. Mean species counts did not differ significantly between net types, DN samples, or tow durations, respectively. Proportionate representation among classes remained within a narrow range, except when sampling deeper habitats with a smaller mesh size. DN samples showed no evidence of daily vertical migration of zooplankton. The consistency of metagenetic composition across net types, tow duration and DN sampling treatments reflects high detection sensitivity of individual-based sampling, allowing for greater flexibility in planning of zooplankton sampling regimes.
DOI: 10.15468/dl.bfxd4x
title: Occurrence Download

description: A dataset containing 1947 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "Country is Chinese Taipei",
 "Country is China"
 ]
 },
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Hirundapus cochinchinensis (Oustalet, 1878)"
 ]
}

 The dataset includes 1947 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0140426-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fgp95b
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cosmianthemum latifolium Bremek."
 ]
}

 The dataset includes 4 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006898-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.25577301.v1
title: Effects of net type, tow duration, and day or night sampling on the metagenetic composition of marine zooplankton

description: <b>Abstract</b>DNA metabarcoding to determine the species composition and diversity of marine zooplankton communities is a rapidly advancing field, where the standardization of methods has yet to be fully achieved. The calibration of metagenetic composition with species records from traditional morphology-based sampling is particularly challenging because molecular identification does not rely on the presence of intact specimens. We used an experimental approach to compare the effects of sampling gear (ring-, Manta- and WP2 net), day and night (DN) sampling, and tow duration (5-, 10- and 15-minute tows) on the metagenetic composition of marine zooplankton samples collected in coastal waters of eastern South Africa. High-throughput sequencing of the cytochrome c oxidase subunit I (COI) gene region, followed by taxonomic assignment of amplicon sequence variants at 97% similarity to barcode records, was used to identify species in samples. Metabarcoding detected a total of 224 species, of which 92% matched prior occurrence records. Malacostraca was the best-represented taxonomic class (49%) followed by Copepoda (21%), Actinopterygii (21%), and Gastropoda (9%). Metagenetic species counts ranged from 9–61 species per tow, with high proportions of private species in replicate tows. Mean species counts did not differ significantly between net types, DN samples, or tow durations, respectively. Proportionate representation among classes remained within a narrow range, except when sampling deeper habitats with a smaller mesh size. DN samples showed no evidence of daily vertical migration of zooplankton. The consistency of metagenetic composition across net types, tow duration and DN sampling treatments reflects high detection sensitivity of individual-based sampling, allowing for greater flexibility in planning of zooplankton sampling regimes.
DOI: 10.15468/dl.fd4vd2
title: Occurrence Download

description: A dataset containing 721 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is India",
 "IucnRedListCategory is VU",
 "OccurrenceStatus is Present",
 "TaxonKey is Crocodylus palustris (Lesson, 1831)",
 "Year 1989-2024"
 ]
}

 The dataset includes 721 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006881-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.i61axh
title: Occurrence Download

description: A dataset containing 259 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Drypetes diversifolia Krug & Urb."
 ]
}

 The dataset includes 259 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013463-180131172636756/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.unreb2
title: Occurrence Download

description: A dataset containing 2754 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pelargonium capitatum (L.) L'Hér."
 ]
}

 The dataset includes 2754 records from 94 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012777-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wasbas
title: Occurrence Download

description: A dataset containing 1205 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Inga leiocalycina Benth."
 ]
}

 The dataset includes 1205 records from 86 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006899-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x8vbel
title: Occurrence Download

description: A dataset containing 3953 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "TaxonKey is Gryllodes sigillatus (Walker, 1869)",
 "TaxonKey is Gryllotalpa gryllotalpa (Linnaeus, 1758)",
 "TaxonKey is Gryllus bimaculatus De Geer, 1773"
 ]
 },
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 3953 records from 90 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013463-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ubp4gt
title: Occurrence Download

description: A dataset containing 74 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Bolivia (Plurinational State of)",
 "TaxonKey is Panthera onca (Linnaeus, 1758)"
 ]
}

 The dataset includes 74 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013463-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wpcuug
title: Occurrence Download

description: A dataset containing 1999 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United States of America",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "or" : [
 "TaxonKey is Viola rostrata Pursh",
 "TaxonKey is Viola pedata L."
 ]
 },
 "Year 2010-2020"
 ]
}

 The dataset includes 1999 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0096338-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3gmfyj
title: Occurrence Download

description: A dataset listing the 1 species recorded in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pseudotsuga japonica (Shiras.) Beissn."
 ]
}

 The dataset's 1 records were derived from 47 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006904-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zh3fje
title: Occurrence Download

description: A dataset containing 59 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Madagascar",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Daubentonia madagascariensis (Gmelin, 1788)"
 ]
}

 The dataset includes 59 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0114026-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hqnzn2
title: Occurrence Download

description: A dataset containing 40 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-67.36267 18.79816,-67.30115 17.70473,-64.26892 17.59586,-64.23376 18.0644,-64.84021 18.15629,-64.76111 18.70661,-67.36267 18.79816))",
 "HasCoordinate is true",
 "TaxonKey is Gymnanthes lucida Sw.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 40 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013465-180824113759888/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uyvgkz
title: Occurrence Download

description: A dataset containing 29 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cordia grandicalyx Oberm."
 ]
}

 The dataset includes 29 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006909-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v2s6sv
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cambarus subterraneus Hobbs Iii, 1993"
 ]
}

 The dataset includes 7 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0140430-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bv8m79
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Acacia nicholsonensis Cuff"
 ]
}

 The dataset includes 13 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0136086-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fgrqwh
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Peru",
 "TaxonKey is Valeriana globularioides Graebn."
 ]
}

 The dataset includes 3 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013466-181003121212138/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.baumf3
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cosmostigma philippinense Schltr."
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006965-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zj5yh7
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Carex capitata Sol.",
 "Year 2020-2021"
 ]
}

 The dataset includes 3 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0223295-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ebm6uz
title: Occurrence Download

description: A dataset containing 106 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Faramea axilliflora DC."
 ]
}

 The dataset includes 106 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013465-190320150433242/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.m9ymcb
title: Occurrence Download

description: A dataset containing 43 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 Nannospalax xanthodon (Nordman, 1840)"
 ]
}

 The dataset includes 43 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006903-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2e9hu8
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pinus cembra L.",
 "HasCoordinate is true",
 "Country is Iceland",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 2000",
 "CoordinateUncertaintyInMeters is less than 10000"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0136088-240321170329656/datasets/export for details.
DOI: 10.15468/dl.hyv1kz
title: Occurrence Download

description: A dataset containing 44435956 species occurrences available in GBIF matching the query:
{
 "Country" : [
 "is Canada"
 ]
}

 The dataset includes 44435956 records from 1298 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013467-180131172636756/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15156/bio/sh1504230.08fu
title: SH1504230.08FU

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/sh2591071.08fu
title: SH2591071.08FU

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/sh2591072.08fu
title: SH2591072.08FU

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/sh1504231.08fu
title: SH1504231.08FU

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/sh1504232.08fu
title: SH1504232.08FU

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/sh1504233.08fu
title: SH1504233.08FU

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/sh2591073.08fu
title: SH2591073.08FU

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.