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

description: A dataset containing 1344 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hypoestes triflora (Forssk.) Roem. & Schult."
 ]
}

 The dataset includes 1344 records from 73 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0030424-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cwl9y0
title: Occurrence Download

description: A dataset containing 2523 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Basiliscus vittatus Wiegmann, 1828",
 "Geometry POLYGON((-111.79 13.41,-111.79 28.43,-86.43 28.43,-86.43 13.41,-111.79 13.41))",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 2523 records from 31 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008453-160118175350007/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2b4hc9
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Adenia mossambicensis W.J.de Wilde"
 ]
}

 The dataset includes 3 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015894-240216155721649/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.96kpey
title: Occurrence Download

description: A dataset containing 109 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Indigofera aspalathoides Vahl ex DC."
 ]
}

 The dataset includes 109 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0030476-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ifjbk8
title: Occurrence Download

description: A dataset containing 1343 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Muscisaxicola maculirostris Orbigny & Lafresnaye, 1837",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1343 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008453-160311141623029/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8tpv8m
title: Occurrence Download

description: A dataset containing 114 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((90 65.31829, 96 65.31829, 96 66.62581, 90 66.62581, 90 65.31829))"
 ]
}

 The dataset includes 114 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041588-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9zqgr2
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Horsfieldia punctata W.J.de Wilde"
 ]
}

 The dataset includes 4 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0030506-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qb2u5n
title: Occurrence Download

description: A dataset containing 129776 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "Geometry POLYGON((-98.62 14.55,-98.62 16.66,-95.17 16.66,-95.17 14.55,-98.62 14.55))"
 ]
}

 The dataset includes 129776 records from 279 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008453-160526112335914/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.28738857
title: Additional file 2 of Candidate Phyla Radiation (CPR) bacteria from hyperalkaline ecosystems provide novel insight into their symbiotic lifestyle and ecological implications

description: Additional file 2 : Table S1. Sampling and sequencing information for metagenomic data used in this study, including geographic locations, sequencing platform, data size, NCBI accession numbers, and source references. Table S2. List of bacterial strains and plasmids used in this study. Table S3. Characteristics for 38 MAGs, including quality, taxonomic assignment based on GTDB taxonomy. Table S4. Average amino acid identity (AAI) between our reconstructed CPR MAGs and reference CPR genomes from GTDB. Table S5. List of genes assigned to metabolic features of the 12 CPR MAGs. Table S6. Co-occurrence network showed that positive connections between CPR and non-CPR MAGs detected in this study. Table S7. Relative abundance (expressed as TPM values) and genome coverage for the hyperalkaline MAGs in each metagenome. Table S8. Presence and absence of the genes associated with element cycling (e.g., C, N, S, and O). Table S9. The index of replication (iRep) values for the MAGs reconstructed in the metagenomes. Table S10. Immediate genomic context for the scaffold harboring folA or thyA of the CPR bacteria and their potential THF-auxotrophic hosts. Table S11. The distribution of the folA and thyA genes in all Thermodesulfovibrionales (n = 226) and CSP1-3 (n = 44) genomes from GTDB (Release 220). Table S12. Potential transporters of folate molecules in the genomes of CPR and their auxotrophic hosts. Table S13. Classification and metabolic potential of folate cofactors of CPR genomes from this study and GTDB database.
DOI: 10.6084/m9.figshare.28738857.v1
title: Additional file 2 of Candidate Phyla Radiation (CPR) bacteria from hyperalkaline ecosystems provide novel insight into their symbiotic lifestyle and ecological implications

description: Additional file 2 : Table S1. Sampling and sequencing information for metagenomic data used in this study, including geographic locations, sequencing platform, data size, NCBI accession numbers, and source references. Table S2. List of bacterial strains and plasmids used in this study. Table S3. Characteristics for 38 MAGs, including quality, taxonomic assignment based on GTDB taxonomy. Table S4. Average amino acid identity (AAI) between our reconstructed CPR MAGs and reference CPR genomes from GTDB. Table S5. List of genes assigned to metabolic features of the 12 CPR MAGs. Table S6. Co-occurrence network showed that positive connections between CPR and non-CPR MAGs detected in this study. Table S7. Relative abundance (expressed as TPM values) and genome coverage for the hyperalkaline MAGs in each metagenome. Table S8. Presence and absence of the genes associated with element cycling (e.g., C, N, S, and O). Table S9. The index of replication (iRep) values for the MAGs reconstructed in the metagenomes. Table S10. Immediate genomic context for the scaffold harboring folA or thyA of the CPR bacteria and their potential THF-auxotrophic hosts. Table S11. The distribution of the folA and thyA genes in all Thermodesulfovibrionales (n = 226) and CSP1-3 (n = 44) genomes from GTDB (Release 220). Table S12. Potential transporters of folate molecules in the genomes of CPR and their auxotrophic hosts. Table S13. Classification and metabolic potential of folate cofactors of CPR genomes from this study and GTDB database.
DOI: 10.6084/m9.figshare.28738859
title: Additional file 2 of Environmental drivers of the resistome across the Baltic Sea

description: Additional file 2 (Supplementary-Tables.xls): Supplementary Table S1 Metadata: Sample information and environmental factors from Broman et al. (2022). Metagenomics sequence codes, site descriptors, i.e. region, station, haversine distance (km), coordinates, and physicochemical factors, i.e., water depth (m), salinity, temperature, dissolved O2 (mg/L), concentrations of total carbon (TC) and total nitrogen (TN) (µmol/g), and their ratio—C/N, and isotopic signatures, i.e., stable 13C and 15N isotope compositions (‰). Supplementary Table S2 Metagenomics data processing information: Sequence codes, raw read counts, quality-filtered and adapter trimmed, contaminant filtered, error corrected read counts, and contig assembly stat values. Supplementary Table S3 Relative abundance table of the microbial community based on mOTUs profiler. Supplementary Table S4 Comparison of methods for antimicrobial resistance gene (ARG) profiling. Supplementary Table S5 Antimicrobial resistance gene (ARG) data: Reads per kilobase million (RPKM) absolute counts. Supplementary Table S6 Mobile resistance gene (MRG) data: RPKM absolute counts. Supplementary Table S7 Mobile genetic elements (MGE) data: RPKM absolute counts. Supplementary Table S8 Virulence factor gene (VFG) data: RPKM absolute counts. Supplementary Table S9 Differential abundance test by Random Forests for ARG subtypes per region. Supplementary Table S10 Antimicrobial resistance genes (ARG) alpha diversity estimates per sample. Supplementary Table S11 Statistical results of Levene’s test for homogeneity of variance of the alpha diversity estimates. Supplementary Table S12 Statistical results of the permutation test for homogeneity of multivariate dispersions and permutation test for adonis under a reduced model for the microbial composition, ARG, MRG, MGE, and VFG data. Supplementary Table S13 Differential abundance test by Random Forests for the species per region. Supplementary Table S14 Summary statistics of the partial least squares path model (PLS-PM) in R of the latent variables—microbial communities, MGEs, VFGs, ARGs, and MRGs. Supplementary Table S15 Statistical results of the Procrustes analysis in R of ARG composition based on Bray-Curtis distance against the microbial communities, MRGs, MGEs, and VFGs. Supplementary Table S16 Statistical results of the Mantel test in R of ARG composition based on Bray-Curtis distance against the microbial communities, MRGs, MGEs, and VFGs. Supplementary Table S17 Statistical results of the General additive models (GAMs) in R of the alpha diversity and environmental factors. Supplementary Table S18 Statistical results of the permutation test for dbRDA analyses in R of the ARG composition and environmental factors. Supplementary Table S19 Spearman’s rank correlation between ARG alpha diversity metrics and environmental factors.
DOI: 10.6084/m9.figshare.28738859.v1
title: Additional file 2 of Environmental drivers of the resistome across the Baltic Sea

description: Additional file 2 (Supplementary-Tables.xls): Supplementary Table S1 Metadata: Sample information and environmental factors from Broman et al. (2022). Metagenomics sequence codes, site descriptors, i.e. region, station, haversine distance (km), coordinates, and physicochemical factors, i.e., water depth (m), salinity, temperature, dissolved O2 (mg/L), concentrations of total carbon (TC) and total nitrogen (TN) (µmol/g), and their ratio—C/N, and isotopic signatures, i.e., stable 13C and 15N isotope compositions (‰). Supplementary Table S2 Metagenomics data processing information: Sequence codes, raw read counts, quality-filtered and adapter trimmed, contaminant filtered, error corrected read counts, and contig assembly stat values. Supplementary Table S3 Relative abundance table of the microbial community based on mOTUs profiler. Supplementary Table S4 Comparison of methods for antimicrobial resistance gene (ARG) profiling. Supplementary Table S5 Antimicrobial resistance gene (ARG) data: Reads per kilobase million (RPKM) absolute counts. Supplementary Table S6 Mobile resistance gene (MRG) data: RPKM absolute counts. Supplementary Table S7 Mobile genetic elements (MGE) data: RPKM absolute counts. Supplementary Table S8 Virulence factor gene (VFG) data: RPKM absolute counts. Supplementary Table S9 Differential abundance test by Random Forests for ARG subtypes per region. Supplementary Table S10 Antimicrobial resistance genes (ARG) alpha diversity estimates per sample. Supplementary Table S11 Statistical results of Levene’s test for homogeneity of variance of the alpha diversity estimates. Supplementary Table S12 Statistical results of the permutation test for homogeneity of multivariate dispersions and permutation test for adonis under a reduced model for the microbial composition, ARG, MRG, MGE, and VFG data. Supplementary Table S13 Differential abundance test by Random Forests for the species per region. Supplementary Table S14 Summary statistics of the partial least squares path model (PLS-PM) in R of the latent variables—microbial communities, MGEs, VFGs, ARGs, and MRGs. Supplementary Table S15 Statistical results of the Procrustes analysis in R of ARG composition based on Bray-Curtis distance against the microbial communities, MRGs, MGEs, and VFGs. Supplementary Table S16 Statistical results of the Mantel test in R of ARG composition based on Bray-Curtis distance against the microbial communities, MRGs, MGEs, and VFGs. Supplementary Table S17 Statistical results of the General additive models (GAMs) in R of the alpha diversity and environmental factors. Supplementary Table S18 Statistical results of the permutation test for dbRDA analyses in R of the ARG composition and environmental factors. Supplementary Table S19 Spearman’s rank correlation between ARG alpha diversity metrics and environmental factors.
DOI: 10.15468/dl.dgwr7c
title: Occurrence Download

description: A dataset containing 735 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is China",
 "TaxonKey is Zea mays L."
 ]
}

 The dataset includes 735 records from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007718-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yycskh
title: Occurrence Download

description: A dataset containing 39656 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Carassius carassius (Linnaeus, 1758)"
 ]
}

 The dataset includes 39656 records from 300 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008712-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f9r68r
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rumex acetosella Holl"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008713-250127130748423/datasets/export for details.
DOI: 10.5281/zenodo.14789029
title: Dataset of article: "Associations Between Rest-Activity Rhythm Characteristics and Obesity Indicators in Adolescents"

description: Dataset of article: "Associations Between Rest-Activity Rhythm Characteristics and Obesity Indicators in Adolescents"

Date of Data Collection: 2018-2023

Geographic Location of Data Collection: Czech Republic, Europe
DOI: 10.15468/dl.bcduuk
title: Occurrence Download

description: A dataset containing 38125 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Symphyotrichum novae-angliae (L.) G.L.Nesom"
 ]
}

 The dataset includes 38125 records from 403 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008714-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ucuwkr
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rumex acetosella Holl ex Meisn."
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008715-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fx8d3j
title: Occurrence Download

description: A dataset containing 108627 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lymantria dispar Linnaeus, 1758"
 ]
}

 The dataset includes 108627 records from 728 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008710-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5es8jt
title: Occurrence Download

description: A dataset containing 38146 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Baccharis halimifolia L."
 ]
}

 The dataset includes 38146 records from 453 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008716-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15156/bio/sh0173658.10fu
title: SH0173658.10FU

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/sh0173659.10fu
title: SH0173659.10FU

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/sh0173660.10fu
title: SH0173660.10FU

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/sh0173661.10fu
title: SH0173661.10FU

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/sh0173662.10fu
title: SH0173662.10FU

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/sh0173663.10fu
title: SH0173663.10FU

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.