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

description: A dataset containing 177354 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Human Observation, Machine Observation, Occurrence evidence, Observation)",
 "TaxonKey is one of (Sittasomus griseicapillus (Vieillot, 1818))",
 "Country is one of (Anguilla, Antigua and Barbuda, Argentina, Aruba, Bahamas, Barbados, Belize, Bolivia (Plurinational State of), Bonaire, Sint Eustatius and Saba, Bouvet Island, Brazil, Cayman Islands, Chile, Colombia, Costa Rica, Cuba, Curaçao, Dominica, Dominican Republic, Ecuador, El Salvador, Falkland Islands (Malvinas), French Guiana, Grenada, Guadeloupe, Guatemala, Guyana, Haiti, Honduras, Jamaica, Martinique, Mexico, Montserrat, Nicaragua, Panama, Paraguay, Peru, Puerto Rico, Saint Barthélemy, Saint Kitts and Nevis, Saint Lucia, Saint Martin (French part), Saint Vincent and the Grenadines, Sint Maarten (Dutch part), South Georgia and the South Sandwich Islands, Suriname, Trinidad and Tobago, Turks and Caicos Islands, Uruguay, Venezuela (Bolivarian Republic of), Virgin Islands (British), Virgin Islands (U.S.))"
 ]
}

 The dataset includes 177354 records from 79 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016513-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3rwk8y
title: Occurrence Download

description: A dataset containing 32983 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "OccurrenceStatus is Present",
 "TaxonKey is Dasyprocta punctata Gray, 1842"
 ]
}

 The dataset includes 32983 records from 203 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016533-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25919/dnkm-gx35
title: Annual woody vegetation and canopy cover grids for Tasmania

description: This collection provides annual woody vegetation (&gt; 10 % canopy cover, &gt; 2 m height) and canopy cover (0 – 100%) grids for Tasmania with a spatial resolution of 10 m. This dataset was developed to improve the availability of information suitable for farm-scale analyses of tree cover using publicly available, non-commercial remote sensing data. It enables fine-scale analyses of woody vegetation and canopy cover trends in natural and modified ecosystems across Tasmania between 2017 and 2024.

Note: In response to request, canopy cover grids were developed for Riveaux Road using imagery acquired between November 2018 and mid-January 2019. This enables comparisons of canopy cover before and after the Riveaux Road fire.
DOI: 10.15468/dl.yfgm7w
title: Occurrence Download

description: A dataset containing 7251877 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Artiodactyla"
 ]
}

 The dataset includes 7251877 records from 5803 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016520-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.11290118
title: Variation of and associations with the depth and evenness of sequencing coverage in a sample of archived plastid genomes

description: Depth and evenness of sequencing coverage are considered potential indicators of genome assembly quality. In plastid genomics, where new data generation has outpaced the development of suitable assembly quality indicators, these coverage metrics could offer insights into the quality of plastomes of different sizes, structures, or taxonomic origins. However, the typical variation of sequencing depth and evenness among archived plastid genomes, their variability between plastome partitions, and any association with methodological factors have yet to be evaluated. This study explores the variation of sequencing depth and evenness across a sample of publicly accessible plastid genomes and their potential associations with plastome structure, assembly accuracy, and the methodological provenance of the genome data using statistical tests. Our results indicate significant differences in sequencing depth across the four structural partitions as well as between the coding and non-coding sections of the genomes, a significant correlation between sequencing evenness and the number of ambiguous nucleotides, and a significant difference in sequencing evenness between several DNA sequencing platforms. These findings highlight that many publicly accessible plastid genomes are based on sequence data with highly variable sequencing depth and evenness and that this variation is influenced, at least partially, by genome structure and methodological factors.
DOI: 10.5281/zenodo.11290119
title: Depth and evenness of sequencing coverage are associated with assembly quality, genome structure, and choice of sequencing platform in archived plastid genomes

description: Depth and evenness of sequencing coverage are considered important indicators of assembly quality. In plastid genomics, where new data generation has outstripped the development of suitable assembly quality indicators, these coverage metrics could provide valuable insights into the quality of plastomes of different size, structure, and evolutionary origin. However, the typical variation of sequencing depth and evenness among archived plastid genomes, the differences of these metrics among individual plastome sections, and any associations with methodological factors have yet to be evaluated. This investigation aims to explore the variation of sequencing depth and sequencing evenness across publicly accessible plastid genomes as well as the potential associations that these metrics have with plastome structure, assembly quality, and methodological provenance. Specifically, we assess if sequencing evenness and reduced sequencing depth have significant correlations with, or significant differences among, individual genome sections, assembly quality indicators, the sequencing platforms employed, and the assembly software tools used. To that end, we retrieve published plastid genomes, their sequence reads, and their genome metadata from public sequence databases, measure sequencing depth and evenness across genome partitions and full genome lengths, and test several hypotheses regarding genome structure, assembly quality, and methodological provenance through non-parametric statistical tests. The results of our analyses indicate significant differences in sequencing depth across the four structural partitions as well as between the coding and non-coding sections of the plastid genomes, a significant correlation between sequencing evenness and the number of ambiguous nucleotides per genome, and significant differences in sequencing evenness across various sequencing platforms. Based on these results, we conclude that sequencing depth may have a considerable and possibly systematic variation with the quadripartite structure and the assembly quality of plastid genomes and that sequencing evenness in plastid genomes is likely influenced by the type of sequencing platform employed. The exact manifestation of sequencing depth and evenness among plastid genomes, thus, warrants further research.
DOI: 10.5281/zenodo.11322182
title: Variation of and associations with the depth and evenness of sequencing coverage in a sample of archived plastid genomes

description: Depth and evenness of sequencing coverage are considered potential indicators of genome assembly quality. In plastid genomics, where new data generation has outpaced the development of suitable assembly quality indicators, these coverage metrics could offer insights into the quality of plastomes of different sizes, structures, or taxonomic origins. However, the typical variation of sequencing depth and evenness among archived plastid genomes, their variability between plastome partitions, and any association with methodological factors have yet to be evaluated. This study explores the variation of sequencing depth and evenness across a sample of publicly accessible plastid genomes and their potential associations with plastome structure, assembly accuracy, and the methodological provenance of the genome data using statistical tests. Our results indicate significant differences in sequencing depth across the four structural partitions as well as between the coding and non-coding sections of the genomes, a significant correlation between sequencing evenness and the number of ambiguous nucleotides, and a significant difference in sequencing evenness between several DNA sequencing platforms. These findings highlight that many publicly accessible plastid genomes are based on sequence data with highly variable sequencing depth and evenness and that this variation is influenced, at least partially, by genome structure and methodological factors.
DOI: 10.15468/dl.stw9t9
title: Occurrence Download

description: A dataset containing 5 records in GBIF matching the query:
SELECT
 kingdom,
 kingdomkey,
 phylum,
 phylumkey,
 class,
 classkey,
 "order",
 orderkey,
 family,
 familykey,
 genus,
 genuskey,
 species,
 specieskey,
 "year",
 IF(ISNULL(kingdomkey), NULL, SUM(COUNT(*)) OVER (
 PARTITION BY kingdomkey, "year")) kingdomcount,
 IF(ISNULL(phylumkey), NULL, SUM(COUNT(*)) OVER (
 PARTITION BY phylumkey, "year")) phylumcount,
 IF(ISNULL(classkey), NULL, SUM(COUNT(*)) OVER (
 PARTITION BY classkey, "year")) classcount,
 IF(ISNULL(orderkey), NULL, SUM(COUNT(*)) OVER (
 PARTITION BY orderkey, "year")) ordercount,
 IF(ISNULL(familykey), NULL, SUM(COUNT(*)) OVER (
 PARTITION BY familykey, "year")) familycount,
 IF(ISNULL(genuskey), NULL, SUM(COUNT(*)) OVER (
 PARTITION BY genuskey, "year")) genuscount,
 COUNT(*) occurrences,
 MIN(GBIF_TEMPORALUNCERTAINTY(eventdate, eventtime)) mintemporaluncertainty,
 MIN(COALESCE(coordinateuncertaintyinmeters, 1000)) mincoordinateuncertaintyinmeters
FROM
 occurrence
WHERE
 GBIF_STRINGARRAYCONTAINS(occurrence.classifications['d7dddbf4-2cf0-4f39-9b2a-bb099caae36c'], '7722459', TRUE)
 AND occurrence.hasgeospatialissues = FALSE
 AND NOT GBIF_STRINGARRAYCONTAINS(occurrence.issue, 'TAXON_MATCH_FUZZY', TRUE)
 AND (occurrence.distancefromcentroidinmeters &gt;= 2000.0 OR occurrence.distancefromcentroidinmeters IS NULL)
 AND NOT occurrence.basisofrecord IN ('FOSSIL_SPECIMEN', 'LIVING_SPECIMEN')
 AND occurrence.occurrencestatus = 'PRESENT'
 AND (occurrence.classificationdetails['d7dddbf4-2cf0-4f39-9b2a-bb099caae36c']['specieskey'] &lt;&gt; '' AND occurrence."year" IS NOT NULL)
GROUP BY
 occurrence.kingdom,
 occurrence.kingdomkey,
 occurrence.phylum,
 occurrence.phylumkey,
 occurrence.class,
 occurrence.classkey,
 occurrence."order",
 occurrence.orderkey,
 occurrence.family,
 occurrence.familykey,
 occurrence.genus,
 occurrence.genuskey,
 occurrence.species,
 occurrence.specieskey,
 occurrence."year"

 The dataset's 5 records were derived from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006085-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.855w24
title: Occurrence Download

description: A dataset containing 13263 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lysiloma"
 ]
}

 The dataset includes 13263 records from 294 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006120-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.acgdnp
title: Occurrence Download

description: A dataset containing 875 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (China, Mongolia)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Potentilla tanacetifolia"
 ]
}

 The dataset includes 875 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006122-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fu9fdh
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Geometry POLYGON((101.95 38.4,101.88 38.85,101.67 39.25,101.34 39.55,100.94 39.73,100.49 39.78,100.04 39.7,99.61 39.5,99.26 39.2,99.02 38.85,98.93 38.4,99.02 37.95,99.26 37.6,99.61 37.3,100.04 37.1,100.49 37.02,100.94 37.07,101.34 37.25,101.67 37.55,101.88 37.95,101.95 38.4))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Juglandaceae"
 ]
}

 The dataset includes 4 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006123-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v9jqcr
title: Occurrence Download

description: A dataset containing 34 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Andreadoxa flava",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 34 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006126-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.axxyc8
title: Occurrence Download

description: A dataset containing 141104 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Aedes albopictus)"
 ]
}

 The dataset includes 141104 records from 222 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006095-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8fxvdb
title: Occurrence Download

description: A dataset containing 266 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-21.30256 8.61074,158.30256 8.61074,158.30256 80.38926,-21.30256 80.38926,-21.30256 8.61074))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Potentilla verticillaris"
 ]
}

 The dataset includes 266 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006127-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hd2zjn
title: Occurrence Download

description: A dataset containing 1071252 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is Nepal",
 "DatasetKey is EOD – eBird Observation Dataset",
 "OccurrenceStatus is Present",
 "Year 2020-2026"
 ]
}

 The dataset includes 1071252 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006108-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.er652v
title: Occurrence Download

description: A dataset containing 241 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Angostura bracteata",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 241 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006129-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fp5w7x
title: Occurrence Download

description: A dataset containing 94027124 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Chordata",
 {
 "not" : {
 "ClassKey" : [
 "is one of (Aves, Mammalia, Amphibia)"
 ]
 }
 },
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Occurrence evidence)"
 ]
}

 The dataset includes 94027124 records from 10928 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006089-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wfacr4
title: Occurrence Download

description: A dataset containing 16652368 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-6.29642 34.89713,24.94496 37.49402,26.12536 35.76276,28.48617 35.2906,30.06004 35.52668,30.68959 36.78578,29.43049 37.57271,29.19441 38.67442,31.63392 39.38267,31.94869 40.87785,29.58788 41.4287,27.85662 41.97956,25.57451 43.15996,24.70888 40.95654,22.03329 38.67442,19.4364 39.85483,19.5151 41.90086,17.62645 44.02559,16.20996 43.71082,11.72443 45.04861,10.93749 42.45172,4.16984 38.04487,-4.25038 36.86447,-7.39813 37.41533,-6.29642 34.89713))",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 16652368 records from 2200 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016457-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ce5ge8
title: Occurrence Download

description: A dataset containing 4036 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Inventario de larvas de peces en la región sur del Golfo de California (GAP 81, 85 y 86) y en el Pacífico Tropical Mexicano (GAP 88-91)"
 ]
}

 The dataset includes 4036 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003789-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.hhmgqnkp0
title: Phylogenetic dataset of clade Benthamidia of Cornus for biogeographic analysis of big-bracted dogwoods

description: The big-bracted dogwood clade Benthamidia of Cornus is a typical example
 of the well-known eastern Asia (EA) and North America (NA) floristic
 disjunction, with greater species diversity in EA than in NA. The lineage
 provides an opportunity to explore factors contributing to the plant
 diversity unevenness between EA and NA and test hypotheses on the origin
 of disjunct distribution from a phylogenetic perspective. We generated
 RAD-seq data, conducted phylogenomic and biogeographic analyses for the
 clade with sampling of all species (9) and subspecies (10) currently
 recognized in floras. 
description: # Phylogenetic datasets of clade Benthamidia of Cornus for biogeographic
 analysis of big-bracted dogwoods
 [https://doi.org/10.5061/dryad.hhmgqnkp0](https://doi.org/10.5061/dryad.hhmgqnkp0) ## Description of the data and file structure The datasets include the sequence matrix and the SNP data of the big-bracted dogwoods, the unlinked SNPs dataset of the C. hongkongensis-C. elliptica species complex, and the reduced sequence matrix of 25 samples.
DOI: 10.15468/dl.j537kg
title: Occurrence Download

description: A dataset containing 1133 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cololabis saira",
 "HasCoordinate is true",
 "DecimalLatitude is greater than -90",
 "DecimalLatitude is less than 90",
 "DecimalLongitude is greater than -180",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1950",
 "Year is less than or equal to 2014"
 ]
}

 The dataset includes 1133 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003791-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.7pvmcvf14
title: The coevolution of rostral keratin cover and toothrow distribution in Mesozoic dinosaurs

description: Teeth evolved early in vertebrate evolution, and their morphology reflects
 important specializations in diet and ecology among species. The toothless
 jaws (edentulism) in extant birds likely coevolved with beak keratin,
 which functionally replaced teeth. However, extinct dinosaurs lost teeth
 multiple times independently and exhibited great variation in toothrow
 distribution and beak-like keratin structures. Here, we use facial jawbone
 surface texture as a proxy for rostral keratin covering and phylogenetic
 comparative models to test for the influence of facial keratin on toothrow
 distribution in Mesozoic dinosaurs. We find that the evolution of rostral
 keratin covering explains partial toothrow reduction but not jaw
 toothlessness. Toothrow reduction preceded the evolution of rostral
 keratin cover in theropods. Non-theropod dinosaurs evolved continuous
 toothrows despite rostral keratin cover (e.g., some ornithischians and
 sauropodomorphs). We also show that rostral keratin cover did not
 significantly increase the evolutionary rate of tooth loss, which further
 delineates the antagonistic relationship between these structures. Our
 results suggest that the evolution of rostral keratin had a limited effect
 on suppressing tooth development. Independent changes in jaw development
 may have facilitated further tooth loss. Furthermore, the evolution of
 strong chemical digestion, a gizzard, and a dietary shift to omnivory or
 herbivory likely alleviated selective pressures for tooth
 development. 
description: # The coevolution of rostral keratin cover and toothrow distribution in
 Mesozoic Dinosaurs ##
 Description of the data and file structure SM3.xlsx file data used for the
 analyses as detailed in Aguilar-Pedrayes et al. and cited references. We
 look at the evolutionary relationship between toothrow states and rostral
 keratin cover bone proxies in Mesozoic dinosaurs (Theropoda,
 Sauropodomorpha, Ornithischia) . Paper published in Proceedings of the
 Royal Society B. ## ##
DOI: 10.5281/zenodo.18354111
title: Metagenomic analyses support the existence of a network of microbial nutritional symbionts in Triatominae bugs

description: The repository includes the supporting data and and raw results of most analyzes.
DOI: 10.5281/zenodo.18354110
title: Metagenomic analyses support the existence of a network of microbial nutritional symbionts in Triatominae bugs

description: The repository includes the supporting data and and raw results of most analyzes.