cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.jgq9fs
title: Occurrence Download

description: A dataset containing 1796 species occurrences available in GBIF matching the query:
{"type":"and","predicates":[{"type":"equals","key":"TAXON_KEY","value":"8113508","matchCase":false},{"type":"equals","key":"OCCURRENCE_STATUS","value":"PRESENT","matchCase":false},{"type":"equals","key":"HAS_COORDINATE","value":"true","matchCase":false},{"type":"equals","key":"HAS_GEOSPATIAL_ISSUE","value":"false","matchCase":false},{"type":"lessThan","key":"COORDINATE_UNCERTAINTY_IN_METERS","value":"10000","matchCase":false},{"type":"in","key":"YEAR","values":["2008","2009","2010","2011","2012","2013","2014","2015","2016","2017","2018","2019","2020","2021","2022","2023","2024"],"matchCase":false},{"type":"in","key":"BASIS_OF_RECORD","values":["LIVING_SPECIMEN","HUMAN OBSERVATION","OBSERVATION","OCCURRENCE","MACHINE_OBSERVATION"],"matchCase":false}]}

 The dataset includes 1796 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001503-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vepct3
title: Occurrence Download

description: A dataset containing 71 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ichthyoelephas humeralis (Günther, 1860)"
 ]
}

 The dataset includes 71 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001505-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wp8grx
title: Occurrence Download

description: A dataset containing 299 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Caragana aurantiaca Koehne"
 ]
}

 The dataset includes 299 records from 44 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001506-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10369093
title: The Metagenome-Assembled Genome Inventory for Children (MAGIC)

description: Existing microbiota databases are biased towards adult samples, hampering accurate profiling of the infant gut microbiome. Here, we generated a **M**etagenome-**A**ssembled **G**enome **I**nventory for **C**hildren (**MAGIC**) from a large collection of bulk and viral-like particle-enriched metagenomes from 0-7 years of age, encompassing `3,299` prokaryotic and `139,624` viral species-level genomes, `8.5%` and `63.9%` of which are unique to MAGIC. MAGIC improves early-life microbiome profiling, with the greatest improvement in read mapping observed in Africans. We then identified `54` candidate keystone species, including several *Bifidobacterium spp.* and four phages, forming guilds that fluctuated in abundance with time. Their abundances were reduced in preterm infants and were associated with childhood allergies. By analyzing the *B. longum* pangenome, we found evidence of phage-mediated evolution and quorum sensing-related ecological adaptation. Together, the MAGIC database recovers genomes that enable characterization of dynamics of early-life microbiomes, identification of candidate keystone species, and strain-level study of target species.
DOI: 10.5281/zenodo.12743072
title: The Metagenome-Assembled Genome Inventory for Children (MAGIC)

description: Early-life gut microbiomes are implicated in health and diseases. However, existing databases had excessive adult microbiomes as input that hampers infant gut microbiome profiling. Here, we collected 19,494 early-life (0-7 years) gut metagenomes to generate the Metagenome-Assembled Genome Inventory for Children (MAGIC). MAGIC contains great genomic novelty, as 9.0% (279) of the bacterial species genomes, 78.9% (110,153) of the viral species genomes and 52.7% (5,036,208) of the proteins were not reported previously. This database improves early-life microbiome profiling, especially for samples collected from low-income countries. We found Africans have distinct gut bacteriome and virome profiles from those of other continents. We also identified 54 keystone species, forming guilds that fluctuate in abundance with time. Their abundances are reduced in preterm infants and are implicated in onsets of childhood diseases. In conclusion, the MAGIC database recovers previously uncharted genomic information, and enables accurate and comprehensive virome-inclusive studies of early-life gut microbiomes.
DOI: 10.5281/zenodo.12747499
title: The Metagenome-Assembled Genome Inventory for Children (MAGIC)

description: Early-life gut microbiomes are implicated in health and diseases. However, existing databases had excessive adult microbiomes as input that hampers infant gut microbiome profiling. Here, we collected 19,494 early-life (0-7 years) gut metagenomes to generate the Metagenome-Assembled Genome Inventory for Children (MAGIC). MAGIC contains great genomic novelty, as 9.0% (279) of the bacterial species genomes, 78.9% (110,153) of the viral species genomes and 52.7% (5,036,208) of the proteins were not reported previously. This database improves early-life microbiome profiling, especially for samples collected from low-income countries. We found Africans have distinct gut bacteriome and virome profiles from those of other continents. We also identified 54 keystone species, forming guilds that fluctuate in abundance with time. Their abundances are reduced in preterm infants and are implicated in onsets of childhood diseases. In conclusion, the MAGIC database recovers previously uncharted genomic information, and enables accurate and comprehensive virome-inclusive studies of early-life gut microbiomes.
DOI: 10.5281/zenodo.13845890
title: The Metagenome-Assembled Genome Inventory for Children (MAGIC)

description: Existing microbiota databases are biased towards adult samples, hampering accurate profiling of the infant gut microbiome. Here, we generated a Metagenome-Assembled Genome Inventory for Children (MAGIC) from a large collection of bulk and viral-like particle-enriched metagenomes from 0-7 years of age, encompassing 3,299 prokaryotic and 139,624 viral species-level genomes, 8.5% and 63.9% of which are novel. MAGIC improves early-life microbiome profiling, with the greatest improvement in read mapping observed in Africans. We then identified 54 candidate keystone species, including several Bifidobacterium spp. and four phages, forming guilds that fluctuated in abundance with time. Their abundances were reduced in preterm infants and were associated with childhood allergies. By analyzing the B. longum pangenome, we found evidence of phage-mediated evolution and quorum sensing-related ecological adaptation. Together, the MAGIC database recovers previously uncharted genomes that enable characterization of dynamics of early-life microbiomes, identification of candidate keystone species, and strain-level study of target species.
DOI: 10.5281/zenodo.13927808
title: The Metagenome-Assembled Genome Inventory for Children (MAGIC)

description: Existing microbiota databases are biased towards adult samples, hampering accurate profiling of the infant gut microbiome. Here, we generated a Metagenome-Assembled Genome Inventory for Children (MAGIC) from a large collection of bulk and viral-like particle-enriched metagenomes from 0-7 years of age, encompassing 3,299 prokaryotic and 139,624 viral species-level genomes, 8.5% and 63.9% of which are novel. MAGIC improves early-life microbiome profiling, with the greatest improvement in read mapping observed in Africans. We then identified 54 candidate keystone species, including several Bifidobacterium spp. and four phages, forming guilds that fluctuated in abundance with time. Their abundances were reduced in preterm infants and were associated with childhood allergies. By analyzing the B. longum pangenome, we found evidence of phage-mediated evolution and quorum sensing-related ecological adaptation. Together, the MAGIC database recovers previously uncharted genomes that enable characterization of dynamics of early-life microbiomes, identification of candidate keystone species, and strain-level study of target species.
DOI: 10.5281/zenodo.13985446
title: The Metagenome-Assembled Genome Inventory for Children (MAGIC)

description: Existing microbiota databases are biased towards adult samples, hampering accurate profiling of the infant gut microbiome. Here, we generated a Metagenome-Assembled Genome Inventory for Children (MAGIC) from a large collection of bulk and viral-like particle-enriched metagenomes from 0-7 years of age, encompassing 3,299 prokaryotic and 139,624 viral species-level genomes, 8.5% and 63.9% of which are novel. MAGIC improves early-life microbiome profiling, with the greatest improvement in read mapping observed in Africans. We then identified 54 candidate keystone species, including several Bifidobacterium spp. and four phages, forming guilds that fluctuated in abundance with time. Their abundances were reduced in preterm infants and were associated with childhood allergies. By analyzing the B. longum pangenome, we found evidence of phage-mediated evolution and quorum sensing-related ecological adaptation. Together, the MAGIC database recovers previously uncharted genomes that enable characterization of dynamics of early-life microbiomes, identification of candidate keystone species, and strain-level study of target species.
DOI: 10.5281/zenodo.13989345
title: The Metagenome-Assembled Genome Inventory for Children (MAGIC)

description: Existing microbiota databases are biased towards adult samples, hampering accurate profiling of the infant gut microbiome. Here, we generated a **M**etagenome-**A**ssembled **G**enome **I**nventory for **C**hildren (**MAGIC**) from a large collection of bulk and viral-like particle-enriched metagenomes from 0-7 years of age, encompassing `3,299` prokaryotic and `139,624` viral species-level genomes, `8.5%` and `63.9%` of which are unique to MAGIC. MAGIC improves early-life microbiome profiling, with the greatest improvement in read mapping observed in Africans. We then identified `54` candidate keystone species, including several *Bifidobacterium spp.* and four phages, forming guilds that fluctuated in abundance with time. Their abundances were reduced in preterm infants and were associated with childhood allergies. By analyzing the *B. longum* pangenome, we found evidence of phage-mediated evolution and quorum sensing-related ecological adaptation. Together, the MAGIC database recovers genomes that enable characterization of dynamics of early-life microbiomes, identification of candidate keystone species, and strain-level study of target species.
DOI: 10.15468/dl.zje55w
title: Occurrence Download

description: A dataset containing 11278 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Mormoopidae, Phyllostomidae, Vespertilionidae, Molossidae)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "Country is one of (United States of America, Canada, Mexico, Bahamas, Belize, Costa Rica, Cuba, Dominican Republic, Greenland, Guatemala, Honduras, Haiti, Jamaica, Nicaragua, Panama, Puerto Rico, El Salvador, Trinidad and Tobago)",
 "Month is one of (June, July, August)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1990",
 "CoordinateUncertaintyInMeters is less than 999",
 "ScientificName is not null",
 "DecimalLongitude is not null",
 "DecimalLatitude is not null"
 ]
}

 The dataset includes 11278 records from 61 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0212924-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pw64qm
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Amphisbaena frontalis Vanzolini, 1991"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0281113-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xrpwq3
title: Occurrence Download

description: A dataset listing the 1 species recorded in GBIF matching the query:
{
 "TaxonKey" : [
 "is Batrachochytrium dendrobatidis Longcore, Pessier & D.K.Nichols"
 ]
}

 The dataset's 1 records were derived from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0036727-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ar5dnp
title: Occurrence Download

description: A dataset containing 552 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cyclodomorphus praealtus Shea, 1995"
 ]
}

 The dataset includes 552 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0276022-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fqqw6v
title: Occurrence Download

description: A dataset containing 593 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ceiba samauma (Mart. & Zucc.) Schum."
 ]
}

 The dataset includes 593 records from 70 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022645-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rezypa
title: Occurrence Download

description: A dataset containing 701 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lophosaurus spinipes (Duméril, 1851)"
 ]
}

 The dataset includes 701 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0276014-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qks8hr
title: Occurrence Download

description: A dataset containing 150 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is India",
 "TaxonKey is Strychnos nux-vomica L."
 ]
}

 The dataset includes 150 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037084-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gmxsea
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ceratophora karu Pethiyagoda & Manamendra-Arachchi, 1998"
 ]
}

 The dataset includes 8 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0276027-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rfcu8v
title: Occurrence Download

description: A dataset containing 4401 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ligiidae",
 "Continent is one of (North America, South America)"
 ]
}

 The dataset includes 4401 records from 72 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023976-230810091245214/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ct2erd
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-2.2261 36.70807,-1.75552 36.70807,-1.75552 37.25189,-2.2261 37.25189,-2.2261 36.70807))",
 "HasCoordinate is true",
 {
 "or" : [
 "Issue is Geodetic datum assumed WGS84",
 "Issue is Coordinate reprojected",
 "Issue is Country derived from coordinates"
 ]
 },
 "OccurrenceStatus is Present",
 "TaxonKey is Quercus pyrenaica Willd."
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0276017-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zg2b9s
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Tropaeolum myriophyllum (Poepp. & Endl.) Sparre"
 ]
}

 The dataset includes 27 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024007-230810091245214/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5gmsdg
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cyrtodactylus kazirangaensis Agarwal, Mahony, Giri, Chaitanya & Bauer, 2018"
 ]
}

 The dataset includes 5 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0281112-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.56ybzb
title: Occurrence Download

description: A dataset containing 883702 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Country is one of (Canada, Mexico, United States of America)",
 "EventDate is greater than or equal to 2023-07-03",
 "EventDate is less than or equal to 2023-08-02",
 {
 "not" : {
 "Issue" : [
 "is one of (Basis of record invalid, Coordinate reprojection failed, Coordinate reprojection suspicious, Coordinate precision invalid, Coordinate uncertainty meters invalid, Country mismatch, Country invalid, Geodetic datum invalid, Presumed swapped coordinate, Presumed negated longitude, Presumed negated latitude, Country coordinate mismatch)"
 ]
 }
 }
 ]
}

 The dataset includes 883702 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000322-230828120925497/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jybgbz
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Bothrocophias myersi Gutberlet & Campbell, 2001"
 ]
}

 The dataset includes 32 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0281114-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.exf2vr
title: Occurrence Download

description: A dataset containing 28 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Eucopiidae",
 "Continent is one of (North America, South America)"
 ]
}

 The dataset includes 28 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024021-230810091245214/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4f6d8p
title: Occurrence Download

description: A dataset containing 139 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Crotalus culminatus Klauber, 1952"
 ]
}

 The dataset includes 139 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0366830-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wjcu4w
title: Occurrence Download

description: A dataset containing 155833 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Continent is North America",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Carnivora"
 ]
}

 The dataset includes 155833 records from 169 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013117-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6br4yy
title: Occurrence Download

description: A dataset containing 949 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United States of America",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Casuarina equisetifolia L."
 ]
}

 The dataset includes 949 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0212936-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xwebdp
title: Occurrence Download

description: A dataset containing 33405298 species occurrences available in GBIF matching the query:
(Query is too complex. Can be viewed on the landing page)

 The dataset includes 33405298 records from 6028 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022887-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qgghft
title: Occurrence Download

description: A dataset containing 68 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Liparis tridens Kraenzl."
 ]
}

 The dataset includes 68 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011449-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uab74v
title: Occurrence Download

description: A dataset containing 13868 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Belgium",
 "GadmGid is BEL.3_1",
 "TaxonKey is Turdus merula Linnaeus, 1758"
 ]
}

 The dataset includes 13868 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0195704-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.k776zw
title: Occurrence Download

description: A dataset containing 368 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Orchis galilaea (Bornm. & M.Schulze) Schltr."
 ]
}

 The dataset includes 368 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0054053-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qbp25d
title: Occurrence Download

description: A dataset containing 556911 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Spain",
 "TaxonKey is Fungi"
 ]
}

 The dataset includes 556911 records from 225 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0229590-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.