Versioned Archive and Review of Biotic Interactions and Taxon Names Found within globalbioticinteractions/dorey2023 hash://md5/dfc653904fa4d12bc44bf6f9f36a93d1 by Nomer, Elton and Preston, three naive review bots review@globalbioticinteractions.org https://globalbioticinteractions.org/contribute 4 6 2026

Life on Earth is sustained by complex interactions between organisms and their environment. These biotic interactions can be captured in datasets and published digitally. We present a review and archiving process for such an openly accessible digital interactions dataset of known origin and discuss its outcome. The dataset under review, named globalbioticinteractions/dorey2023, has fingerprint hash://md5/dfc653904fa4d12bc44bf6f9f36a93d1, is 666MiB in size and contains 25,696 interactions with 4 unique types of associations (e.g., hasHost) between 1,125 primary taxa (e.g., Leioproctus leai (Cockerell, 1913)) and 2,192 associated taxa (e.g., Myrtaceae Eucalyptus). This report includes detailed summaries of interaction data, a taxonomic review from multiple catalogs, and an archived version of the dataset from which the reviews are derived.

 Introduction Data Review and Archive

Data review and archiving can be a time-consuming process, especially when done manually. This review report aims to help facilitate both activities. It automates the archiving of datasets, including Darwin Core archives, and is a citable backup of a version of the dataset. Additionally, an automatic review of species interaction claims made in the dataset is generated and registered with Global Biotic Interactions (J. H. Poelen, Simons, and Mungall 2014).

This review includes summary statistics about, and observations about, the dataset under review :

Dorey, J.B., Fischer, E.E., Chesshire, P.R. et al. A globally synthesised and flagged bee occurrence dataset and cleaning workflow. Sci Data 10, 747 (2023). https://doi.org/10.1038/s41597-023-02626-w https://github.com/globalbioticinteractions/dorey2023/archive/ee2f9f138a5c4464fc8edc69c39507d20fe4a0f4.zip 2026-06-02T14:45:56.245Z hash://md5/dfc653904fa4d12bc44bf6f9f36a93d1

 Methods

The review is performed through programmatic scripts that leverage tools like Preston (Elliott et al. 2025), Elton (Kuhn, Poelen, and Leinweber 2025), Nomer (Salim and Poelen 2025), globinizer (J. Poelen, Seltmann, and Mietchen 2024) combined with third-party tools like grep, mlr, tail and head.

Tools used in this review process

tool name version
preston 0.11.1
elton 0.16.11
nomer 0.6.5
globinizer 0.4.0
mlr 6.0.0
jq 1.6
yq 4.25.3
pandoc 3.1.6.1
duckdb 1.3.1
mapserver 7.6.4

The review process can be described in the form of the script below 1.

# get versioned copy of the dataset (size approx. 666MiB) under review elton pull globalbioticinteractions/dorey2023 # generate review notes elton review globalbioticinteractions/dorey2023 \ > review.tsv # export indexed interaction records elton interactions globalbioticinteractions/dorey2023 \ > interactions.tsv # export names and align them with the Catalogue of Life using Nomer elton names globalbioticinteractions/dorey2023 \ | nomer append col \ > name-alignment.tsv

or visually, in a process diagram.

Review Process Overview

You can find a copy of the full review script at check-data.sh. See also GitHub and Codeberg.

 Results

In the following sections, the results of the review are summarized 2. Then, links to the detailed review reports are provided.

Files

An extensive list of files produced as part of the review process can be found in Appendix A. Review Files.

 Archived Dataset

Note that data.zip file in this archive contains the complete, unmodified archived dataset under review.

 Biotic Interactions

Biotic Interaction Data Model

In this review, biotic interactions (or biotic associations) are modeled as a primary (aka subject, source) organism interacting with an associate (aka object, target) organism. The dataset under review classified the primary/associate organisms with specific taxa. The primary and associate organisms The kind of interaction is documented as an interaction type.

The dataset under review, named globalbioticinteractions/dorey2023, has fingerprint hash://md5/dfc653904fa4d12bc44bf6f9f36a93d1, is 666MiB in size and contains 25,696 interactions with 4 unique types of associations (e.g., hasHost) between 1,125 primary taxa (e.g., Leioproctus leai (Cockerell, 1913)) and 2,192 associated taxa (e.g., Myrtaceae Eucalyptus).

An exhaustive list of indexed interaction claims can be found in gzipped csv, tsv, geopackage and parquet archives. To facilitate discovery, a preview of claims available in the gzipped html page at indexed-interactions.html.gz are shown below.

The exhaustive list was used to create the following data summaries below.

Sample of Indexed Interaction Claims

sourceTaxonName interactionTypeName targetTaxonName referenceCitation
Euryglossa allunga (Exley, 2001) hasHost Proteaceae Banksia prionotes 1996.
Euryglossa atra Exley, 1998 hasHost Myoporaceae Eremophila 1981.
Euryglossa atra Exley, 1998 hasHost Myoporaceae Eremophila 1981.
Euryglossa aureophila Houston, 1992 hasHost Myrtaceae Verticordia aurea 1990.

Most Frequently Mentioned Interaction Types (up to 20 most frequent)

interactionTypeName count
hasHost 16961
interactsWith 8451
adjacentTo 264
visitsFlowersOf 20

Most Frequently Mentioned Primary Taxa (up to 20 most frequent)

sourceTaxonName count
Leioproctus leai (Cockerell, 1913) 2542
Bombus bifarius Cresson, 1878 1303
Bombus flavifrons Cresson, 1863 623
Bombus mixtus Cresson, 1878 442
Bombus huntii Greene, 1860 406
Bombus occidentalis Greene, 1858 383
Hylaeus proximus (Smith, 1879) 362
Bombus centralis Cresson, 1864 355
Lasioglossum erythrurum (Cockerell, 1914) 353
Austronomia flavoviridis (Cockerell, 1905) 308
Lasioglossum urbanum (Smith, 1879) 307
Lasioglossum dotatum (Cockerell, 1912) 301
Bombus vosnesenskii Radoszkowski, 1862 290
Xanthesma furcifera (Cockerell, 1913) 283
Lasioglossum florale (Smith, 1853) 272
Exoneura pictifrons Alfken, 1907 268
Lasioglossum appositum (Rayment, 1939) 252
Lasioglossum vitripenne (Smith, 1879) 237
Bombus hypnorum (Linnaeus, 1758) 216

Most Frequently Mentioned Associate Taxa (up to 20 most frequent)

targetTaxonName count
Myrtaceae Eucalyptus 3394
Myrtaceae Melaleuca 636
Proteaceae Hakea 521
Cirsium sp. 470
Myoporaceae Eremophila 435
Lupinus sp. 386
Trifolium sp. 297
Sapindaceae Atalaya hemiglauca 270
Epilobium parviflorum 267
Epilobium angustifolium 261
Melilotus alba 254
Myrtaceae Kunzea ericoides 245
Campanulaceae Wahlenbergia 236
Symphoricarpos albus 232
Myrtaceae Melaleuca lanceolata 185
Vicia sp. 182
Aster sp. 181
Geranium sp. 170
Mimosaceae Acacia 164

Most Frequent Interactions between Primary and Associate Taxa (up to 20 most frequent)

sourceTaxonName interactionTypeName targetTaxonName count
Leioproctus leai (Cockerell, 1913) hasHost Proteaceae Hakea 306
Xanthesma furcifera (Cockerell, 1913) hasHost Myrtaceae Eucalyptus 283
Bombus bifarius Cresson, 1878 interactsWith Lupinus sp. 199
Bombus occidentalis Greene, 1858 interactsWith Melilotus alba 191
Bombus bifarius Cresson, 1878 interactsWith Trifolium sp. 148
Pachyprosopis xanthodonta (Cockerell, 1913) hasHost Myrtaceae Eucalyptus 134
Euryglossula fultoni (Cockerell, 1913) hasHost Myrtaceae Eucalyptus 133
Bombus huntii Greene, 1860 interactsWith Cirsium sp. 132
Hylaeus proximus (Smith, 1879) hasHost Myrtaceae Eucalyptus 127
Lasioglossum appositum (Rayment, 1939) hasHost Myrtaceae Eucalyptus 121
Hylaeus elegans (Smith, 1853) hasHost Myrtaceae Eucalyptus 119
Bombus bifarius Cresson, 1878 interactsWith Symphoricarpos albus 114
Lasioglossum erythrurum (Cockerell, 1914) hasHost Myrtaceae Eucalyptus 110
Bombus centralis Cresson, 1864 interactsWith Cirsium sp. 100
Leioproctus leai (Cockerell, 1913) hasHost Myrtaceae Eucalyptus 98
Austronomia flavoviridis (Cockerell, 1905) hasHost Myrtaceae Eucalyptus 97
Lasioglossum vitripenne (Smith, 1879) hasHost Myrtaceae Eucalyptus 95
Hylaeus chlorosoma (Cockerell, 1913) hasHost Myrtaceae Eucalyptus 92
Bombus bifarius Cresson, 1878 interactsWith Aster sp. 91
Interaction Networks

The figures below provide a graph view on the dataset under review. The first shows a summary network on the kingdom level, and the second shows how interactions on the family level. It is important to note that both network graphs were first aligned taxonomically using the Catalogue of Life. Please refer to the original (or verbatim) taxonomic names for a more original view on the interaction data.

Interactions on taxonomic kingdom rank as interpreted by the Catalogue of Life download svg

Interactions on the taxonomic family rank as interpreted by the Catalogue of Life. download svg

You can download the indexed dataset under review at indexed-interactions.csv.gz. A tab-separated file can be found at indexed-interactions.tsv.gz

 Geospatial Distribution

If geospatial information was extracted from the dataset under review, the map below will show their distribution. These maps were generated using MapServer (McKenna et al. 2025) tools configured via map configuration indexed-interactions.map :

MAP SIZE 1600 800 EXTENT -180 -90 180 90 PROJECTION "init=epsg:4326" END LAYER # MODIS WMS map from NASA NAME "modis_nasa" TYPE RASTER OFFSITE 0 0 0 STATUS ON CONNECTIONTYPE WMS CONNECTION "https://gibs.earthdata.nasa.gov/wms/epsg4326/best/wms.cgi?" METADATA "wms_srs" "EPSG:4326" "wms_name" "OSM_Land_Water_Map" "wms_server_version" "1.1.1" "wms_format" "image/jpeg" END CLASS STYLE COLOR 232 232 232 OUTLINECOLOR 32 32 32 END END END LAYER NAME "indexed-interactions" TYPE POLYGON STATUS ON CONNECTIONTYPE OGR CONNECTION "indexed-interactions-h3.gpkg" DATA "indexed-interactions-h3" CLASS STYLE COLORRANGE 253.0 231.0 37.0 32.0 164.0 134.0 DATARANGE 0.3010299956639812 3.1202447955463652 RANGEITEM "log_number_of_records" OUTLINECOLOR 0 0 0 END END END END

Hexagonal grid cells indicate that interactions claims are available for selected geospatial area: light yellow means relatively fewer claims, dark green relatively more claims.

Associated data can be found in the geopackage files at indexed-interactions.gpkg for point data and indexed-interactions-h3.gpkg for data clustered in geospatial h3 hexagonals.

Learn more about the structure of this download at GloBI website, by opening a GitHub issue, or by sending an email.

Another way to discover the dataset under review is by searching for it on the GloBI website.

 Taxonomic Alignment

As part of the review, all names are aligned against various name catalogs (e.g., col, ncbi, discoverlife, gbif, itis, wfo, mdd, tpt, pbdb, and worms). These alignments can help review name usage or aid in selecting of a suitable taxonomic name resource.

Sample of Name Alignments

providedName relationName resolvedCatalogName resolvedName
Abronia latifolia HAS_ACCEPTED_NAME col Abronia latifolia
Abronia maritima HAS_ACCEPTED_NAME col Abronia maritima
Abronia villosa HAS_ACCEPTED_NAME col Abronia villosa
Acacia berlandieri SYNONYM_OF col Senegalia berlandieri

Distribution of Taxonomic Ranks of Aligned Names by Catalog. Names that were not aligned with a catalog are counted as NAs. So, the total number of unaligned names for a catalog will be listed in their NA row.

resolvedCatalogName resolvedRank count
col NA 142
col family 108
col genus 208
col species 1570
col subgenus 4
col subspecies 27
col variety 13
discoverlife NA 929
discoverlife species 1121
gbif NA 131
gbif family 109
gbif genus 208
gbif species 1574
gbif subspecies 32
gbif variety 16
itis NA 201
itis family 105
itis genus 196
itis species 1522
itis subspecies 8
itis variety 19
mdd NA 2050
ncbi NA 844
ncbi family 88
ncbi genus 200
ncbi species 912
ncbi subgenus 3
ncbi subspecies 3
ncbi varietas 2
pbdb NA 1869
pbdb family 103
pbdb genus 72
pbdb species 5
pbdb subfamily 1
tpt NA 2049
tpt genus 1
wfo NA 1247
wfo family 97
wfo genus 201
wfo species 489
wfo subspecies 11
wfo variety 11
worms NA 1674
worms family 65
worms genus 132
worms species 167
worms subspecies 6
worms variety 8

Name relationship types per catalog. Name relationship type “NONE” means that a name was not recognized by the associated catalog. “SAME_AS” indicates either a “HAS_ACCEPTED_NAME” or “SYNONYM_OF” name relationship type. We recognize that “SYNONYM_OF” encompasses many types of nomenclatural synonymies (ICZN 1999) (e.g., junior synonym, senior synonyms).

resolvedCatalogName relationName count
col HAS_ACCEPTED_NAME 2726
col SYNONYM_OF 754
col NONE 154
discoverlife NONE 2196
discoverlife HAS_ACCEPTED_NAME 1142
discoverlife SYNONYM_OF 100
discoverlife HOMONYM_OF 16
gbif HAS_ACCEPTED_NAME 2955
gbif SYNONYM_OF 772
gbif NONE 141
itis HAS_ACCEPTED_NAME 2633
itis SYNONYM_OF 496
itis NONE 237
mdd NONE 3337
ncbi SAME_AS 2110
ncbi SYNONYM_OF 110
ncbi NONE 1132
pbdb NONE 1948
pbdb HAS_ACCEPTED_NAME 1370
pbdb SYNONYM_OF 97
tpt NONE 3336
tpt HAS_ACCEPTED_NAME 1
wfo HAS_ACCEPTED_NAME 1621
wfo SYNONYM_OF 327
wfo NONE 1456
wfo HAS_UNCHECKED_NAME 105
worms NONE 2004
worms HAS_ACCEPTED_NAME 1277
worms SYNONYM_OF 142

List of Available Name Alignment Reports

catalog name alignment results
col associated names alignments report in gzipped html, csv, and tsv)
ncbi associated names alignments report in gzipped html, csv, and tsv)
discoverlife associated names alignments report in gzipped html, csv, and tsv)
gbif associated names alignments report in gzipped html, csv, and tsv)
itis associated names alignments report in gzipped html, csv, and tsv)
wfo associated names alignments report in gzipped html, csv, and tsv)
mdd associated names alignments report in gzipped html, csv, and tsv)
tpt associated names alignments report in gzipped html, csv, and tsv)
pbdb associated names alignments report in gzipped html, csv, and tsv)
worms associated names alignments report in gzipped html, csv, and tsv)
Additional Reviews

Elton, Nomer, and other tools may have difficulties interpreting existing species interaction datasets. Or, they may misbehave, or otherwise show unexpected behavior. As part of the review process, detailed review notes are kept that document possibly misbehaving, or confused, review bots. An sample of review notes associated with this review can be found below.

First few lines in the review notes.

reviewDate reviewCommentType reviewComment
2026-06-04T02:32:36Z note target taxon name missing
2026-06-04T02:32:36Z note target taxon name missing
2026-06-04T02:32:36Z note target taxon name missing
2026-06-04T02:32:36Z note target taxon name missing

In addition, you can find the most frequently occurring notes in the table below.

Most frequently occurring review notes, if any.

reviewComment count
target taxon name missing 472701
found unsupported interaction type with name: [foraging on] 1808
issue handling date range [2019/10/30 00:00:00]: The end instant must be greater than the start instant 694
issue handling date range [1985/08/23 00:00:00]: The end instant must be greater than the start instant 642

For additional information on review notes, please have a look at the first 500 Review Notes in html format or the download full gzipped csv or tsv archives.

 GloBI Review Badge

As part of the review, a review badge is generated. This review badge can be included in webpages to indicate the review status of the dataset under review.

Picture of a GloBI Review Badge 3

Note that if the badge is green, no review notes were generated. If the badge is yellow, the review bots may need some help with interpreting the species interaction data.

 GloBI Index Badge

If the dataset under review has been registered with GloBI, and has been succesfully indexed by GloBI, the GloBI Index Status Badge will turn green. This means that the dataset under review was indexed by GloBI and is available through GloBI services and derived data products.

Picture of a GloBI Index Badge 4

If you’d like to keep track of reviews or index status of the dataset under review, please visit GloBI’s dataset index 5 for badge examples.

 Discussion

This review and archive provides a means of creating citable versions of datasets that change frequently. This may be useful for dataset managers, including natural history collection data managers, as a backup archive of a shared Darwin Core archive. It also serves as a means of creating a trackable citation for the dataset in an automated way, while also including some information about the contents of the dataset.

This review aims to provide a perspective on the dataset to aid in understanding of species interaction claims discovered. However, it is important to note that this review does not assess the quality of the dataset. Instead, it serves as an indication of the open-ness6 and FAIRness (Wilkinson et al. 2016; Trekels et al. 2023) of the dataset: to perform this review, the data was likely openly available, Findable, Accessible, Interoperable and Reusable. The current Open-FAIR assessment is qualitative, and a more quantitative approach can be implemented with specified measurement units.

This report also showcases the reuse of machine-actionable (meta)data, something highly recommended by the FAIR Data Principles (Wilkinson et al. 2016). Making (meta)data machine-actionable enables more precise procesing by computers, enabling even naive review bots like Nomer and Elton to interpret the data effectively. This capability is crucial for not just automating the generation of reports, but also for facilitating seamless data exchanges, promoting interoperability.

 Acknowledgements

We thank the many humans that created us and those who created and maintained the data, software and other intellectual resources that were used for producing this review. In addition, we are grateful for the natural resources providing the basis for these human and bot activities. Also, thanks to https://github.com/zygoballus for helping improve the layout of the review tables.

 Author contributions

Nomer was responsible for name alignments. Elton carried out dataset extraction, and generated the review notes. Preston tracked, versioned, and packaged, the dataset under review.

 Appendix A. Review Files

The following files are produced in this review:

filename description
biblio.bib list of bibliographic reference of this review
check-dataset.sh data review workflow/process as expressed in a bash script
data.zip a versioned archive of the data under review
HEAD the digital signature of the data under review
index.docx review in MS Word format
index.html review in HTML format
index.md review in Pandoc markdown format
index.pdf review in PDF format
indexed-citations.csv.gz list of distinct reference citations for reviewed species interaction claims in gzipped comma-separated values file format
indexed-citations.html.gz list of distinct reference citations for reviewed species interactions claims in gzipped html file format
indexed-citations.tsv.gz list of distinct reference citations for reviewed species interaction claims in gzipped tab-separated values format
indexed-interactions-col-family-col-family.svg network diagram showing the taxon family to taxon family interaction claims in the dataset under review as interpreted by the Catalogue of Life via Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024)
indexed-interactions-col-kingdom-col-kingdom.svg network diagram showing the taxon kingdom to taxon kingom interaction claims in the dataset under review as interpreted by the Catalogue of Life via Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024)
indexed-interactions.csv.gz species interaction claims indexed from the dataset under review in gzipped comma-separated values format
indexed-interactions.html.gz species interaction claims indexed from the dataset under review in gzipped html format
indexed-interactions.tsv.gz species interaction claims indexed from the dataset under review in gzipped tab-separated values format
indexed-interactions.parquet species interaction claims indexed from the dataset under review in Apache Parquet format
indexed-interactions.png species interaction claims indexed from the dataset under review plotted on a map
indexed-interactions.map mapserver configuration to plot species interaction claims indexed from the dataset under review on a map
indexed-interactions.gpkg species interaction claims indexed from the dataset under review in GeoPackage format
indexed-interactions-h3.gpkg geospatially clustered h3 species interaction claims indexed from the dataset under review in GeoPackage format
indexed-interactions-sample.csv list of species interaction claims indexed from the dataset under review in gzipped comma-separated values format
indexed-interactions-sample.html first 500 species interaction claims indexed from the dataset under review in html format
indexed-interactions-sample.tsv first 500 species interaction claims indexed from the dataset under review in tab-separated values format
indexed-names.csv.gz taxonomic names indexed from the dataset under review in gzipped comma-separated values format
indexed-names.html.gz taxonomic names found in the dataset under review in gzipped html format
indexed-names.tsv.gz taxonomic names found in the dataset under review in gzipped tab-separated values format
indexed-names.parquet taxonomic names found in the dataset under review in Apache Parquet format
indexed-names-resolved-col.csv.gz taxonomic names found in the dataset under review aligned with the Catalogue of Life as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format
indexed-names-resolved-col.html.gz taxonomic names found in the dataset under review aligned with the Catalogue of Life as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format
indexed-names-resolved-col.tsv.gz taxonomic names found in the dataset under review aligned with the Catalogue of Life as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format
indexed-names-resolved-col.parquet taxonomic names found in the dataset under review aligned with the Catalogue of Life as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in Apache Parquet format
indexed-names-resolved-discoverlife.csv.gz taxonomic names found in the dataset under review aligned with Discover Life bee species checklist as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format
indexed-names-resolved-discoverlife.html.gz taxonomic names found in the dataset under review aligned with Discover Life bee species checklist as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format
indexed-names-resolved-discoverlife.tsv.gz taxonomic names found in the dataset under review aligned with Discover Life bee species checklist as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format
indexed-names-resolved-discoverlife.parquet taxonomic names found in the dataset under review aligned with Discover Life bee species checklist as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in Apache Parquet format
indexed-names-resolved-gbif.csv.gz taxonomic names found in the dataset under review aligned with GBIF Backbone Taxonomy as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format
indexed-names-resolved-gbif.html.gz taxonomic names found in the dataset under review aligned with GBIF Backbone Taxonomy as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format
indexed-names-resolved-gbif.tsv.gz taxonomic names found in the dataset under review aligned with GBIF Backbone Taxonomy as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format
indexed-names-resolved-gbif.parquet taxonomic names found in the dataset under review aligned with GBIF Backbone Taxonomy as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in Apache Parquet format
indexed-names-resolved-itis.csv.gz taxonomic names found in the dataset under review aligned with Integrated Taxonomic Information System (ITIS) as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format
indexed-names-resolved-itis.html.gz taxonomic names found in the dataset under review aligned with Integrated Taxonomic Information System (ITIS) as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format
indexed-names-resolved-itis.tsv.gz taxonomic names found in the dataset under review aligned with Integrated Taxonomic Information System (ITIS) as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format
indexed-names-resolved-itis.parquet taxonomic names found in the dataset under review aligned with Integrated Taxonomic Information System (ITIS) as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in Apache Parquet format
indexed-names-resolved-mdd.csv.gz taxonomic names found in the dataset under review aligned with the Mammal Diversity Database as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format
indexed-names-resolved-mdd.html.gz taxonomic names found in the dataset under review aligned with Mammal Diversity Database as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format
indexed-names-resolved-mdd.tsv.gz taxonomic names found in the dataset under review aligned with Mammal Diversity Database as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format
indexed-names-resolved-mdd.parquet taxonomic names found in the dataset under review aligned with Mammal Diversity Database as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in Apache Parquet format
indexed-names-resolved-ncbi.csv.gz taxonomic names found in the dataset under review aligned with the NCBI Taxonomy as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format
indexed-names-resolved-ncbi.html.gz taxonomic names found in the dataset under review aligned with the NCBI Taxonomy as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format
indexed-names-resolved-ncbi.tsv.gz taxonomic names found in the dataset under review aligned with the NCBI Taxonomy as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format
indexed-names-resolved-ncbi.parquet taxonomic names found in the dataset under review aligned with the NCBI Taxonomy as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in Apache Parquet format
indexed-names-resolved-pbdb.csv.gz taxonomic names found in the dataset under review aligned with the Paleobiology Database as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format
indexed-names-resolved-pbdb.html.gz taxonomic names found in the dataset under review aligned with Paleobiology Database as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format
indexed-names-resolved-pbdb.tsv.gz taxonomic names found in the dataset under review aligned with Paleobiology Database as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format
indexed-names-resolved-pbdb.parquet taxonomic names found in the dataset under review aligned with Paleobiology Database as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in Apache Parquet format
indexed-names-resolved-tpt.csv.gz taxonomic names found in the dataset under review aligned with the Terrestrial Parasite Tracker (TPT) Taxonomic Resource as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format
indexed-names-resolved-tpt.html.gz taxonomic names found in the dataset under review aligned with the Terrestrial Parasite Tracker (TPT) Taxonomic Resource as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format
indexed-names-resolved-tpt.tsv.gz taxonomic names found in the dataset under review aligned with the Terrestrial Parasite Tracker (TPT) Taxonomic Resource as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format
indexed-names-resolved-tpt.parquet taxonomic names found in the dataset under review aligned with the Terrestrial Parasite Tracker (TPT) Taxonomic Resource as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in Apache Parquet format
indexed-names-resolved-wfo.csv.gz taxonomic names found in the dataset under review aligned with the World of Flora Online as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format
indexed-names-resolved-wfo.html.gz taxonomic names found in the dataset under review aligned with the World of Flora Online as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format
indexed-names-resolved-wfo.tsv.gz taxonomic names found in the dataset under review aligned with the World of Flora Online as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format
indexed-names-resolved-wfo.parquet taxonomic names found in the dataset under review aligned with the World of Flora Online as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in Apache Parquet format
indexed-names-resolved-worms.csv.gz taxonomic names found in the dataset under review aligned with the World Register of Marine Species (WoRMS) as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format
indexed-names-resolved-worms.html.gz taxonomic names found in the dataset under review aligned with the World Register of Marine Species (WoRMS) as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format
indexed-names-resolved-worms.tsv.gz taxonomic names found in the dataset under review aligned with the World Register of Marine Species (WoRMS) as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format
indexed-names-resolved-worms.parquet taxonomic names found in the dataset under review aligned with the World Register of Marine Species (WoRMS) as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in Apache Parquet format
indexed-names-sample.csv first 500 taxonomic names found in the dataset under review in comma-separated values format
indexed-names-sample.html first 500 taxonomic names found in the dataset under review in html format
indexed-names-sample.tsv first 500 taxonomic names found in the dataset under review in tab-separated values format
interaction.svg diagram summarizing the data model used to index species interaction claims
nanopub-sample.trig first 500 species interaction claims as expressed in the nanopub format (Kuhn and Dumontier 2014)
nanopub.trig.gz species interaction claims as expressed in the nanopub format (Kuhn and Dumontier 2014)
process.svg diagram summarizing the data review processing workflow
prov.nq origin of the dataset under review as expressed in rdf/nquads
review.csv.gz review notes associated with the dataset under review in gzipped comma-separated values format
review.html.gz review notes associated with the dataset under review in gzipped html format
review.tsv.gz review notes associated with the dataset under review in gzipped tab-separated values format
review-sample.csv first 500 review notes associated with the dataset under review in comma-separated values format
review-sample.html first 500 review notes associated with the dataset under review in html format
review-sample.tsv first 500 review notes associated with the dataset under review in tab-separated values format
review.svg a review badge generated as part of the dataset review process
zenodo.json metadata of this review expressed in Zenodo record metadata
References Elliott, Michael, Jorrit Poelen, Icaro Alzuru, Emilio Berti, and partha04patel. 2025. “Bio-Guoda/Preston: 0.10.5.” Zenodo. https://doi.org/10.5281/zenodo.14662206. ICZN. 1999. “International Code of Zoological Nomenclature.” The International Trust for Zoological Nomenclature, London, UK. https://www.iczn.org/the-code/the-code-online/. Kuhn, Tobias, and Michel Dumontier. 2014. “Trusty URIs: Verifiable, Immutable, and Permanent Digital Artifacts for Linked Data.” In The Semantic Web: Trends and Challenges, edited by Valentina Presutti, Claudia d’Amato, Fabien Gandon, Mathieu d’Aquin, Steffen Staab, and Anna Tordai, 395–410. Cham: Springer International Publishing. Kuhn, Tobias, Jorrit Poelen, and Katrin Leinweber. 2025. “Globalbioticinteractions/Elton: 0.15.1.” Zenodo. https://doi.org/10.5281/zenodo.14927734. McKenna, Jeff, Steve Lime, Thomas Bonfort, Jérome Boué, Howard Butler, Seth Girvin, Tom Kralidis, et al. 2025. “MapServer.” Zenodo. https://doi.org/10.5281/zenodo.17807263. Poelen, Jorrit H. (ed.). 2024. “Nomer Corpus of Taxonomic Resources Hash://Sha256/ B60c0d25a16ae77b24305782017b1a270b79b5d1746f832650 F2027ba536e276 Hash://Md5/17f1363a277ee0e4ecaf1b91c665e47e.” Zenodo. https://doi.org/10.5281/zenodo.12695629. Poelen, Jorrit H., James D. Simons, and Chris J. Mungall. 2014. “Global Biotic Interactions: An Open Infrastructure to Share and Analyze Species-Interaction Datasets.” Ecological Informatics 24 (November): 148–59. https://doi.org/10.1016/j.ecoinf.2014.08.005. Poelen, Jorrit, Katja Seltmann, and Daniel Mietchen. 2024. “Globalbioticinteractions/Globinizer: 0.4.0.” Zenodo. https://doi.org/10.5281/zenodo.10647565. Salim, José Augusto, and Jorrit Poelen. 2025. “Globalbioticinteractions/Nomer: 0.5.15.” Zenodo. https://doi.org/10.5281/zenodo.14893840. Trekels, Maarten, Debora Pignatari Drucker, José Augusto Salim, Jeff Ollerton, Jorrit Poelen, Filipi Miranda Soares, Max Rünzel, Muo Kasina, Quentin Groom, and Mariano Devoto. 2023. “WorldFAIR Project (D10.1) Agriculture-related pollinator data standards use cases report.” Zenodo. https://doi.org/10.5281/zenodo.8176978. Wilkinson, Mark D., Michel Dumontier, IJsbrand Jan Aalbersberg, Gabrielle Appleton, Myles Axton, Arie Baak, Niklas Blomberg, et al. 2016. “The FAIR Guiding Principles for Scientific Data Management and Stewardship.” Scientific Data 3 (1). https://doi.org/10.1038/sdata.2016.18.

Note that you have to first get the data (e.g., via elton pull globalbioticinteractions/dorey2023) before being able to generate reviews (e.g., elton review globalbioticinteractions/dorey2023), extract interaction claims (e.g., elton interactions globalbioticinteractions/dorey2023), or list taxonomic names (e.g., elton names globalbioticinteractions/dorey2023)

Disclaimer: The results in this review should be considered friendly, yet naive, notes from an unsophisticated robot. Please keep that in mind when considering the review results.

Up-to-date status of the GloBI Review Badge can be retrieved from the GloBI Review Depot

Up-to-date status of the GloBI Index Badge can be retrieved from GloBI’s API

At time of writing (2026-06-04) the version of the GloBI dataset index was available at https://globalbioticinteractions.org/datasets

According to http://opendefinition.org/: “Open data is data that can be freely used, re-used and redistributed by anyone - subject only, at most, to the requirement to attribute and sharealike.”