A Review of Biotic Interactions and Taxon Names Found in globalbioticinteractions/fsca hash://md5/399ad74ffba1a12a5f595d4be1441e7a

by Nomer, Elton and Preston, three naive review bots

[email protected]

https://globalbioticinteractions.org/contribute

https://github.com/globalbioticinteractions/fsca/issues

2025-04-11

Abstract

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/fsca, has fingerprint hash://md5/399ad74ffba1a12a5f595d4be1441e7a, is 4.23MiB in size and contains 941 interactions with 1 unique type of association (e.g., interactsWith) between 52 primary taxa (e.g., Hylaeus) and 144 associated taxa (e.g., Baccharis). This report includes detailed summaries of interaction data, a taxonomic review from multiple catalogs, and an archived version of the dataset from which the reviews are derived.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:

Florida State Collection of Arthropods https://github.com/globalbioticinteractions/fsca/archive/2cdcf9475b7e0ef2a728a96535608bc0ce2ac5ca.zip 2025-04-05T00:13:33.447Z hash://md5/399ad74ffba1a12a5f595d4be1441e7a

For additional metadata related to this dataset, please visit https://github.com/globalbioticinteractions/fsca and inspect associated metadata files including, but not limited to, README.md, eml.xml, and/or globi.json.

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 0.10.1
elton 0.15.9
nomer 0.5.13
globinizer 0.4.0
mlr 6.0.0
jq 1.6
yq 4.25.3
pandoc 3.1.6.1

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

# get versioned copy of the dataset (size approx. 4.23MiB) under review 
elton pull globalbioticinteractions/fsca

# generate review notes
elton review globalbioticinteractions/fsca\
 > review.tsv

# export indexed interaction records
elton interactions globalbioticinteractions/fsca\
 > interactions.tsv

# export names and align them with the Catalogue of Life using Nomer 
elton names globalbioticinteractions/fsca\
 | nomer append col\
 > name-alignment.tsv

or visually, in a process diagram.

review origin dataset origin elton Elton (a naive review bot) elton->origin pull (1) interactions indexed interactions elton->interactions generates (2) alignment name alignments nomer Nomer (a naive review bot) nomer->interactions extract names (3) nomer->alignment generates (5) catalog name catalog nomer->catalog uses (4)

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

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 Preston (Elliott et al. 2025) 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-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-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-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-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-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-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-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-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-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-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-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-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

Archived Dataset

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

Biotic Interactions

model primaryTaxon Primary Taxon associatedTaxon Associated Taxon primaryOrganism Primary Organism primaryOrganism->primaryTaxon classifiedAs associatedOrganism Associated Organism primaryOrganism->associatedOrganism interactsWith associatedOrganism->associatedTaxon classifiedAs

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/fsca, has fingerprint hash://md5/399ad74ffba1a12a5f595d4be1441e7a, is 4.23MiB in size and contains 941 interactions with 1 unique type of association (e.g., interactsWith) between 52 primary taxa (e.g., Hylaeus) and 144 associated taxa (e.g., Baccharis).

An exhaustive list of indexed interaction claims can be found in gzipped csv and tsv 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
Hylaeus interactsWith Daucus carota https://ecdysis.org/collections/individual/index.php?occid=1472888
Hylaeus interactsWith Daucus carota https://ecdysis.org/collections/individual/index.php?occid=1472889
Hylaeus interactsWith Aruncus aruncus https://ecdysis.org/collections/individual/index.php?occid=1472891
Hylaeus interactsWith Aruncus aruncus https://ecdysis.org/collections/individual/index.php?occid=1472892
Most Frequently Mentioned Interaction Types (up to 20 most frequent)
interactionTypeName count
interactsWith 941
Most Frequently Mentioned Primary Taxa (up to 20 most frequent)
sourceTaxonName count
Hylaeus 296
Bombus fervidus 163
Lasioglossum imitatum 79
Nomiocolletes arnaui 62
Lonchopria semicyaneaus 44
Agapostemon texanus 43
Nomiocolletes 33
Bombus impatiens 27
Hylaeus ornatus 22
Hylaeus schwarzii 21
Hylaeus formosus 16
Augochlora 11
Bombus californicus 10
Lasioglossum bruneri 9
Brachyglossula leucothorax 8
Xylocopa virginica virginica 8
Hesperapis 7
Anthidiellum notatum notatum 7
Hylaeus hyalinatus 6
Most Frequently Mentioned Associate Taxa (up to 20 most frequent)
targetTaxonName count
Baccharis 134
Cirsium 71
Caragana 54
Aruncus aruncus 38
Hydrangea arborescens 34
Acacia 34
Apocynum cannabinum 32
Solidago 29
Chrysothamnus 23
Juncus & wild flower 19
Mentzelia pumila 19
Micromeria brownei 18
Helianthus 18
Metopium toxiferum 16
Daucus carota 14
Apocynum 13
Astragalus 13
Melilotus alba 12
Wild lilac 12
Most Frequent Interactions between Primary and Associate Taxa (up to 20 most frequent)
sourceTaxonName interactionTypeName targetTaxonName count
Bombus fervidus interactsWith Cirsium 57
Nomiocolletes arnaui interactsWith Baccharis 54
Bombus fervidus interactsWith Caragana 54
Lonchopria semicyaneaus interactsWith Baccharis 44
Hylaeus interactsWith Acacia 34
Hylaeus interactsWith Aruncus aruncus 32
Nomiocolletes interactsWith Baccharis 29
Lasioglossum imitatum interactsWith Apocynum cannabinum 28
Hylaeus interactsWith Hydrangea arborescens 23
Hylaeus interactsWith Solidago 21
Hylaeus interactsWith Juncus & wild flower 19
Agapostemon texanus interactsWith Mentzelia pumila 19
Hylaeus ornatus interactsWith Micromeria brownei 17
Bombus fervidus interactsWith Helianthus 17
Hylaeus formosus interactsWith Metopium toxiferum 16
Hylaeus interactsWith Apocynum 13
Bombus fervidus interactsWith Astragalus 13
Hylaeus interactsWith Wild lilac 12
Hylaeus interactsWith Eriogonum 11

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 Animalia Animalia Animalia->Animalia Chromista Chromista Animalia->Chromista Plantae Plantae Animalia->Plantae
interactions Andrenidae Andrenidae Asteraceae Asteraceae Andrenidae->Asteraceae Brassicaceae Brassicaceae Andrenidae->Brassicaceae Salicaceae Salicaceae Andrenidae->Salicaceae Solanaceae Solanaceae Andrenidae->Solanaceae Viburnaceae Viburnaceae Andrenidae->Viburnaceae Apidae Apidae Apidae->Asteraceae Apidae->Salicaceae Apidae->Viburnaceae Caprifoliaceae Caprifoliaceae Apidae->Caprifoliaceae Ephedraceae Ephedraceae Apidae->Ephedraceae Fabaceae Fabaceae Apidae->Fabaceae Fringillidae Fringillidae Apidae->Fringillidae Hydrangeaceae Hydrangeaceae Apidae->Hydrangeaceae Lamiaceae Lamiaceae Apidae->Lamiaceae Plantaginaceae Plantaginaceae Apidae->Plantaginaceae Polygonaceae Polygonaceae Apidae->Polygonaceae Colletidae Colletidae Colletidae->Asteraceae Colletidae->Salicaceae Colletidae->Fabaceae Colletidae->Fringillidae Colletidae->Hydrangeaceae Colletidae->Lamiaceae Colletidae->Plantaginaceae Colletidae->Polygonaceae Amaranthaceae Amaranthaceae Colletidae->Amaranthaceae Anacardiaceae Anacardiaceae Colletidae->Anacardiaceae Apiaceae Apiaceae Colletidae->Apiaceae Apocynaceae Apocynaceae Colletidae->Apocynaceae Araliaceae Araliaceae Colletidae->Araliaceae Arecaceae Arecaceae Colletidae->Arecaceae Cactaceae Cactaceae Colletidae->Cactaceae Euphorbiaceae Euphorbiaceae Colletidae->Euphorbiaceae Hydrophyllaceae Hydrophyllaceae Colletidae->Hydrophyllaceae Hypericaceae Hypericaceae Colletidae->Hypericaceae Malvaceae Malvaceae Colletidae->Malvaceae Pontederiaceae Pontederiaceae Colletidae->Pontederiaceae Ranunculaceae Ranunculaceae Colletidae->Ranunculaceae Resedaceae Resedaceae Colletidae->Resedaceae Rhamnaceae Rhamnaceae Colletidae->Rhamnaceae Rosaceae Rosaceae Colletidae->Rosaceae Sagittariidae Sagittariidae Colletidae->Sagittariidae Sapindaceae Sapindaceae Colletidae->Sapindaceae Halictidae Halictidae Halictidae->Asteraceae Halictidae->Hydrangeaceae Halictidae->Polygonaceae Halictidae->Anacardiaceae Halictidae->Apiaceae Halictidae->Apocynaceae Halictidae->Araliaceae Halictidae->Euphorbiaceae Halictidae->Rhamnaceae Halictidae->Rosaceae Ericaceae Ericaceae Halictidae->Ericaceae Geraniaceae Geraniaceae Halictidae->Geraniaceae Loasaceae Loasaceae Halictidae->Loasaceae Megachilidae Megachilidae Megachilidae->Asteraceae Galacticidae Galacticidae Megachilidae->Galacticidae Melittidae Melittidae Melittidae->Asteraceae

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

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
Viii NONE col Viii
Hylaeus HAS_ACCEPTED_NAME col Hylaeus
Leioproctus HAS_ACCEPTED_NAME col Leioproctus
Lonchopria HAS_ACCEPTED_NAME col Lonchopria
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 48
col genus 56
col section 1
col species 84
col subgenus 1
col subspecies 3
col variety 1
discoverlife NA 152
discoverlife species 41
gbif NA 41
gbif genus 59
gbif species 87
gbif subspecies 4
gbif variety 2
itis NA 52
itis genus 52
itis species 82
itis subspecies 4
itis variety 2
mdd NA 192
ncbi NA 68
ncbi genus 54
ncbi species 69
ncbi subgenus 2
ncbi subspecies 2
pbdb NA 166
pbdb genus 23
pbdb species 3
pbdb suborder 1
tpt NA 191
tpt genus 1
wfo NA 92
wfo genus 48
wfo species 52
wfo subspecies 1
wfo variety 1
worms NA 149
worms genus 28
worms species 15
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 NONE 49
col HAS_ACCEPTED_NAME 131
col SYNONYM_OF 36
discoverlife NONE 155
discoverlife HAS_ACCEPTED_NAME 40
discoverlife SYNONYM_OF 10
discoverlife HOMONYM_OF 1
gbif NONE 42
gbif HAS_ACCEPTED_NAME 157
gbif SYNONYM_OF 48
itis NONE 53
itis HAS_ACCEPTED_NAME 126
itis SYNONYM_OF 19
mdd NONE 194
ncbi NONE 70
ncbi SAME_AS 121
ncbi SYNONYM_OF 9
pbdb NONE 168
pbdb HAS_ACCEPTED_NAME 26
pbdb SYNONYM_OF 1
tpt NONE 193
tpt HAS_ACCEPTED_NAME 1
wfo NONE 93
wfo SYNONYM_OF 23
wfo HAS_ACCEPTED_NAME 84
wfo HAS_UNCHECKED_NAME 7
worms NONE 151
worms HAS_ACCEPTED_NAME 42
worms SYNONYM_OF 7
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
2025-04-10T21:58:52Z note found unsupported interaction type with name: [[Venzuela]
2025-04-10T21:58:52Z note found unsupported interaction type with name: [[Venzuela]
2025-04-10T21:58:52Z note found unsupported interaction type with name: [[Venzuela]
2025-04-10T21:58:52Z note found unsupported interaction type with name: [[Venzuela]

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

Most frequently occurring review notes, if any.
reviewComment count
found unsupported interaction type with name: [[Florida] 38
found unsupported interaction type with name: [[Venzuela] 10

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.

review review 💬 💬

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

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.

References

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