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: International Collection of Microorganisms from Plants (ICMP) https://github.com/globalbioticinteractions/icmp/archive/e6791b02afb1abcb389d8f3a134d7e014587650c.zip 2025-07-12T00:18:12.499Z hash://md5/3c8a92b4c7f4a3eb3eb5864921661185 For additional metadata related to this dataset, please visit https://github.com/globalbioticinteractions/icmp 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 0.15.13 nomer 0.5.17 globinizer 0.4.0 mlr 6.0.0 jq 1.6 yq 4.25.3 pandoc 3.1.6.1 duckdb 1.3.1 The review process can be described in the form of the script below 1. # get versioned copy of the dataset (size approx. 5.74MiB) under review elton pull globalbioticinteractions/icmp # generate review notes elton review globalbioticinteractions/icmp\ > review.tsv # export indexed interaction records elton interactions globalbioticinteractions/icmp\ > interactions.tsv # export names and align them with the Catalogue of Life using Nomer elton names globalbioticinteractions/icmp\ | 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 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-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 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/icmp, has fingerprint hash://md5/3c8a92b4c7f4a3eb3eb5864921661185, is 5.74MiB in size and contains 76 interactions with 2 unique types of associations (e.g., hasHost) between 50 primary taxa (e.g., Bradyrhizobium Jordan) and 48 associated taxa (e.g., Tradescantia fluminensis). An exhaustive list of indexed interaction claims can be found in gzipped csv, tsv 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 Rathayibacter iranicus (Carlson & Vidaver 1982) Zgurskaya et al. hasHost Hordeum vulgare L. https://scd.landcareresearch.co.nz/Specimen/ICMP_20095 Monilia mumeicola Y. Harada, Yumi Sasaki & Sano hasHost Prunus mume Siebold & Zucc. https://scd.landcareresearch.co.nz/Specimen/ICMP_20667 Monilia mumeicola Y. Harada, Yumi Sasaki & Sano hasHost Prunus mume Siebold & Zucc. https://scd.landcareresearch.co.nz/Specimen/ICMP_20669 Hypoderma DC. 1805 adjacentTo Eucryphia moorei https://scd.landcareresearch.co.nz/Specimen/ICMP_25309 Most Frequently Mentioned Interaction Types (up to 20 most frequent) interactionTypeName count hasHost 65 adjacentTo 11 Most Frequently Mentioned Primary Taxa (up to 20 most frequent) sourceTaxonName count Bradyrhizobium Jordan 8 Botrytis cinerea Pers. 6 Mycosphaerella Johanson 3 Phoma Sacc. 1880 3 Botryosphaeria lutea A.J.L. Phillips 2002 3 Septoria Sacc. 1884 3 Monilia mumeicola Y. Harada, Yumi Sasaki & Sano 2 Hymenoscyphus kiko P.R. Johnst. 2013 2 Colletotrichum boninense Moriwaki, Toy. Sato & Tsukib. 2 Phomopsis (Sacc.) Bubák 2 Colletotrichum Corda 2 Hymenoscyphus ohakune P.R. Johnst. 2 Rathayibacter iranicus (Carlson & Vidaver 1982) Zgurskaya et al. 1 Hypoderma DC. 1805 1 Beauveria bassiana (Bals.-Criv.) Vuill. 1 Cladosporium hillianum Bensch, Crous & U. Braun 1 Pestalotiopsis Steyaert 1 Mycosphaerella nawae Hiura & Ikata 1 Cylindrocladiella parva (P.J. Anderson) Boesew. 1 Most Frequently Mentioned Associate Taxa (up to 20 most frequent) targetTaxonName count Tradescantia fluminensis 8 Botrytis virus F Howitt et al. 6 Cytisus scoparius (L.) Link 6 Macropiper excelsum (G.Forst.) Miq. 3 Nothofagus menziesii (Hook.f.) Oerst. 3 Prunus mume Siebold & Zucc. 2 Lupinus arboreus Sims 2 Ulex europaeus L. 2 Platanus 2 Phoenix canariensis Chabaud 2 Hebe perbella de Lange 2 Melicytus ramiflorus J.R.Forst. & G.Forst. 2 Hordeum vulgare L. 1 Eucryphia moorei 1 Virus 1 Nothofagus fusca (Hook.f.) Oerst. 1 Exobasidium gracile (Shirai) Syd. & P. Syd. 1912 1 Lepidosperma filiforme Labill. 1 Diospyros kaki L.f. 1 Most Frequent Interactions between Primary and Associate Taxa (up to 20 most frequent) sourceTaxonName interactionTypeName targetTaxonName count Botrytis cinerea Pers. adjacentTo Botrytis virus F Howitt et al. 5 Phoma Sacc. 1880 hasHost Cytisus scoparius (L.) Link 3 Monilia mumeicola Y. Harada, Yumi Sasaki & Sano hasHost Prunus mume Siebold & Zucc. 2 Phomopsis (Sacc.) Bubák hasHost Tradescantia fluminensis 2 Bradyrhizobium Jordan hasHost Lupinus arboreus Sims 2 Hymenoscyphus ohakune P.R. Johnst. hasHost Nothofagus menziesii (Hook.f.) Oerst. 2 Bradyrhizobium Jordan hasHost Ulex europaeus L. 2 Bradyrhizobium Jordan hasHost Cytisus scoparius (L.) Link 2 Septoria Sacc. 1884 hasHost Hebe perbella de Lange 2 Mycosphaerella Johanson hasHost Melicytus ramiflorus J.R.Forst. & G.Forst. 2 Rathayibacter iranicus (Carlson & Vidaver 1982) Zgurskaya et al. hasHost Hordeum vulgare L. 1 Hypoderma DC. 1805 adjacentTo Eucryphia moorei 1 Beauveria bassiana (Bals.-Criv.) Vuill. adjacentTo Virus 1 Hymenoscyphus kiko P.R. Johnst. 2013 hasHost Nothofagus fusca (Hook.f.) Oerst. 1 Cladosporium hillianum Bensch, Crous & U. Braun hasHost Exobasidium gracile (Shirai) Syd. & P. Syd. 1912 1 Pestalotiopsis Steyaert hasHost Lepidosperma filiforme Labill. 1 Mycosphaerella nawae Hiura & Ikata hasHost Diospyros kaki L.f. 1 Cylindrocladiella parva (P.J. Anderson) Boesew. hasHost Buxus 1 Mycosphaerella Johanson hasHost Macropiper excelsum (G.Forst.) Miq. 1 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 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 Abortiporus biennis HAS_ACCEPTED_NAME col Abortiporus biennis Agathis robusta HAS_ACCEPTED_NAME col Agathis robusta Allium HAS_ACCEPTED_NAME col Allium Alternaria metachromatica HAS_ACCEPTED_NAME col Alternaria metachromatica 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 7 col family 1 col genus 25 col species 63 col subspecies 2 discoverlife NA 98 gbif NA 6 gbif family 1 gbif genus 26 gbif species 67 gbif subspecies 2 gbif variety 1 itis NA 62 itis genus 15 itis species 20 itis variety 1 mdd NA 98 ncbi NA 9 ncbi family 1 ncbi genus 26 ncbi species 61 ncbi tribe 1 pbdb NA 90 pbdb genus 7 pbdb species 1 tpt NA 98 wfo NA 56 wfo genus 7 wfo species 33 wfo subspecies 1 wfo tribe 1 worms NA 67 worms family 1 worms genus 18 worms species 12 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 resolvedCatalogName relationName count col HAS_ACCEPTED_NAME 83 col NONE 7 col SYNONYM_OF 12 discoverlife NONE 98 gbif HAS_ACCEPTED_NAME 107 gbif SYNONYM_OF 34 gbif NONE 6 itis NONE 62 itis HAS_ACCEPTED_NAME 35 itis SYNONYM_OF 2 mdd NONE 98 ncbi SAME_AS 77 ncbi SYNONYM_OF 13 ncbi NONE 9 pbdb NONE 90 pbdb HAS_ACCEPTED_NAME 8 tpt NONE 98 wfo NONE 56 wfo HAS_ACCEPTED_NAME 38 wfo HAS_UNCHECKED_NAME 5 wfo SYNONYM_OF 4 worms NONE 67 worms HAS_ACCEPTED_NAME 33 worms SYNONYM_OF 1 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 2025-07-15T06:21:58Z summary https://github.com/globalbioticinteractions/icmp/archive/e6791b02afb1abcb389d8f3a134d7e014587650c.zip 2025-07-15T06:21:58Z summary 76 interaction(s) 2025-07-15T06:21:58Z summary 0 note(s) 2025-07-15T06:21:58Z summary 78 info(s) In addition, you can find the most frequently occurring notes in the table below. : Most frequently occurring review notes, if any. 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. 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. 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/icmp) before being able to generate reviews (e.g., elton review globalbioticinteractions/icmp), extract interaction claims (e.g., elton interactions globalbioticinteractions/icmp), or list taxonomic names (e.g., elton names globalbioticinteractions/icmp)↩︎ 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 (2025-07-15) 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."↩︎

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/icmp, has fingerprint hash://md5/3c8a92b4c7f4a3eb3eb5864921661185, is 5.74MiB in size and contains 76 interactions with 2 unique types of associations (e.g., hasHost) between 50 primary taxa (e.g., Bradyrhizobium Jordan) and 48 associated taxa (e.g., Tradescantia fluminensis). 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.