{"metadata":{"related_identifiers":[{"relation":"isAlternateIdentifier","identifier":"hash://md5/ec810b561cb97f8813cf3627fa11bec7"},{"relation":"isAlternateIdentifier","identifier":"urn:lsid:globalbioticinteractions.org:dataset:globalbioticinteractions/mycoportal"},{"relation":"hasVersion","identifier":"hash://md5/ec810b561cb97f8813cf3627fa11bec7"},{"relation":"isCompiledBy","identifier":"10.5281/zenodo.14927734","resource_type":"software"},{"relation":"isCompiledBy","identifier":"10.5281/zenodo.14893840","resource_type":"software"},{"relation":"isCompiledBy","identifier":"10.5281/zenodo.14662206","resource_type":"software"}],"communities":[{"identifier":"globi-review"}],"upload_type":"publication","creators":[{"name":"Elton"},{"name":"Nomer"},{"name":"Preston"}],"publication_type":"datapaper","title":"Versioned Archive and Review of Biotic Interactions and Taxon Names Found within globalbioticinteractions/mycoportal hash://md5/ec810b561cb97f8813cf3627fa11bec7","publication_date":"2026-03-30","keywords":["biodiversity informatics","ecology","species interactions","biotic interactions","automated manuscripts","taxonomic names","taxonomic name alignment","biology"],"description":"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/mycoportal, has fingerprint hash://md5/ec810b561cb97f8813cf3627fa11bec7, is 510MiB in size and contains 1,995,979 interactions with 6 unique types of associations (e.g., hasHost) between 117,907 primary taxa (e.g., Erysiphe cichoracearum) and 183,377 associated taxa (e.g., Substrate Undetermined). This report includes detailed summaries of interaction data, a taxonomic review from multiple catalogs, and an archived version of the dataset from which the reviews are derived.\n","additional_descriptions":[{"type":{"id":"technical-info"},"description":"

Introduction

\n

Data Review and Archive

\n

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

\n

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

\n
\n

AAFC-DAOM DwC-Archive | Darwin Core Archive for Canadian National\nMycological Herbarium\nhttps://mycoportal.org/portal/content/dwca/AAFC-DAOM_DwC-A.zip\n2026-03-28T04:37:20.552Z ARIZ DwC-Archive | Darwin Core Archive for\nUniversity of Arizona, Gilbertson Mycological Herbarium, specimen-based\nhttps://mycoportal.org/portal/content/dwca/ARIZ_DwC-A.zip\n2026-03-28T04:37:20.552Z BISH DwC-Archive | Darwin Core Archive for\nBishop Museum, Herbarium Pacificum\nhttps://mycoportal.org/portal/content/dwca/BISH_DwC-A.zip\n2026-03-28T04:37:20.552Z BPI DwC-Archive | Darwin Core Archive for USDA\nUnited States National Fungus Collections\nhttps://mycoportal.org/portal/content/dwca/BPI_DwC-A.zip\n2026-03-28T04:37:20.552Z BRIT DwC-Archive | Darwin Core Archive for\nBotanical Research Institute of Texas\nhttps://mycoportal.org/portal/content/dwca/BRIT_DwC-A.zip\n2026-03-28T04:37:20.552Z BRU DwC-Archive | Darwin Core Archive for Brown\nUniversity Herbarium - Fungi\nhttps://mycoportal.org/portal/content/dwca/BRU_DwC-A.zip\n2026-03-28T04:37:20.552Z CHRB DwC-Archive | Darwin Core Archive for\nChrysler Herbarium - Mycological Collection\nhttps://mycoportal.org/portal/content/dwca/CHRB_DwC-A.zip\n2026-03-28T04:37:20.552Z CINC DwC-Archive | Darwin Core Archive for\nUniversity of Cincinnati, Margaret H. Fulford Herbarium - Fungi\nhttps://mycoportal.org/portal/content/dwca/CINC_DwC-A.zip\n2026-03-28T04:37:20.552Z CLEMS DwC-Archive | Darwin Core Archive for\nClemson University Herbarium\nhttps://mycoportal.org/portal/content/dwca/CLEMS_DwC-A.zip\n2026-03-28T04:37:20.552Z CSU DwC-Archive | Darwin Core Archive for\nUniversity of Central Oklahoma Herbarium - Fungi\nhttps://mycoportal.org/portal/content/dwca/CSU_DwC-A.zip\n2026-03-28T04:37:20.552Z CUP DwC-Archive | Darwin Core Archive for\nCornell University Plant Pathology Herbarium\nhttps://mycoportal.org/portal/content/dwca/CUP_DwC-A.zip\n2026-03-28T04:37:20.552Z DBG-DBG DwC-Archive | Darwin Core Archive for\nDenver Botanic Gardens, Sam Mitchel Herbarium of Fungi\nhttps://mycoportal.org/portal/content/dwca/DBG-DBG_DwC-A.zip\n2026-03-28T04:37:20.552Z DEWV DwC-Archive | Darwin Core Archive for\nDavis & Elkins College Herbarium - Fungi\nhttps://mycoportal.org/portal/content/dwca/DEWV_DwC-A.zip\n2026-03-28T04:37:20.552Z DUKE DwC-Archive | Darwin Core Archive for Duke\nUniversity Herbarium Fungal Collection\nhttps://mycoportal.org/portal/content/dwca/DUKE_DwC-A.zip\n2026-03-28T04:37:20.552Z FLAS DwC-Archive | Darwin Core Archive for\nUniversity of Florida Herbarium - Fungi\nhttps://mycoportal.org/portal/content/dwca/FLAS_DwC-A.zip\n2026-03-28T04:37:20.552Z FLD DwC-Archive | Darwin Core Archive for Fort\nLewis College Herbarium\nhttps://mycoportal.org/portal/content/dwca/FLD_DwC-A.zip\n2026-03-28T04:37:20.552Z GAM DwC-Archive | Darwin Core Archive for\nUniversity of Georgia, Julian H. Miller Mycological Herbarium\nhttps://mycoportal.org/portal/content/dwca/GAM_DwC-A.zip\n2026-03-28T04:37:20.552Z HCOA DwC-Archive | Darwin Core Archive for\nCollege of the Atlantic, Acadia National Park Herbarium\nhttps://mycoportal.org/portal/content/dwca/HCOA_DwC-A.zip\n2026-03-28T04:37:20.552Z ILL DwC-Archive | Darwin Core Archive for\nUniversity of Illinois Fungarium - Fungi\nhttps://mycoportal.org/portal/content/dwca/ILL_DwC-A.zip\n2026-03-28T04:37:20.552Z ILLS DwC-Archive | Darwin Core Archive for\nUniversity of Illinois, Illinois Natural History Survey Fungarium -\nFungi https://mycoportal.org/portal/content/dwca/ILLS_DwC-A.zip\n2026-03-28T04:37:20.552Z ISC DwC-Archive | Darwin Core Archive for Iowa\nState University, Ada Hayden Herbarium\nhttps://mycoportal.org/portal/content/dwca/ISC_DwC-A.zip\n2026-03-28T04:37:20.552Z LSUM-Fungi DwC-Archive | Darwin Core Archive\nfor Louisiana State University, Bernard Lowy Mycological Herbarium\nhttps://mycoportal.org/portal/content/dwca/LSUM-Fungi_DwC-A.zip\n2026-03-28T04:37:20.552Z MICH DwC-Archive | Darwin Core Archive for\nUniversity of Michigan Herbarium\nhttps://mycoportal.org/portal/content/dwca/MICH_DwC-A.zip\n2026-03-28T04:37:20.552Z MONTU DwC-Archive | Darwin Core Archive for\nUniversity of Montana Herbarium\nhttps://mycoportal.org/portal/content/dwca/MONTU_DwC-A.zip\n2026-03-28T04:37:20.552Z MSC DwC-Archive | Darwin Core Archive for\nMichigan State University Herbarium non-lichenized fungi\nhttps://mycoportal.org/portal/content/dwca/MSC_DwC-A.zip\n2026-03-28T04:37:20.552Z MU DwC-Archive | Darwin Core Archive for Miami\nUniversity, Willard Sherman Turrell Herbarium\nhttps://mycoportal.org/portal/content/dwca/MU_DwC-A.zip\n2026-03-28T04:37:20.552Z NCU-Fungi DwC-Archive | Darwin Core Archive for\nUniversity of North Carolina at Chapel Hill Herbarium: Fungi\nhttps://mycoportal.org/portal/content/dwca/NCU-Fungi_DwC-A.zip\n2026-03-28T04:37:20.552Z NEB DwC-Archive | Darwin Core Archive for\nUniversity of Nebraska State Museum, C.E. Bessey Herbarium - Fungi\nhttps://mycoportal.org/portal/content/dwca/NEB_DwC-A.zip\n2026-03-28T04:37:20.552Z OSC DwC-Archive | Darwin Core Archive for\nOregon State University Herbarium\nhttps://mycoportal.org/portal/content/dwca/OSC_DwC-A.zip\n2026-03-28T04:37:20.552Z PH DwC-Archive | Darwin Core Archive for\nAcademy of Natural Sciences of Drexel University\nhttps://mycoportal.org/portal/content/dwca/PH_DwC-A.zip\n2026-03-28T04:37:20.552Z RMS DwC-Archive | Darwin Core Archive for\nUniversity of Wyoming, Wilhelm G. Solheim Mycological Herbarium\nhttps://mycoportal.org/portal/content/dwca/RMS_DwC-A.zip\n2026-03-28T04:37:20.552Z SFSU DwC-Archive | Darwin Core Archive for San\nFrancisco State University, Harry D. Thiers Herbarium\nhttps://mycoportal.org/portal/content/dwca/SFSU_DwC-A.zip\n2026-03-28T04:37:20.552Z SYRF DwC-Archive | Darwin Core Archive for\nState University of New York, SUNY College of Environmental Science and\nForestry Herbarium\nhttps://mycoportal.org/portal/content/dwca/SYRF_DwC-A.zip\n2026-03-28T04:37:20.552Z TENN-F DwC-Archive | Darwin Core Archive for\nUniversity of Tennessee Fungal Herbarium\nhttps://mycoportal.org/portal/content/dwca/TENN-F_DwC-A.zip\n2026-03-28T04:37:20.552Z UC DwC-Archive | Darwin Core Archive for\nUniversity of California Berkeley, University Herbarium\nhttps://mycoportal.org/portal/content/dwca/UC_DwC-A.zip\n2026-03-28T04:37:20.552Z UCHT-F DwC-Archive | Darwin Core Archive for\nUniversity of Tennessee, Chattanooga\nhttps://mycoportal.org/portal/content/dwca/UCHT-F_DwC-A.zip\n2026-03-28T04:37:20.552Z UCSC DwC-Archive | Darwin Core Archive for\nUniversity of California Santa Cruz Fungal Herbarium\nhttps://mycoportal.org/portal/content/dwca/UCSC_DwC-A.zip\n2026-03-28T04:37:20.552Z UNCA-UNCA DwC-Archive | Darwin Core Archive for\nUniversity of North Carolina Asheville\nhttps://mycoportal.org/portal/content/dwca/UNCA-UNCA_DwC-A.zip\n2026-03-28T04:37:20.552Z USAM DwC-Archive | Darwin Core Archive for\nUniversity of South Alabama Herbarium\nhttps://mycoportal.org/portal/content/dwca/USAM_DwC-A.zip\n2026-03-28T04:37:20.552Z USCH-Fungi DwC-Archive | Darwin Core Archive\nfor University of South Carolina, A. C. Moore Herbarium Fungal\nCollection\nhttps://mycoportal.org/portal/content/dwca/USCH-Fungi_DwC-A.zip\n2026-03-28T04:37:20.552Z USF DwC-Archive | Darwin Core Archive for\nUniversity of South Florida Herbarium - Fungi including lichens\nhttps://mycoportal.org/portal/content/dwca/USF_DwC-A.zip\n2026-03-28T04:37:20.552Z USU-UTC DwC-Archive | Darwin Core Archive for\nIntermountain Herbarium (fungi, not lichens), Utah State University\nhttps://mycoportal.org/portal/content/dwca/USU-UTC_DwC-A.zip\n2026-03-28T04:37:20.552Z UT-M DwC-Archive | Darwin Core Archive for\nNatural History Museum of Utah Fungarium\nhttps://mycoportal.org/portal/content/dwca/UT-M_DwC-A.zip\n2026-03-28T04:37:20.552Z VPI DwC-Archive | Darwin Core Archive for\nVirginia Tech University, Massey Herbarium - Fungi\nhttps://mycoportal.org/portal/content/dwca/VPI_DwC-A.zip\n2026-03-28T04:37:20.552Z VSC DwC-Archive | Darwin Core Archive for\nValdosta State University Herbarium - Fungi\nhttps://mycoportal.org/portal/content/dwca/VSC_DwC-A.zip\n2026-03-28T04:37:20.552Z VT DwC-Archive | Darwin Core Archive for\nUniversity of Vermont, Pringle Herbarium, Macrofungi\nhttps://mycoportal.org/portal/content/dwca/VT_DwC-A.zip\n2026-03-28T04:37:20.552Z WIS DwC-Archive | Darwin Core Archive for\nWisconsin State Herbarium, Fungi\nhttps://mycoportal.org/portal/content/dwca/WIS_DwC-A.zip\n2026-03-28T04:37:20.552Z WSP DwC-Archive | Darwin Core Archive for\nCharles Gardner Shaw Mycological Herbarium, Washington State University\nhttps://mycoportal.org/portal/content/dwca/WSP_DwC-A.zip\n2026-03-28T04:37:20.552Z hash://md5/ec810b561cb97f8813cf3627fa11bec7

\n
\n

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

\n

Methods

\n

The review is performed through programmatic scripts that leverage\ntools like Preston (Elliott\net al. 2025), Elton (Kuhn, Poelen, and Leinweber 2025), Nomer\n(Salim and Poelen\n2025), globinizer (J. Poelen, Seltmann, and Mietchen 2024)\ncombined with third-party tools like grep, mlr, tail and head.

\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n
Tools used in this review process
tool nameversion
preston0.11.1
elton0.16.7
nomer0.6.2
globinizer0.4.0
mlr6.0.0
jq1.6
yq4.25.3
pandoc3.1.6.1
duckdb1.3.1
mapserver7.6.4
\n

The review process can be described in the form of the script below\n1.

\n
# get versioned copy of the dataset (size approx.  510MiB) under review \nelton pull globalbioticinteractions/mycoportal\n\n# generate review notes\nelton review globalbioticinteractions/mycoportal\\\n > review.tsv\n\n# export indexed interaction records\nelton interactions globalbioticinteractions/mycoportal\\\n > interactions.tsv\n\n# export names and align them with the Catalogue of Life using Nomer \nelton names globalbioticinteractions/mycoportal\\\n | nomer append col\\\n > name-alignment.tsv
\n

or visually, in a process diagram.

\n
\n\"Review\n
Review Process Overview
\n
\n

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

\n

Results

\n

In the following sections, the results of the review are summarized\n2. Then, links to the detailed review\nreports are provided.

\n

Files

\n

The following files are produced in this review:

\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n
filenamedescription
biblio.biblist of bibliographic reference of this review
check-dataset.shdata review workflow/process as expressed in a bash script
data.zipa versioned archive of the data under review
HEADthe digital signature of the data under review
index.docxreview in MS Word format
index.htmlreview in HTML format
index.mdreview in Pandoc markdown format
index.pdfreview in PDF format
indexed-citations.csv.gzlist of distinct reference citations for reviewed species\ninteraction claims in gzipped comma-separated values file format
indexed-citations.html.gzlist of distinct reference citations for reviewed species\ninteractions claims in gzipped html file format
indexed-citations.tsv.gzlist of distinct reference citations for reviewed species\ninteraction claims in gzipped tab-separated values format
indexed-interactions-col-family-col-family.svgnetwork diagram showing the taxon family to taxon family interaction\nclaims in the dataset under review as interpreted by the Catalogue of\nLife via Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024)
indexed-interactions-col-kingdom-col-kingdom.svgnetwork diagram showing the taxon kingdom to taxon kingom\ninteraction claims in the dataset under review as interpreted by the\nCatalogue of Life via Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen\n2024)
indexed-interactions.csv.gzspecies interaction claims indexed from the dataset under review in\ngzipped comma-separated values format
indexed-interactions.html.gzspecies interaction claims indexed from the dataset under review in\ngzipped html format
indexed-interactions.tsv.gzspecies interaction claims indexed from the dataset under review in\ngzipped tab-separated values format
indexed-interactions.parquetspecies interaction claims indexed from the dataset under review in\nApache Parquet format
indexed-interactions.pngspecies interaction claims indexed from the dataset under review\nplotted on a map
indexed-interactions.mapmapserver configuration to plot species interaction claims indexed\nfrom the dataset under review on a map
indexed-interactions.gpkgspecies interaction claims indexed from the dataset under review in\nGeoPackage format
indexed-interactions-h3.gpkggeospatially clustered h3 species interaction claims indexed from\nthe dataset under review in GeoPackage format
indexed-interactions-sample.csvlist of species interaction claims indexed from the dataset under\nreview in gzipped comma-separated values format
indexed-interactions-sample.htmlfirst 500 species interaction claims indexed from the dataset under\nreview in html format
indexed-interactions-sample.tsvfirst 500 species interaction claims indexed from the dataset under\nreview in tab-separated values format
indexed-names.csv.gztaxonomic names indexed from the dataset under review in gzipped\ncomma-separated values format
indexed-names.html.gztaxonomic names found in the dataset under review in gzipped html\nformat
indexed-names.tsv.gztaxonomic names found in the dataset under review in gzipped\ntab-separated values format
indexed-names.parquettaxonomic names found in the dataset under review in Apache Parquet\nformat
indexed-names-resolved-col.csv.gztaxonomic names found in the dataset under review aligned with the\nCatalogue of Life as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in gzipped comma-separated values format
indexed-names-resolved-col.html.gztaxonomic names found in the dataset under review aligned with the\nCatalogue of Life as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in gzipped html format
indexed-names-resolved-col.tsv.gztaxonomic names found in the dataset under review aligned with the\nCatalogue of Life as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in gzipped tab-separated values format
indexed-names-resolved-col.parquettaxonomic names found in the dataset under review aligned with the\nCatalogue of Life as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in Apache Parquet format
indexed-names-resolved-discoverlife.csv.gztaxonomic names found in the dataset under review aligned with\nDiscover Life bee species checklist as accessed through the Nomer Corpus\nof Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped\ncomma-separated values format
indexed-names-resolved-discoverlife.html.gztaxonomic names found in the dataset under review aligned with\nDiscover Life bee species checklist as accessed through the Nomer Corpus\nof Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped\nhtml format
indexed-names-resolved-discoverlife.tsv.gztaxonomic names found in the dataset under review aligned with\nDiscover Life bee species checklist as accessed through the Nomer Corpus\nof Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped\ntab-separated values format
indexed-names-resolved-discoverlife.parquettaxonomic names found in the dataset under review aligned with\nDiscover Life bee species checklist as accessed through the Nomer Corpus\nof Taxonomic Resources (J. H. (ed. ). Poelen 2024) in Apache\nParquet format
indexed-names-resolved-gbif.csv.gztaxonomic names found in the dataset under review aligned with GBIF\nBackbone Taxonomy as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in gzipped comma-separated values format
indexed-names-resolved-gbif.html.gztaxonomic names found in the dataset under review aligned with GBIF\nBackbone Taxonomy as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in gzipped html format
indexed-names-resolved-gbif.tsv.gztaxonomic names found in the dataset under review aligned with GBIF\nBackbone Taxonomy as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in gzipped tab-separated values format
indexed-names-resolved-gbif.parquettaxonomic names found in the dataset under review aligned with GBIF\nBackbone Taxonomy as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in Apache Parquet format
indexed-names-resolved-itis.csv.gztaxonomic names found in the dataset under review aligned with\nIntegrated Taxonomic Information System (ITIS) as accessed through the\nNomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped\ncomma-separated values format
indexed-names-resolved-itis.html.gztaxonomic names found in the dataset under review aligned with\nIntegrated Taxonomic Information System (ITIS) as accessed through the\nNomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped\nhtml format
indexed-names-resolved-itis.tsv.gztaxonomic names found in the dataset under review aligned with\nIntegrated Taxonomic Information System (ITIS) as accessed through the\nNomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped\ntab-separated values format
indexed-names-resolved-itis.parquettaxonomic names found in the dataset under review aligned with\nIntegrated Taxonomic Information System (ITIS) as accessed through the\nNomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in Apache\nParquet format
indexed-names-resolved-mdd.csv.gztaxonomic names found in the dataset under review aligned with the\nMammal Diversity Database as accessed through the Nomer Corpus of\nTaxonomic Resources (J.\nH. (ed. ). Poelen 2024) in gzipped comma-separated values\nformat
indexed-names-resolved-mdd.html.gztaxonomic names found in the dataset under review aligned with\nMammal Diversity Database as accessed through the Nomer Corpus of\nTaxonomic Resources (J.\nH. (ed. ). Poelen 2024) in gzipped html format
indexed-names-resolved-mdd.tsv.gztaxonomic names found in the dataset under review aligned with\nMammal Diversity Database as accessed through the Nomer Corpus of\nTaxonomic Resources (J.\nH. (ed. ). Poelen 2024) in gzipped tab-separated values\nformat
indexed-names-resolved-mdd.parquettaxonomic names found in the dataset under review aligned with\nMammal Diversity Database as accessed through the Nomer Corpus of\nTaxonomic Resources (J.\nH. (ed. ). Poelen 2024) in Apache Parquet format
indexed-names-resolved-ncbi.csv.gztaxonomic names found in the dataset under review aligned with the\nNCBI Taxonomy as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in gzipped comma-separated values format
indexed-names-resolved-ncbi.html.gztaxonomic names found in the dataset under review aligned with the\nNCBI Taxonomy as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in gzipped html format
indexed-names-resolved-ncbi.tsv.gztaxonomic names found in the dataset under review aligned with the\nNCBI Taxonomy as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in gzipped tab-separated values format
indexed-names-resolved-ncbi.parquettaxonomic names found in the dataset under review aligned with the\nNCBI Taxonomy as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in Apache Parquet format
indexed-names-resolved-pbdb.csv.gztaxonomic names found in the dataset under review aligned with the\nPaleobiology Database as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in gzipped comma-separated values format
indexed-names-resolved-pbdb.html.gztaxonomic names found in the dataset under review aligned with\nPaleobiology Database as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in gzipped html format
indexed-names-resolved-pbdb.tsv.gztaxonomic names found in the dataset under review aligned with\nPaleobiology Database as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in gzipped tab-separated values format
indexed-names-resolved-pbdb.parquettaxonomic names found in the dataset under review aligned with\nPaleobiology Database as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in Apache Parquet format
indexed-names-resolved-tpt.csv.gztaxonomic names found in the dataset under review aligned with the\nTerrestrial Parasite Tracker (TPT) Taxonomic Resource as accessed\nthrough the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped\ncomma-separated values format
indexed-names-resolved-tpt.html.gztaxonomic names found in the dataset under review aligned with the\nTerrestrial Parasite Tracker (TPT) Taxonomic Resource as accessed\nthrough the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped\nhtml format
indexed-names-resolved-tpt.tsv.gztaxonomic names found in the dataset under review aligned with the\nTerrestrial Parasite Tracker (TPT) Taxonomic Resource as accessed\nthrough the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped\ntab-separated values format
indexed-names-resolved-tpt.parquettaxonomic names found in the dataset under review aligned with the\nTerrestrial Parasite Tracker (TPT) Taxonomic Resource as accessed\nthrough the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in Apache\nParquet format
indexed-names-resolved-wfo.csv.gztaxonomic names found in the dataset under review aligned with the\nWorld of Flora Online as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in gzipped comma-separated values format
indexed-names-resolved-wfo.html.gztaxonomic names found in the dataset under review aligned with the\nWorld of Flora Online as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in gzipped html format
indexed-names-resolved-wfo.tsv.gztaxonomic names found in the dataset under review aligned with the\nWorld of Flora Online as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in gzipped tab-separated values format
indexed-names-resolved-wfo.parquettaxonomic names found in the dataset under review aligned with the\nWorld of Flora Online as accessed through the Nomer Corpus of Taxonomic\nResources (J. H. (ed. ).\nPoelen 2024) in Apache Parquet format
indexed-names-resolved-worms.csv.gztaxonomic names found in the dataset under review aligned with the\nWorld Register of Marine Species (WoRMS) as accessed through the Nomer\nCorpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped\ncomma-separated values format
indexed-names-resolved-worms.html.gztaxonomic names found in the dataset under review aligned with the\nWorld Register of Marine Species (WoRMS) as accessed through the Nomer\nCorpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped\nhtml format
indexed-names-resolved-worms.tsv.gztaxonomic names found in the dataset under review aligned with the\nWorld Register of Marine Species (WoRMS) as accessed through the Nomer\nCorpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped\ntab-separated values format
indexed-names-resolved-worms.parquettaxonomic names found in the dataset under review aligned with the\nWorld Register of Marine Species (WoRMS) as accessed through the Nomer\nCorpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in Apache\nParquet format
indexed-names-sample.csvfirst 500 taxonomic names found in the dataset under review in\ncomma-separated values format
indexed-names-sample.htmlfirst 500 taxonomic names found in the dataset under review in html\nformat
indexed-names-sample.tsvfirst 500 taxonomic names found in the dataset under review in\ntab-separated values format
interaction.svgdiagram summarizing the data model used to index species interaction\nclaims
nanopub-sample.trigfirst 500 species interaction claims as expressed in the nanopub\nformat (Kuhn and Dumontier\n2014)
nanopub.trig.gzspecies interaction claims as expressed in the nanopub format (Kuhn and Dumontier\n2014)
process.svgdiagram summarizing the data review processing workflow
prov.nqorigin of the dataset under review as expressed in rdf/nquads
review.csv.gzreview notes associated with the dataset under review in gzipped\ncomma-separated values format
review.html.gzreview notes associated with the dataset under review in gzipped\nhtml format
review.tsv.gzreview notes associated with the dataset under review in gzipped\ntab-separated values format
review-sample.csvfirst 500 review notes associated with the dataset under review in\ncomma-separated values format
review-sample.htmlfirst 500 review notes associated with the dataset under review in\nhtml format
review-sample.tsvfirst 500 review notes associated with the dataset under review in\ntab-separated values format
review.svga review badge generated as part of the dataset review process
zenodo.jsonmetadata of this review expressed in Zenodo record metadata
\n

Archived Dataset

\n

Note that data.zip file in this\narchive contains the complete, unmodified archived dataset under\nreview.

\n

Biotic Interactions

\n
\n\"Biotic\n
Biotic Interaction Data\nModel
\n
\n

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

\n

The dataset under review, named globalbioticinteractions/mycoportal,\nhas fingerprint hash://md5/ec810b561cb97f8813cf3627fa11bec7, is 510MiB\nin size and contains 1,995,979 interactions with 6 unique types of\nassociations (e.g., hasHost) between 117,907 primary taxa (e.g.,\nErysiphe cichoracearum) and 183,377 associated taxa (e.g., Substrate\nUndetermined).

\n

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

\n

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

\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n
Sample of Indexed Interaction Claims
sourceTaxonNameinteractionTypeNametargetTaxonNamereferenceCitation
Exidia barryiihasHostAcer spicatumhttps://mycoportal.org/portal/collections/individual/index.php?occid=11571021
Glyphium abieticolahasHostAbies concolorhttps://mycoportal.org/portal/collections/individual/index.php?occid=11571180
Leotia lubrica f. stevensoni ined.adjacentTogroundhttps://mycoportal.org/portal/collections/individual/index.php?occid=11571592
Tyromyces durescenshasHostAcer saccharinumhttps://mycoportal.org/portal/collections/individual/index.php?occid=11572234
\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n
Most Frequently Mentioned Interaction Types (up to 20 most\nfrequent)
interactionTypeNamecount
hasHost1518576
adjacentTo378379
interactsWith99008
killedBy10
eats5
hostOf1
\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n
Most Frequently Mentioned Primary Taxa (up to 20 most\nfrequent)
sourceTaxonNamecount
Erysiphe cichoracearum8566
Puccinia graminis8556
Coleosporium solidaginis6607
Puccinia coronata5451
Puccinia helianthi5203
Puccinia menthae5198
Cronartium ribicola5027
Puccinia recondita4892
Puccinia hieracii4755
Erysiphe polygoni4613
Puccinia polygoni-amphibii3915
Otidea onotica3731
Microsphaera alni3595
Melampsora bigelowii3477
Puccinia violae3430
Puccinia dioicae3352
Puccinia andropogonis3046
Puccinia rubigo-vera2992
Claviceps purpurea2937
\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n
Most Frequently Mentioned Associate Taxa (up to 20 most\nfrequent)
targetTaxonNamecount
Substrate Undetermined181477
indet.91748
indet16728
ground13719
Quercus sp.13433
leaves13196
Salix sp.8123
Populus tremuloides6539
Pseudotsuga menziesii6401
Abies balsamea6059
Populus sp.5793
soil5785
Pinus strobus5553
Zea mays5388
Betula sp.4984
Acer sp.4970
Quercus4832
Rosa sp.4761
wood4657
\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n
Most Frequent Interactions between Primary and Associate Taxa\n(up to 20 most frequent)
sourceTaxonNameinteractionTypeNametargetTaxonNamecount
Puccinia podophyllihasHostPodophyllum peltatum1484
PoriahasHostSubstrate Undetermined1361
Puccinia sorghihasHostZea mays1145
Puccinia helianthihasHostHelianthus annuus1066
PolyporushasHostSubstrate Undetermined1000
Puccinia coronatahasHostAvena sativa983
Puccinia hieraciihasHostTaraxacum officinale971
Ustilago avenaehasHostAvena sativa930
CortinariushasHostSubstrate Undetermined875
Uromyces polygonihasHostPolygonum aviculare845
Puccinia malvacearumhasHostAlthaea rosea844
Cronartium ribicolahasHostRibes nigrum828
Puccinia asparagihasHostAsparagus officinalis815
Puccinia convolvulihasHostConvolvulus sepium763
Otidea onoticainteractsWithPseudotsuga menziesii756
Gymnosporangium juniperi-virginianaehasHostJuniperus virginiana754
Puccinia circaeaehasHostCircaea lutetiana736
Polyporus gilvushasHostSubstrate Undetermined696
Uromyces caladiihasHostArisaema triphyllum694
\n

Interaction Networks

\n

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

\n
\n\n
Interactions on taxonomic kingdom rank as\ninterpreted by the Catalogue of Life download\nsvg
\n
\n
\n\n
Interactions on the taxonomic family rank\nas interpreted by the Catalogue of Life. download\nsvg
\n
\n

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

\n

Geospatial Distribution

\n

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

\n
MAP\n  SIZE 1600 800\n  EXTENT -180 -90 180 90\n  PROJECTION\n    "init=epsg:4326"\n  END\n  LAYER # MODIS WMS map from NASA\n    NAME         "modis_nasa"\n    TYPE         RASTER\n    OFFSITE      0 0 0\n    STATUS       ON\n    CONNECTIONTYPE WMS\n    CONNECTION "https://gibs.earthdata.nasa.gov/wms/epsg4326/best/wms.cgi?"\n\n    METADATA\n      "wms_srs" "EPSG:4326"\n      "wms_name" "OSM_Land_Water_Map"\n      "wms_server_version" "1.1.1"\n      "wms_format" "image/jpeg"\n    END\n    CLASS\n      STYLE\n        COLOR        232 232 232\n        OUTLINECOLOR 32 32 32\n      END\n    END\n  END \n  LAYER\n    NAME "indexed-interactions"\n    TYPE POLYGON\n    STATUS ON\n    CONNECTIONTYPE OGR\n    CONNECTION "indexed-interactions-h3.gpkg"\n    DATA "indexed-interactions-h3"\n    CLASS\n      STYLE\n        COLORRANGE 253.0 231.0 37.0 32.0 164.0 134.0\n        DATARANGE 0.3010299956639812 4.8649024816257\n        RANGEITEM "log_number_of_records"\n        OUTLINECOLOR 0 0 0\n      END\n    END\n  END\nEND
\n
\n\n
Hexagonal grid cells indicate that\ninteractions claims are available for selected geospatial area: light\nyellow means relatively fewer claims, dark green relatively more\nclaims.
\n
\n

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

\n

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

\n

Another way to discover the dataset under review is by searching for\nit on the GloBI\nwebsite.

\n

Taxonomic Alignment

\n

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

\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n
Sample of Name Alignments
providedNamerelationNameresolvedCatalogNameresolvedName
FraxinusHAS_ACCEPTED_NAMEcolFraxinus
Arachnopeziza candidofulvaHAS_ACCEPTED_NAMEcolArachnopeziza candidofulva
Arachnopeziza cornutaHAS_ACCEPTED_NAMEcolArachnopeziza cornuta
Arachnopeziza delicatulaSYNONYM_OFcolGorgoniceps delicatula
\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n
Distribution of Taxonomic Ranks of Aligned Names by Catalog.\nNames that were not aligned with a catalog are counted as NAs. So, the\ntotal number of unaligned names for a catalog will be listed in their NA\nrow.
resolvedCatalogNameresolvedRankcount
colNA120264
colclass12
colfamily296
colform12
colgenus6371
colinfraorder3
colkingdom4
colorder41
colphylum9
colsection1
colspecies97204
colsubclass1
colsubfamily27
colsubgenus58
colsuborder5
colsubspecies3100
colsubterclass1
colsubtribe1
colsuperfamily4
colsuperorder2
coltribe18
colunranked1
colvariety1422
discoverlifeNA227343
discoverlifespecies8
gbifNA107808
gbifclass13
gbiffamily342
gbifform102
gbifgenus7035
gbifkingdom5
gbiforder38
gbifphylum11
gbifspecies108193
gbifsubspecies4244
gbifvariety2445
itisNA204460
itisclass10
itisdivision11
itisfamily308
itisform1
itisgenus2940
itisinfraorder2
itiskingdom7
itisorder47
itisphylum3
itisspecies17651
itissubclass3
itissubdivision2
itissubfamily15
itissubgenus7
itissubkingdom1
itissuborder9
itissubphylum1
itissubsection1
itissubspecies817
itissubtribe1
itissuperfamily5
itissuperorder2
itistribe16
itisvariety1138
mddNA227350
ncbiNA179470
ncbiclade11
ncbiclass11
ncbicohort1
ncbifamily294
ncbiforma13
ncbiforma specialis6
ncbigenus5157
ncbiinfraorder3
ncbikingdom2
ncbiorder46
ncbiparvorder1
ncbiphylum8
ncbisection5
ncbiseries1
ncbispecies41728
ncbisubclass2
ncbisubfamily19
ncbisubgenus32
ncbisuborder5
ncbisubphylum4
ncbisubspecies269
ncbisubtribe1
ncbisuperfamily4
ncbisuperkingdom2
ncbisuperorder2
ncbitribe23
ncbivarietas261
pbdbNA225073
pbdbclass11
pbdbfamily236
pbdbgenus1434
pbdbinfraclass1
pbdbinfraorder6
pbdbkingdom4
pbdborder37
pbdbphylum9
pbdbspecies490
pbdbsubclass2
pbdbsubfamily20
pbdbsubgenus2
pbdbsuborder14
pbdbsubphylum1
pbdbsuperfamily4
pbdbsuperorder1
pbdbsuperphylum1
pbdbtribe18
pbdbunranked clade14
tptNA227259
tptfamily2
tptgenus37
tptorder1
tptspecies50
tptspecificepithet1
tptsubspecificepithet1
wfoNA190709
wfofamily167
wfoform14
wfogenus2976
wfoorder1
wfophylum2
wfosection7
wfoseries1
wfospecies31538
wfosubgenus1
wfosubsection1
wfosubspecies1542
wfotribe4
wfovariety1124
wormsNA217515
wormsclass11
wormsfamily230
wormsgenus2194
wormsinfraorder2
wormskingdom4
wormsorder41
wormsphylum3
wormsphylum (division)8
wormssection1
wormsspecies6990
wormssubclass4
wormssubfamily9
wormssubgenus3
wormssuborder9
wormssubphylum1
wormssubphylum (subdivision)2
wormssubspecies312
wormssubterclass1
wormssuperorder2
wormstribe4
wormsvariety270
\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n
Name relationship types per catalog. Name relationship type\n“NONE” means that a name was not recognized by the associated catalog.\n“SAME_AS” indicates either a “HAS_ACCEPTED_NAME” or “SYNONYM_OF” name\nrelationship type. We recognize that “SYNONYM_OF” encompasses many types\nof nomenclatural synonymies (ICZN 1999) (e.g., junior synonym, senior\nsynonyms).
resolvedCatalogNamerelationNamecount
colHAS_ACCEPTED_NAME225457
colSYNONYM_OF216285
colNONE235330
discoverlifeNONE619753
discoverlifeHAS_ACCEPTED_NAME13
discoverlifeSYNONYM_OF9
gbifHAS_ACCEPTED_NAME299844
gbifSYNONYM_OF319605
gbifNONE204938
itisHAS_ACCEPTED_NAME102036
itisNONE476897
itisSYNONYM_OF47649
mddNONE618779
mddHAS_ACCEPTED_NAME23
ncbiSAME_AS177335
ncbiNONE398425
ncbiSYNONYM_OF45923
ncbiCOMMON_NAME_OF166
pbdbHAS_ACCEPTED_NAME24791
pbdbNONE593880
pbdbSYNONYM_OF1547
tptNONE618516
tptHAS_ACCEPTED_NAME293
tptSYNONYM_OF16
wfoHAS_ACCEPTED_NAME111482
wfoNONE449124
wfoSYNONYM_OF86086
wfoHAS_UNCHECKED_NAME23322
wormsNONE557814
wormsHAS_ACCEPTED_NAME58936
wormsSYNONYM_OF20592
\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n
List of Available Name Alignment Reports
catalog namealignment results
colassociated names alignments report in gzipped html, csv, and tsv)
ncbiassociated names alignments report in gzipped html, csv, and tsv)
discoverlifeassociated names alignments report in gzipped html, csv, and tsv)
gbifassociated names alignments report in gzipped html, csv, and tsv)
itisassociated names alignments report in gzipped html, csv, and tsv)
wfoassociated names alignments report in gzipped html, csv, and tsv)
mddassociated names alignments report in gzipped html, csv, and tsv)
tptassociated names alignments report in gzipped html, csv, and tsv)
pbdbassociated names alignments report in gzipped html, csv, and tsv)
wormsassociated names alignments report in gzipped html, csv, and tsv)
\n

Additional Reviews

\n

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

\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n
First few lines in the review notes.
reviewDatereviewCommentTypereviewComment
2026-03-30T15:23:31Zsummaryhttps://github.com/globalbioticinteractions/mycoportal/archive/646fe260d16e7ae85451d1813a1df332e8525a8d.zip
2026-03-30T15:23:31Zsummary1995979 interaction(s)
2026-03-30T15:23:31Zsummary0 note(s)
2026-03-30T15:23:31Zsummary104 info(s)
\n

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

\n

: Most frequently occurring review notes, if any.

\n

For additional information on review notes, please have a look at the\nfirst 500 Review Notes in html format\nor the download full gzipped csv or tsv archives.

\n

GloBI Review Badge

\n

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

\n
\n\"Picture\n
Picture of a GloBI Review Badge 3
\n
\n

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

\n

GloBI Index Badge

\n

If the dataset under review has been registered with\nGloBI, and has been succesfully indexed by GloBI, the GloBI Index\nStatus Badge will turn green. This means that the dataset under review\nwas indexed by GloBI and is available through GloBI services and derived\ndata products.

\n
\n\n
Picture of a GloBI Index Badge 4
\n
\n

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

\n

Discussion

\n

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

\n

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

\n

This report also showcases the reuse of machine-actionable\n(meta)data, something highly recommended by the FAIR Data Principles\n(Wilkinson et al.\n2016). Making (meta)data machine-actionable enables more precise\nprocesing by computers, enabling even naive review bots like Nomer and\nElton to interpret the data effectively. This capability is crucial for\nnot just automating the generation of reports, but also for facilitating\nseamless data exchanges, promoting interoperability.

\n

Acknowledgements

\n

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

\n

Author contributions

\n

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

\n

References

\n
\n
\nElliott, Michael, Jorrit Poelen, Icaro Alzuru, Emilio Berti, and\npartha04patel. 2025. “Bio-Guoda/Preston: 0.10.5.” Zenodo.\nhttps://doi.org/10.5281/zenodo.14662206.\n
\n
\nICZN. 1999. “International Code of Zoological\nNomenclature.” The International Trust for Zoological\nNomenclature, London, UK. https://www.iczn.org/the-code/the-code-online/.\n
\n
\nKuhn, Tobias, and Michel Dumontier. 2014. “Trusty URIs:\nVerifiable, Immutable, and Permanent Digital Artifacts for Linked\nData.” In The Semantic Web: Trends and Challenges,\nedited by Valentina Presutti, Claudia d’Amato, Fabien Gandon, Mathieu\nd’Aquin, Steffen Staab, and Anna Tordai, 395–410. Cham: Springer\nInternational Publishing.\n
\n
\nKuhn, Tobias, Jorrit Poelen, and Katrin Leinweber. 2025.\n“Globalbioticinteractions/Elton: 0.15.1.” Zenodo. https://doi.org/10.5281/zenodo.14927734.\n
\n
\nMcKenna, Jeff, Steve Lime, Thomas Bonfort, Jérome Boué, Howard Butler,\nSeth Girvin, Tom Kralidis, et al. 2025. “MapServer.”\nZenodo. https://doi.org/10.5281/zenodo.17807263.\n
\n
\nPoelen, Jorrit H. (ed.). 2024. “Nomer Corpus of Taxonomic\nResources Hash://Sha256/\nB60c0d25a16ae77b24305782017b1a270b79b5d1746f832650 F2027ba536e276\nHash://Md5/17f1363a277ee0e4ecaf1b91c665e47e.” Zenodo. https://doi.org/10.5281/zenodo.12695629.\n
\n
\nPoelen, Jorrit H., James D. Simons, and Chris J. Mungall. 2014.\n“Global Biotic Interactions: An Open Infrastructure to Share and\nAnalyze Species-Interaction Datasets.” Ecological\nInformatics 24 (November): 148–59. https://doi.org/10.1016/j.ecoinf.2014.08.005.\n
\n
\nPoelen, Jorrit, Katja Seltmann, and Daniel Mietchen. 2024.\n“Globalbioticinteractions/Globinizer: 0.4.0.” Zenodo. https://doi.org/10.5281/zenodo.10647565.\n
\n
\nSalim, José Augusto, and Jorrit Poelen. 2025.\n“Globalbioticinteractions/Nomer: 0.5.15.” Zenodo. https://doi.org/10.5281/zenodo.14893840.\n
\n
\nTrekels, Maarten, Debora Pignatari Drucker, José Augusto Salim, Jeff\nOllerton, Jorrit Poelen, Filipi Miranda Soares, Max Rünzel, Muo Kasina,\nQuentin Groom, and Mariano Devoto. 2023. “WorldFAIR Project (D10.1) Agriculture-related pollinator\ndata standards use cases report.” Zenodo. https://doi.org/10.5281/zenodo.8176978.\n
\n
\nWilkinson, Mark D., Michel Dumontier, IJsbrand Jan Aalbersberg,\nGabrielle Appleton, Myles Axton, Arie Baak, Niklas Blomberg, et al.\n2016. “The FAIR Guiding Principles for Scientific\nData Management and Stewardship.” Scientific Data 3 (1).\nhttps://doi.org/10.1038/sdata.2016.18.\n
\n
\n\n"}],"references":["AAFC-DAOM DwC-Archive | Darwin Core Archive for Canadian National Mycological Herbarium https://mycoportal.org/portal/content/dwca/AAFC-DAOM_DwC-A.zip 2026-03-28T04:37:20.552Z","ARIZ DwC-Archive | Darwin Core Archive for University of Arizona, Gilbertson Mycological Herbarium, specimen-based https://mycoportal.org/portal/content/dwca/ARIZ_DwC-A.zip 2026-03-28T04:37:20.552Z","BISH DwC-Archive | Darwin Core Archive for Bishop Museum, Herbarium Pacificum https://mycoportal.org/portal/content/dwca/BISH_DwC-A.zip 2026-03-28T04:37:20.552Z","BPI DwC-Archive | Darwin Core Archive for USDA United States National Fungus Collections https://mycoportal.org/portal/content/dwca/BPI_DwC-A.zip 2026-03-28T04:37:20.552Z","BRIT DwC-Archive | Darwin Core Archive for Botanical Research Institute of Texas https://mycoportal.org/portal/content/dwca/BRIT_DwC-A.zip 2026-03-28T04:37:20.552Z","BRU DwC-Archive | Darwin Core Archive for Brown University Herbarium - Fungi https://mycoportal.org/portal/content/dwca/BRU_DwC-A.zip 2026-03-28T04:37:20.552Z","CHRB DwC-Archive | Darwin Core Archive for Chrysler Herbarium - Mycological Collection https://mycoportal.org/portal/content/dwca/CHRB_DwC-A.zip 2026-03-28T04:37:20.552Z","CINC DwC-Archive | Darwin Core Archive for University of Cincinnati, Margaret H. Fulford Herbarium - Fungi https://mycoportal.org/portal/content/dwca/CINC_DwC-A.zip 2026-03-28T04:37:20.552Z","CLEMS DwC-Archive | Darwin Core Archive for Clemson University Herbarium https://mycoportal.org/portal/content/dwca/CLEMS_DwC-A.zip 2026-03-28T04:37:20.552Z","CSU DwC-Archive | Darwin Core Archive for University of Central Oklahoma Herbarium - Fungi https://mycoportal.org/portal/content/dwca/CSU_DwC-A.zip 2026-03-28T04:37:20.552Z","CUP DwC-Archive | Darwin Core Archive for Cornell University Plant Pathology Herbarium https://mycoportal.org/portal/content/dwca/CUP_DwC-A.zip 2026-03-28T04:37:20.552Z","DBG-DBG DwC-Archive | Darwin Core Archive for Denver Botanic Gardens, Sam Mitchel Herbarium of Fungi https://mycoportal.org/portal/content/dwca/DBG-DBG_DwC-A.zip 2026-03-28T04:37:20.552Z","DEWV DwC-Archive | Darwin Core Archive for Davis & Elkins College Herbarium - Fungi https://mycoportal.org/portal/content/dwca/DEWV_DwC-A.zip 2026-03-28T04:37:20.552Z","DUKE DwC-Archive | Darwin Core Archive for Duke University Herbarium Fungal Collection https://mycoportal.org/portal/content/dwca/DUKE_DwC-A.zip 2026-03-28T04:37:20.552Z","FLAS DwC-Archive | Darwin Core Archive for University of Florida Herbarium - Fungi https://mycoportal.org/portal/content/dwca/FLAS_DwC-A.zip 2026-03-28T04:37:20.552Z","FLD DwC-Archive | Darwin Core Archive for Fort Lewis College Herbarium https://mycoportal.org/portal/content/dwca/FLD_DwC-A.zip 2026-03-28T04:37:20.552Z","GAM DwC-Archive | Darwin Core Archive for University of Georgia, Julian H. Miller Mycological Herbarium https://mycoportal.org/portal/content/dwca/GAM_DwC-A.zip 2026-03-28T04:37:20.552Z","HCOA DwC-Archive | Darwin Core Archive for College of the Atlantic, Acadia National Park Herbarium https://mycoportal.org/portal/content/dwca/HCOA_DwC-A.zip 2026-03-28T04:37:20.552Z","ILL DwC-Archive | Darwin Core Archive for University of Illinois Fungarium - Fungi https://mycoportal.org/portal/content/dwca/ILL_DwC-A.zip 2026-03-28T04:37:20.552Z","ILLS DwC-Archive | Darwin Core Archive for University of Illinois, Illinois Natural History Survey Fungarium - Fungi https://mycoportal.org/portal/content/dwca/ILLS_DwC-A.zip 2026-03-28T04:37:20.552Z","ISC DwC-Archive | Darwin Core Archive for Iowa State University, Ada Hayden Herbarium https://mycoportal.org/portal/content/dwca/ISC_DwC-A.zip 2026-03-28T04:37:20.552Z","LSUM-Fungi DwC-Archive | Darwin Core Archive for Louisiana State University, Bernard Lowy Mycological Herbarium https://mycoportal.org/portal/content/dwca/LSUM-Fungi_DwC-A.zip 2026-03-28T04:37:20.552Z","MICH DwC-Archive | Darwin Core Archive for University of Michigan Herbarium https://mycoportal.org/portal/content/dwca/MICH_DwC-A.zip 2026-03-28T04:37:20.552Z","MONTU DwC-Archive | Darwin Core Archive for University of Montana Herbarium https://mycoportal.org/portal/content/dwca/MONTU_DwC-A.zip 2026-03-28T04:37:20.552Z","MSC DwC-Archive | Darwin Core Archive for Michigan State University Herbarium non-lichenized fungi https://mycoportal.org/portal/content/dwca/MSC_DwC-A.zip 2026-03-28T04:37:20.552Z","MU DwC-Archive | Darwin Core Archive for Miami University, Willard Sherman Turrell Herbarium https://mycoportal.org/portal/content/dwca/MU_DwC-A.zip 2026-03-28T04:37:20.552Z","NCU-Fungi DwC-Archive | Darwin Core Archive for University of North Carolina at Chapel Hill Herbarium: Fungi https://mycoportal.org/portal/content/dwca/NCU-Fungi_DwC-A.zip 2026-03-28T04:37:20.552Z","NEB DwC-Archive | Darwin Core Archive for University of Nebraska State Museum, C.E. Bessey Herbarium - Fungi https://mycoportal.org/portal/content/dwca/NEB_DwC-A.zip 2026-03-28T04:37:20.552Z","OSC DwC-Archive | Darwin Core Archive for Oregon State University Herbarium https://mycoportal.org/portal/content/dwca/OSC_DwC-A.zip 2026-03-28T04:37:20.552Z","PH DwC-Archive | Darwin Core Archive for Academy of Natural Sciences of Drexel University https://mycoportal.org/portal/content/dwca/PH_DwC-A.zip 2026-03-28T04:37:20.552Z","RMS DwC-Archive | Darwin Core Archive for University of Wyoming, Wilhelm G. Solheim Mycological Herbarium https://mycoportal.org/portal/content/dwca/RMS_DwC-A.zip 2026-03-28T04:37:20.552Z","SFSU DwC-Archive | Darwin Core Archive for San Francisco State University, Harry D. Thiers Herbarium https://mycoportal.org/portal/content/dwca/SFSU_DwC-A.zip 2026-03-28T04:37:20.552Z","SYRF DwC-Archive | Darwin Core Archive for State University of New York, SUNY College of Environmental Science and Forestry Herbarium https://mycoportal.org/portal/content/dwca/SYRF_DwC-A.zip 2026-03-28T04:37:20.552Z","TENN-F DwC-Archive | Darwin Core Archive for University of Tennessee Fungal Herbarium https://mycoportal.org/portal/content/dwca/TENN-F_DwC-A.zip 2026-03-28T04:37:20.552Z","UC DwC-Archive | Darwin Core Archive for University of California Berkeley, University Herbarium https://mycoportal.org/portal/content/dwca/UC_DwC-A.zip 2026-03-28T04:37:20.552Z","UCHT-F DwC-Archive | Darwin Core Archive for University of Tennessee, Chattanooga https://mycoportal.org/portal/content/dwca/UCHT-F_DwC-A.zip 2026-03-28T04:37:20.552Z","UCSC DwC-Archive | Darwin Core Archive for University of California Santa Cruz Fungal Herbarium https://mycoportal.org/portal/content/dwca/UCSC_DwC-A.zip 2026-03-28T04:37:20.552Z","UNCA-UNCA DwC-Archive | Darwin Core Archive for University of North Carolina Asheville https://mycoportal.org/portal/content/dwca/UNCA-UNCA_DwC-A.zip 2026-03-28T04:37:20.552Z","USAM DwC-Archive | Darwin Core Archive for University of South Alabama Herbarium https://mycoportal.org/portal/content/dwca/USAM_DwC-A.zip 2026-03-28T04:37:20.552Z","USCH-Fungi DwC-Archive | Darwin Core Archive for University of South Carolina, A. 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