{"metadata":{"related_identifiers":[{"relation":"isAlternateIdentifier","identifier":"hash://md5/0c5c6ed547e21ae04f948a31e0806f13"},{"relation":"isAlternateIdentifier","identifier":"urn:lsid:globalbioticinteractions.org:dataset:globalbioticinteractions/policelli2023"},{"relation":"hasVersion","identifier":"hash://md5/0c5c6ed547e21ae04f948a31e0806f13"},{"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/policelli2023 hash://md5/0c5c6ed547e21ae04f948a31e0806f13","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/policelli2023, has fingerprint hash://md5/0c5c6ed547e21ae04f948a31e0806f13, is 229KiB in size and contains 695 interactions with 1 unique type of association (e.g., hasEctomycorrhizalHost) between 309 primary taxa (e.g., Suillus luteus) and 16 associated taxa (e.g., Pinus sp.). This report includes detailed summaries of interaction data, a taxonomic review from multiple catalogs, and an archived version of the dataset from which the reviews are derived.\n","additional_descriptions":[{"type":{"id":"technical-info"},"description":"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

Policelli, N., Hoeksema, J.D., Moyano, J., Vilgalys, R., Vivelo, S.\nand Bhatnagar, J.M. (2023), Global pine tree invasions are linked to\ninvasive root symbionts. New Phytol, 237: 16-21.\nhttps://doi.org/10.1111/nph.18527\nhttps://github.com/globalbioticinteractions/policelli2023/archive/dbf8c7119e081118d3fdbfb27a67037786eab885.zip\n2026-03-28T05:28:11.364Z hash://md5/0c5c6ed547e21ae04f948a31e0806f13

\n
\n

For additional metadata related to this dataset, please visit https://github.com/globalbioticinteractions/policelli2023\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.  229KiB) under review \nelton pull globalbioticinteractions/policelli2023\n\n# generate review notes\nelton review globalbioticinteractions/policelli2023\\\n > review.tsv\n\n# export indexed interaction records\nelton interactions globalbioticinteractions/policelli2023\\\n > interactions.tsv\n\n# export names and align them with the Catalogue of Life using Nomer \nelton names globalbioticinteractions/policelli2023\\\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\nglobalbioticinteractions/policelli2023, has fingerprint\nhash://md5/0c5c6ed547e21ae04f948a31e0806f13, is 229KiB in size and\ncontains 695 interactions with 1 unique type of association (e.g.,\nhasEctomycorrhizalHost) between 309 primary taxa (e.g., Suillus luteus)\nand 16 associated taxa (e.g., Pinus sp.).

\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
Amanita excelsahasEctomycorrhizalHostPinus sp.Hall et al. 2003
Amanita excelsahasEctomycorrhizalHostPinus sp.Lundquist 1986
Amanita excelsahasEctomycorrhizalHostPinus sp.Lundquist 1987a
Amanita excelsahasEctomycorrhizalHostPinus sp.Reid & Eicker 1991
\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
hasEctomycorrhizalHost695
\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\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
Suillus luteus45
Amanita muscaria33
Suillus granulatus30
Thelephora terrestris23
Rhizopogon luteolus14
Suillus placidus13
Lactarius deliciosus10
Scleroderma bovista10
Chalciporus piperatus9
Hebeloma crustuliniforme9
Rhizopogon rubescens9
Suillus bovinus9
Amanita rubescens8
Boletus edulis8
Rhizopogon roseolus8
Scleroderma citrinum8
Suillus brevipes8
Tomentella sp.7
Wilcoxina mikolae7
\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\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
Pinus sp.142
Pinus sylvestris128
Pinus radiata112
Pinus spp.67
Pinus elliotti50
Pinus ponderosa39
Pinus contorta39
Pinus spp35
Pinus taeda28
Pinus strobus27
Pinus patula13
Pinus caribaea8
Pinus pinaster3
Pinus cembra2
Pinus pinea1
Pinus virginiana1
\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\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
Amanita muscariahasEctomycorrhizalHostPinus sp.14
Suillus luteushasEctomycorrhizalHostPinus sp.13
Suillus granulatushasEctomycorrhizalHostPinus spp.11
Suillus granulatushasEctomycorrhizalHostPinus sp.10
Suillus luteushasEctomycorrhizalHostPinus radiata10
Suillus placidushasEctomycorrhizalHostPinus strobus9
Amanita muscariahasEctomycorrhizalHostPinus radiata8
Thelephora terrestrishasEctomycorrhizalHostPinus radiata7
Amanita excelsahasEctomycorrhizalHostPinus sp.6
Rhizopogon rubescenshasEctomycorrhizalHostPinus radiata6
Suillus luteushasEctomycorrhizalHostPinus contorta6
Lactarius deliciosushasEctomycorrhizalHostPinus sp.5
Rhizopogon luteolushasEctomycorrhizalHostPinus radiata5
Suillus luteushasEctomycorrhizalHostPinus spp.5
Amanita muscariahasEctomycorrhizalHostPinus spp.4
Amanita rubescenshasEctomycorrhizalHostPinus sp.4
Boletus edulishasEctomycorrhizalHostPinus sp.4
Hebeloma crustuliniformehasEctomycorrhizalHostPinus spp.4
Scleroderma bovistahasEctomycorrhizalHostPinus radiata4
\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 2.05307844348342\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
Sample of Name Alignments
providedNamerelationNameresolvedCatalogNameresolvedName
Albatrellus ovinusHAS_ACCEPTED_NAMEcolAlbatrellus ovinus
Amanita excelsaHAS_ACCEPTED_NAMEcolAmanita excelsa
Amanita gemmataHAS_ACCEPTED_NAMEcolAmanita gemmata
Amanita muscariaHAS_ACCEPTED_NAMEcolAmanita muscaria
\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\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
colNA19
colclass1
colfamily7
colgenus32
colorder4
colspecies150
colvariety2
discoverlifeNA213
gbifNA10
gbifclass1
gbiffamily7
gbifgenus35
gbiforder4
gbifspecies156
gbifvariety3
itisNA181
itisclass1
itisfamily7
itisgenus6
itisorder4
itisspecies14
itisvariety1
mddNA213
ncbiNA28
ncbiclass1
ncbifamily7
ncbigenus35
ncbiorder4
ncbispecies138
pbdbNA204
pbdbgenus5
pbdborder1
pbdbspecies4
tptNA213
wfoNA199
wfogenus1
wfospecies13
wfovariety1
wormsNA185
wormsclass1
wormsfamily6
wormsgenus15
wormsorder3
wormsspecies3
\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\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_NAME306
colNONE19
colSYNONYM_OF43
discoverlifeNONE325
gbifHAS_ACCEPTED_NAME397
gbifSYNONYM_OF149
gbifNONE10
itisNONE279
itisHAS_ACCEPTED_NAME45
itisSYNONYM_OF5
mddNONE325
ncbiSAME_AS297
ncbiNONE28
ncbiSYNONYM_OF12
pbdbNONE308
pbdbHAS_ACCEPTED_NAME18
pbdbSYNONYM_OF3
tptNONE325
wfoNONE309
wfoHAS_ACCEPTED_NAME15
wfoSYNONYM_OF3
wormsNONE252
wormsHAS_ACCEPTED_NAME75
wormsSYNONYM_OF7
\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\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
2026-03-30T09:14:48Zsummaryhttps://github.com/globalbioticinteractions/policelli2023/archive/dbf8c7119e081118d3fdbfb27a67037786eab885.zip
2026-03-30T09:14:48Zsummary695 interaction(s)
2026-03-30T09:14:48Zsummary0 note(s)
2026-03-30T09:14:48Zsummary695 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":["Policelli, N., Hoeksema, J.D., Moyano, J., Vilgalys, R., Vivelo, S. and Bhatnagar, J.M. (2023), Global pine tree invasions are linked to invasive root symbionts. New Phytol, 237: 16-21. https://doi.org/10.1111/nph.18527 https://github.com/globalbioticinteractions/policelli2023/archive/dbf8c7119e081118d3fdbfb27a67037786eab885.zip 2026-03-28T05:28:11.364Z hash://md5/0c5c6ed547e21ae04f948a31e0806f13"]}}