## Requirements [Elton](https://globalbioticinteractions.org/elton), [Preston](https://globalbioticinteractions.org/preston) (Elliott et al. 2023), [duckdb](https://duckdb.org), and a commandline running [bash](https://en.wikipedia.org/wiki/Bash_(Unix_shell)). ## Steps 1. discover and track signatures of dataset with reviews on Zenodo. See related script [track-dataset-signatures.sh](bin/track-dataset-signatures.sh). ```bash./bin/track-dataset-signatures.sh \ | tee dataset-signatures.txt \ | preston track --algo md5 ``` 2. stage datasets associated with discovered review signatures. See related script [stage-datasets.sh](bin/stage-dataset.sh). For MicrobeNetNet on 2026-02-26, this results in about 4.2 GiB of content in the ```data/``` folder. ```bashcat dataset-signatures.txt \ | ./bin/stage-datasets.sh \ | tee dataset-staged.nq``` or equivalently ```bashpreston head --algo md5 \ | preston cat \ | grep hasVersion \ | preston cat \ | ./bin/stage-datasets.sh \ | tee dataset-staged.nq``` 3. generate a tab-separated values file with a table of interactions extracted from staged datasets using [Elton](https://globalbioticinteractions.org/elton). For MicrobeNetNet on 2026-02-26, this step took a little over an hour on commodity hardware and resulted in a file ```interactions.tsv``` with size ~6.8 GiB containing over 7M lines. ```bashcat dataset-staged.nq \ | elton stream --algo md5 --data-dir data --prov-dir data \ | tee interactions.tsv``` 4. convert the table to generate a file in parquet format to facilitate analysis using tools like [https://duckdb.org](https://duckdb.org) . For MicrobeNetNet on 2026-02-26, this steps some less than a minute and resulted in a file ```interactions.parquet``` with size less than 300 MiB. ```bashduckdb -c "COPY ( SELECT * FROM 'interactions.tsv' ) TO 'interactions.parquet';"``` ## Capacity Queries ### Number of Indexed Interaction Records ```bashduckdb -c "SELECT COUNT(*) FROM 'interactions.parquet';"``` produced ```┌────────────────┐│ count_star() ││ int64 │├────────────────┤│ 7161029 ││ (7.16 million) │└────────────────┘``` ### Top 10 Most Frequently Occurring Source Taxon Name ```bashduckdb -c "SELECT DISTINCT(sourceTaxonName), COUNT(*) as freq FROM 'interactions.parquet' GROUP BY sourceTaxonName ORDER BY freq DESC LIMIT 10;"``` producing ```┌──────────────────────────┬────────┐│ sourceTaxonName │ freq ││ varchar │ int64 │├──────────────────────────┼────────┤│ Funneliformis mosseae │ 498158 ││ Entrophospora lamellosa │ 269038 ││ Rhizophagus irregularis │ 238999 ││ Rhizophagus intraradices │ 185635 ││ Diversispora aurantia │ 171170 ││ Funneliformis caledonius │ 141749 ││ Racocetra castanea │ 110574 ││ Fagus sylvatica │ 108747 ││ Acaulospora koskei │ 87100 ││ Gigaspora decipiens │ 85638 │├──────────────────────────┴────────┤│ 10 rows 2 columns │└───────────────────────────────────┘``` which suggests that _Funneliformis mosseae_, a fungus, is the most frequently reported name in indexed species interaction claims in the dataset corpus under review. ### Generate a list of dataset references To generate a list of dataset references, the following query can be executed: ```duckdb -csv -c "SELECT DISTINCT(citation), archiveURI, CONCAT('accessed on ', DATE(lastSeenAt), '.') as signature FROM 'interactions.parquet' ORDER BY citation;" | mlr --icsv --otsvlite cat | tr '\t' ' ' ``` which resulted in the following reference list: ```AAFC-DAOM DwC-Archive | Darwin Core Archive for Canadian National Mycological Herbarium https://mycoportal.org/portal/content/dwca/AAFC-DAOM_DwC-A.zip accessed on 2026-02-26.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 accessed on 2026-02-26.Abarenkov K, Nilsson RH, Larsson K-H, Taylor AFS, May TW, Frøslev TG, Pawlowska J, Lindahl B, Põldmaa K, Truong C, Vu D, Hosoya T, Niskanen T, Piirmann T, Ivanov F, Zirk A, Peterson M, Cheeke TE, Ishigami Y, Jansson AT, Jeppesen TS, Kristiansson E, Mikryukov V, Miller JT, Oono R, Ossandon FJ, Paupério J, Saar I, Schigel D, Suija A, Tedersoo L, Kõljalg U. 2023. The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes: sequences, taxa and classifications reconsidered. Nucleic Acids Research, https://doi.org/10.1093/nar/gkad1039 hash://md5/64b10f445a32904a32c2949594866e1b accessed on 2026-02-26.BISH DwC-Archive | Darwin Core Archive for Bishop Museum, Herbarium Pacificum https://mycoportal.org/portal/content/dwca/BISH_DwC-A.zip accessed on 2026-02-26.BPI DwC-Archive | Darwin Core Archive for USDA United States National Fungus Collections https://mycoportal.org/portal/content/dwca/BPI_DwC-A.zip accessed on 2026-02-26.BRIT DwC-Archive | Darwin Core Archive for Botanical Research Institute of Texas https://mycoportal.org/portal/content/dwca/BRIT_DwC-A.zip accessed on 2026-02-26.BRU DwC-Archive | Darwin Core Archive for Brown University Herbarium - Fungi https://mycoportal.org/portal/content/dwca/BRU_DwC-A.zip accessed on 2026-02-26.CHRB DwC-Archive | Darwin Core Archive for Chrysler Herbarium - Mycological Collection https://mycoportal.org/portal/content/dwca/CHRB_DwC-A.zip accessed on 2026-02-26.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 accessed on 2026-02-26.CLEMS DwC-Archive | Darwin Core Archive for Clemson University Herbarium https://mycoportal.org/portal/content/dwca/CLEMS_DwC-A.zip accessed on 2026-02-26.CSU DwC-Archive | Darwin Core Archive for University of Central Oklahoma Herbarium - Fungi https://mycoportal.org/portal/content/dwca/CSU_DwC-A.zip accessed on 2026-02-26.CUP DwC-Archive | Darwin Core Archive for Cornell University Plant Pathology Herbarium https://mycoportal.org/portal/content/dwca/CUP_DwC-A.zip accessed on 2026-02-26.Chaudhary, V. B., Rúa, M. A., Antoninka, A., Bever, J. D., Cannon, J., Craig, A., … Hoeksema, J. D. (2016). MycoDB, a global database of plant response to mycorrhizal fungi. Scientific Data, 3, 160028. doi:10.1038/sdata.2016.28 hash://md5/ce4e1d79bb0d7fb1bc4cd8402f92f8e4 accessed on 2026-02-26.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 accessed on 2026-02-26.DEWV DwC-Archive | Darwin Core Archive for Davis & Elkins College Herbarium - Fungi https://mycoportal.org/portal/content/dwca/DEWV_DwC-A.zip accessed on 2026-02-26.DUKE DwC-Archive | Darwin Core Archive for Duke University Herbarium Fungal Collection https://mycoportal.org/portal/content/dwca/DUKE_DwC-A.zip accessed on 2026-02-26.FLAS DwC-Archive | Darwin Core Archive for University of Florida Herbarium - Fungi https://mycoportal.org/portal/content/dwca/FLAS_DwC-A.zip accessed on 2026-02-26.FLD DwC-Archive | Darwin Core Archive for Fort Lewis College Herbarium https://mycoportal.org/portal/content/dwca/FLD_DwC-A.zip accessed on 2026-02-26.Falster, Gallagher et al (2021) AusTraits, a curated plant trait database for the Australian flora. Scientific Data 8: 254, https://doi.org/10.1038/s41597-021-01006-6 hash://md5/c4ccba4b446f6054d81cdb8ffd50a094 accessed on 2026-02-26.Farr, David F.; Rossman, Amy Y.; Castlebury, Lisa A. (2021). United States National Fungus Collections Fungus-Host Dataset. Ag Data Commons. https://doi.org/10.15482/USDA.ADC/1524414. hash://md5/977112d6112bb14f1ad53fc35dbee89b accessed on 2026-02-26.Flores-Moreno, Habacuc, Treseder, Kathleen, K., , Cornwell, William, K., Maynard, Daniel S., Milo, Amy, M., Abarenkov, Kessy, Afkhami, Michelle, E., Aguilar-Trigueros, Carlos, A., Bates, Scott, Bhatnagar, Jennifer, M., Busby, Posy, E., Christian, Natalie, Crowther, Thomas W., Floudas, Dimitri, Gazis, Romina, Hibbett, David, Kennedy, Peter, F., Lindner, Daniel, L., Nilsson, R. Henrik, Powell, Jeff, Schildhauer, Mark, Schilling, Jonathan, Zanne, Amy, E. 2019. fungaltraits aka funfun: a dynamic functional trait database for the world's fungi. Dataset: https://github.com/traitecoevo/fungaltraits. hash://md5/d110a9340dcec040643282eb28e058c2 accessed on 2026-02-26.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 accessed on 2026-02-26.Geoffrey Zahn. (2025). gzahn/GlobalAMF_Database: Initial release (Version v1.0) [Computer software]. Zenodo. https://doi.org/10.5281/ZENODO.14812876 hash://md5/b2b03ae44e6840d2ff89352e2f347156 accessed on 2026-02-26.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 accessed on 2026-02-26.ILL DwC-Archive | Darwin Core Archive for University of Illinois Herbarium https://mycoportal.org/portal/content/dwca/ILL_DwC-A.zip accessed on 2026-02-26.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 accessed on 2026-02-26.ISC DwC-Archive | Darwin Core Archive for Iowa State University, Ada Hayden Herbarium https://mycoportal.org/portal/content/dwca/ISC_DwC-A.zip accessed on 2026-02-26.International Collection of Microorganisms from Plants (ICMP) hash://md5/504fd2501daae09b0b03362146ce5794 accessed on 2026-02-26.Iversen CM, McCormack ML, Baer JK, Powell AS, Chen W, Collins C, Fan Y, Fanin N, Freschet GT, Guo D, Hogan JA, Kou L, Laughlin DC, Lavely E, Liese R, Lin D, Meier IC, Montagnoli A, Roumet C, See CR, Soper F, Terzaghi M, Valverde-Barrantes OJ, Wang C, Wright SJ, Wurzburger N, Zadworny M. 2021. Fine-Root Ecology Database (FRED): A Global Collection of Root Trait Data with Coincident Site, Vegetation, Edaphic, and Climatic Data, Version 3. Oak Ridge National Laboratory, TES SFA, U.S. Department of Energy, Oak Ridge, Tennessee, U.S.A. Access on-line at: https://doi.org/10.25581/ornlsfa.014/1459186. hash://md5/d140be6319ddfc37c5e229163f1cfcaa accessed on 2026-02-26.Kivlin et al. 2025. Microbial Atlas of Predicted Species (MAPS): Arbuscular Mycorrhizal Fungi Records Derived from GenBank. Personal Communication.; Kivlin et al. 2025. Microbial Atlas of Predicted Species (MAPS): Ectomycorrhizal Fungi Records derived from GenBank. Personal Communication. hash://md5/1162b1716c486384eddd59d48ae49658 accessed on 2026-02-26.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 accessed on 2026-02-26.Landcare Research (2014-) New Zealand Fungal Herbarium (PDD) specimen data. hash://md5/bba57bcef60681a314a5711762f13fb9 accessed on 2026-02-26.MICH DwC-Archive | Darwin Core Archive for University of Michigan Herbarium https://mycoportal.org/portal/content/dwca/MICH_DwC-A.zip accessed on 2026-02-26.MONTU DwC-Archive | Darwin Core Archive for University of Montana Herbarium https://mycoportal.org/portal/content/dwca/MONTU_DwC-A.zip accessed on 2026-02-26.MSC DwC-Archive | Darwin Core Archive for Michigan State University Herbarium non-lichenized fungi https://mycoportal.org/portal/content/dwca/MSC_DwC-A.zip accessed on 2026-02-26.MU DwC-Archive | Darwin Core Archive for Miami University, Willard Sherman Turrell Herbarium https://mycoportal.org/portal/content/dwca/MU_DwC-A.zip accessed on 2026-02-26.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 accessed on 2026-02-26.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 accessed on 2026-02-26.OSC DwC-Archive | Darwin Core Archive for Oregon State University Herbarium https://mycoportal.org/portal/content/dwca/OSC_DwC-A.zip accessed on 2026-02-26.PH DwC-Archive | Darwin Core Archive for Academy of Natural Sciences of Drexel University https://mycoportal.org/portal/content/dwca/PH_DwC-A.zip accessed on 2026-02-26.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 hash://md5/188bf43c5fc6e2ca54ff437a6b18fe02 accessed on 2026-02-26.Põlme, S., Abarenkov, K., Henrik Nilsson, R. et al. FungalTraits: a user-friendly traits database of fungi and fungus-like stramenopiles. Fungal Diversity 105, 1–16 (2020). https://doi.org/10.1007/s13225-020-00466-2 hash://md5/165c3c6c75717fb3f1f2635e5c00d7fd accessed on 2026-02-26.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 accessed on 2026-02-26.S. Pehim Limbu, S.L. Stürmer, G. Zahn, C.A. Aguilar-Trigueros, N. Rogers, & V.B. Chaudhary, Climate-linked biogeography of mycorrhizal fungal spore traits, Proc. Natl. Acad. Sci. U.S.A. 122 (29) e2505059122, https://doi.org/10.1073/pnas.2505059122 (2025). hash://md5/16c0e8406681955eb48cc4df5799df99 accessed on 2026-02-26.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 accessed on 2026-02-26.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 accessed on 2026-02-26.TENN-F DwC-Archive | Darwin Core Archive for University of Tennessee Fungal Herbarium https://mycoportal.org/portal/content/dwca/TENN-F_DwC-A.zip accessed on 2026-02-26.UC DwC-Archive | Darwin Core Archive for University of California Berkeley, University Herbarium https://mycoportal.org/portal/content/dwca/UC_DwC-A.zip accessed on 2026-02-26.UCHT-F DwC-Archive | Darwin Core Archive for University of Tennessee, Chattanooga https://mycoportal.org/portal/content/dwca/UCHT-F_DwC-A.zip accessed on 2026-02-26.UCSC DwC-Archive | Darwin Core Archive for University of California Santa Cruz Fungal Herbarium https://mycoportal.org/portal/content/dwca/UCSC_DwC-A.zip accessed on 2026-02-26.UNCA-UNCA DwC-Archive | Darwin Core Archive for University of North Carolina Asheville https://mycoportal.org/portal/content/dwca/UNCA-UNCA_DwC-A.zip accessed on 2026-02-26.USAM DwC-Archive | Darwin Core Archive for University of South Alabama Herbarium https://mycoportal.org/portal/content/dwca/USAM_DwC-A.zip accessed on 2026-02-26.USCH-Fungi DwC-Archive | Darwin Core Archive for University of South Carolina, A. C. Moore Herbarium Fungal Collection https://mycoportal.org/portal/content/dwca/USCH-Fungi_DwC-A.zip accessed on 2026-02-26.USF DwC-Archive | Darwin Core Archive for University of South Florida Herbarium - Fungi including lichens https://mycoportal.org/portal/content/dwca/USF_DwC-A.zip accessed on 2026-02-26.USU-UTC DwC-Archive | Darwin Core Archive for Intermountain Herbarium (fungi, not lichens), Utah State University https://mycoportal.org/portal/content/dwca/USU-UTC_DwC-A.zip accessed on 2026-02-26.UT-M DwC-Archive | Darwin Core Archive for Natural History Museum of Utah Fungarium https://mycoportal.org/portal/content/dwca/UT-M_DwC-A.zip accessed on 2026-02-26.VPI DwC-Archive | Darwin Core Archive for Virginia Tech University, Massey Herbarium - Fungi https://mycoportal.org/portal/content/dwca/VPI_DwC-A.zip accessed on 2026-02-26.VT DwC-Archive | Darwin Core Archive for University of Vermont, Pringle Herbarium, Macrofungi https://mycoportal.org/portal/content/dwca/VT_DwC-A.zip accessed on 2026-02-26.Větrovský, T., Morais, D., Kohout, P., Lepinay, C., Algora, C., Awokunle Hollá, S., Bahnmann, B.D., Bílohnědá, K., Brabcová, V., D’Alò, F., Human, Z.R., Jomura, M., Kolařík, M., Kvasničková, J., Lladó, S., López-Mondéjar, R., Martinović, T., Mašínová, T., Meszárošová, L., Michalčíková, L., Michalová, T., Mundra, S., Navrátilová, D., Odriozola, I., Piché-Choquette, S., Štursová, M., Švec, K., Tláskal, V., Urbanová, M., Vlk, L., Voříšková, J., Žifčáková, L., Baldrian, P., 2020. GlobalFungi, a global database of fungal occurrences from high-throughput-sequencing metabarcoding studies. Scientific Data 7, 228. https://doi.org/10.1038/s41597-020-0567-7 hash://md5/e75277d6232cb6945dd4364ab821bd88 accessed on 2026-02-26.WIS DwC-Archive | Darwin Core Archive for Wisconsin State Herbarium, Fungi https://mycoportal.org/portal/content/dwca/WIS_DwC-A.zip accessed on 2026-02-26.WSP DwC-Archive | Darwin Core Archive for Charles Gardner Shaw Mycological Herbarium, Washington State University https://mycoportal.org/portal/content/dwca/WSP_DwC-A.zip accessed on 2026-02-26.Öpik, M., Vanatoa, A., Vanatoa, E., Moora, M., Davison, J., Kalwij, J.M., Reier, Ü., Zobel, M. 2010. The online database MaarjAM reveals global and ecosystemic distribution patterns in arbuscular mycorrhizal fungi (Glomeromycota). New Phytologist 188: 223-241. hash://md5/fe1613452656aabf5b2fe52b1a49d6d0 accessed on 2026-02-26. ```

References to Datasets Under Review AAFC-DAOM DwC-Archive | Darwin Core Archive for Canadian National Mycological Herbarium https://mycoportal.org/portal/content/dwca/AAFC-DAOM_DwC-A.zip accessed on 2026-02-26. 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 accessed on 2026-02-26. Abarenkov K, Nilsson RH, Larsson K-H, Taylor AFS, May TW, Frøslev TG, Pawlowska J, Lindahl B, Põldmaa K, Truong C, Vu D, Hosoya T, Niskanen T, Piirmann T, Ivanov F, Zirk A, Peterson M, Cheeke TE, Ishigami Y, Jansson AT, Jeppesen TS, Kristiansson E, Mikryukov V, Miller JT, Oono R, Ossandon FJ, Paupério J, Saar I, Schigel D, Suija A, Tedersoo L, Kõljalg U. 2023. The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes: sequences, taxa and classifications reconsidered. Nucleic Acids Research, https://doi.org/10.1093/nar/gkad1039 hash://md5/64b10f445a32904a32c2949594866e1b accessed on 2026-02-26. BISH DwC-Archive | Darwin Core Archive for Bishop Museum, Herbarium Pacificum https://mycoportal.org/portal/content/dwca/BISH_DwC-A.zip accessed on 2026-02-26. BPI DwC-Archive | Darwin Core Archive for USDA United States National Fungus Collections https://mycoportal.org/portal/content/dwca/BPI_DwC-A.zip accessed on 2026-02-26. BRIT DwC-Archive | Darwin Core Archive for Botanical Research Institute of Texas https://mycoportal.org/portal/content/dwca/BRIT_DwC-A.zip accessed on 2026-02-26. BRU DwC-Archive | Darwin Core Archive for Brown University Herbarium - Fungi https://mycoportal.org/portal/content/dwca/BRU_DwC-A.zip accessed on 2026-02-26. CHRB DwC-Archive | Darwin Core Archive for Chrysler Herbarium - Mycological Collection https://mycoportal.org/portal/content/dwca/CHRB_DwC-A.zip accessed on 2026-02-26. 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 accessed on 2026-02-26. CLEMS DwC-Archive | Darwin Core Archive for Clemson University Herbarium https://mycoportal.org/portal/content/dwca/CLEMS_DwC-A.zip accessed on 2026-02-26. CSU DwC-Archive | Darwin Core Archive for University of Central Oklahoma Herbarium - Fungi https://mycoportal.org/portal/content/dwca/CSU_DwC-A.zip accessed on 2026-02-26. CUP DwC-Archive | Darwin Core Archive for Cornell University Plant Pathology Herbarium https://mycoportal.org/portal/content/dwca/CUP_DwC-A.zip accessed on 2026-02-26. Chaudhary, V. B., Rúa, M. A., Antoninka, A., Bever, J. D., Cannon, J., Craig, A., … Hoeksema, J. D. (2016). MycoDB, a global database of plant response to mycorrhizal fungi. Scientific Data, 3, 160028. doi:10.1038/sdata.2016.28 hash://md5/ce4e1d79bb0d7fb1bc4cd8402f92f8e4 accessed on 2026-02-26. 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 accessed on 2026-02-26. DEWV DwC-Archive | Darwin Core Archive for Davis & Elkins College Herbarium - Fungi https://mycoportal.org/portal/content/dwca/DEWV_DwC-A.zip accessed on 2026-02-26. DUKE DwC-Archive | Darwin Core Archive for Duke University Herbarium Fungal Collection https://mycoportal.org/portal/content/dwca/DUKE_DwC-A.zip accessed on 2026-02-26. FLAS DwC-Archive | Darwin Core Archive for University of Florida Herbarium - Fungi https://mycoportal.org/portal/content/dwca/FLAS_DwC-A.zip accessed on 2026-02-26. FLD DwC-Archive | Darwin Core Archive for Fort Lewis College Herbarium https://mycoportal.org/portal/content/dwca/FLD_DwC-A.zip accessed on 2026-02-26. Falster, Gallagher et al (2021) AusTraits, a curated plant trait database for the Australian flora. Scientific Data 8: 254, https://doi.org/10.1038/s41597-021-01006-6 hash://md5/c4ccba4b446f6054d81cdb8ffd50a094 accessed on 2026-02-26. Farr, David F.; Rossman, Amy Y.; Castlebury, Lisa A. (2021). United States National Fungus Collections Fungus-Host Dataset. Ag Data Commons. https://doi.org/10.15482/USDA.ADC/1524414. hash://md5/977112d6112bb14f1ad53fc35dbee89b accessed on 2026-02-26. Flores-Moreno, Habacuc, Treseder, Kathleen, K., , Cornwell, William, K., Maynard, Daniel S., Milo, Amy, M., Abarenkov, Kessy, Afkhami, Michelle, E., Aguilar-Trigueros, Carlos, A., Bates, Scott, Bhatnagar, Jennifer, M., Busby, Posy, E., Christian, Natalie, Crowther, Thomas W., Floudas, Dimitri, Gazis, Romina, Hibbett, David, Kennedy, Peter, F., Lindner, Daniel, L., Nilsson, R. Henrik, Powell, Jeff, Schildhauer, Mark, Schilling, Jonathan, Zanne, Amy, E. 2019. fungaltraits aka funfun: a dynamic functional trait database for the world's fungi. Dataset: https://github.com/traitecoevo/fungaltraits. hash://md5/d110a9340dcec040643282eb28e058c2 accessed on 2026-02-26. 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 accessed on 2026-02-26. Geoffrey Zahn. (2025). gzahn/GlobalAMF_Database: Initial release (Version v1.0) [Computer software]. Zenodo. https://doi.org/10.5281/ZENODO.14812876 hash://md5/b2b03ae44e6840d2ff89352e2f347156 accessed on 2026-02-26. 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 accessed on 2026-02-26. ILL DwC-Archive | Darwin Core Archive for University of Illinois Herbarium https://mycoportal.org/portal/content/dwca/ILL_DwC-A.zip accessed on 2026-02-26. 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Oak Ridge National Laboratory, TES SFA, U.S. Department of Energy, Oak Ridge, Tennessee, U.S.A. Access on-line at: https://doi.org/10.25581/ornlsfa.014/1459186. hash://md5/d140be6319ddfc37c5e229163f1cfcaa accessed on 2026-02-26. Kivlin et al. 2025. Microbial Atlas of Predicted Species (MAPS): Arbuscular Mycorrhizal Fungi Records Derived from GenBank. Personal Communication.; Kivlin et al. 2025. Microbial Atlas of Predicted Species (MAPS): Ectomycorrhizal Fungi Records derived from GenBank. Personal Communication. hash://md5/1162b1716c486384eddd59d48ae49658 accessed on 2026-02-26. 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 accessed on 2026-02-26. Landcare Research (2014-) New Zealand Fungal Herbarium (PDD) specimen data. hash://md5/bba57bcef60681a314a5711762f13fb9 accessed on 2026-02-26. 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This repository provides workflow for building an integrated review corpus of datasets reviewed by Global Biotic Interactions (GloBI, Poelen et al. 2014). The examples below are applied to the collection of datasets mentioned in various meetings facilitated by MicrobeNetNet (Sikes et al. 2024) and includes about 7M interactions claims extracted from over 60 datasets. These examples show that automated data review is possible at scale across heterogeneous datasets of known origin. filename description data.zip Preston archive containing datasets under review biblio.bib reference list of datasets under review (bibtex) interactions.tsv tab-separated value formatted text file containing interaction claims extracted by Elton, a GloBI commandline tool. interactions.parquet interactions claims captured in parquet file format for optimized data analysis. track-dataset-signatures.sh bash script for listing the digital signatures of datasets under review stage-datasets.sh bash script for staging resources need for data review README.md markdown document describing the workflow producing interactions.tsv and interactions.parquet files Summary of interactions.tsv/parquet record values and schema column_name column_type min max approx_unique null_percentage argumentTypeId VARCHAR https://en.wiktionary.org/wiki/support https://en.wiktionary.org/wiki/support 1 0 sourceOccurrenceId VARCHAR 00000fbd-ee11-4c34-b332-7f7c4fe65e9c https://www.ncbi.nlm.nih.gov/nuccore/LT984406 1805588 46.71 sourceCatalogNumber VARCHAR -CUP 72899.00 wsp75652 1528448 71.83 sourceCollectionCode VARCHAR 292354 VDB 236 95.22 sourceCollectionId VARCHAR 0cd2551b-8166-4c05-a0c9-5c8712ce0eb8 f9d2e3a0-7396-41d7-ab74-e9bab47de676 52 71.8 sourceInstitutionCode VARCHAR AAFC WSP 53 71.79 sourceTaxonId VARCHAR 100001 https://maarjam.ut.ee/vtx/VTX00457 111928 71.98 sourceTaxonName VARCHAR "Peziza" adnata zelleromyces 226938 0 sourceTaxonRank VARCHAR Class var. 26 38.87 sourceTaxonPathIds VARCHAR NULL NULL 0 100 sourceTaxonPath VARCHAR Abrothallus | Abrothallus parmeliarum Zymoseptoria | Zymoseptoria tritici 94908 38.05 sourceTaxonPathNames VARCHAR family phylum | class | order | family | genus 30 38.05 sourceBodyPartId VARCHAR http://purl.obolibrary.org/obo/PO_0025025 http://purl.obolibrary.org/obo/PO_0025025 1 99.2 sourceBodyPartName VARCHAR 1nd year stem – cambium/phloem/bark ± 2 cm fragments of fine Picea roots 346 74.09 sourceLifeStageId VARCHAR NULL NULL 0 100 sourceLifeStageName VARCHAR "Aecidium" I young fruit body 862 98.98 sourceSexId VARCHAR NULL NULL 0 100 sourceSexName VARCHAR +, - male 10 99.99 interactionTypeId VARCHAR http://purl.obolibrary.org/obo/RO_0002220 http://purl.obolibrary.org/obo/RO_0008506 13 0 interactionTypeName VARCHAR adjacentTo symbiontOf 15 0 targetOccurrenceId VARCHAR NULL NULL 0 100 targetCatalogNumber VARCHAR NULL NULL 0 100 targetCollectionCode VARCHAR NULL NULL 0 100 targetCollectionId VARCHAR NULL NULL 0 100 targetInstitutionCode VARCHAR NULL NULL 0 100 targetTaxonId VARCHAR NULL NULL 0 100 targetTaxonName VARCHAR " a bacterial disease. На листьях мака амурского [Leaves of poppy (Papaver anomalum Fedde.)] 253190 0 targetTaxonRank VARCHAR family subspecies 6 97.73 targetTaxonPathIds VARCHAR NULL NULL 0 100 targetTaxonPath VARCHAR Alismatales | Alismataceae | Echinodorus | Echinodorus ranunculoides unspecified family | unspecified genus | unspecified genus unspecified species 676 97.59 targetTaxonPathNames VARCHAR class | order | family | genus order | family | genus | species 9 97.59 targetBodyPartId VARCHAR http://purl.obolibrary.org/obo/PO_0025025 http://purl.obolibrary.org/obo/PO_0025025 1 99.09 targetBodyPartName VARCHAR Ectomycorrhiza wood 23 98.45 targetLifeStageId VARCHAR NULL NULL 0 100 targetLifeStageName VARCHAR NULL NULL 0 100 targetSexId VARCHAR NULL NULL 0 100 targetSexName VARCHAR NULL NULL 0 100 basisOfRecordId VARCHAR NULL NULL 0 100 basisOfRecordName VARCHAR . uredinium-bearing leaves 28 71.5 http://rs.tdwg.org/dwc/terms/eventDate VARCHAR 0000-01-01T00:00:00Z 9164-08-01T00:00:00Z 52511 41.83 decimalLatitude VARCHAR -0.006666667 90 124624 28.03 decimalLongitude VARCHAR -0.002968 99.951591 123002 28.03 localityId VARCHAR An south campus 10 100 localityName VARCHAR Москва, Главный ботанический сад АН СССР. [Moscow, Main Botanical garden, USSR Academy of Sciences.] 488188 8.75 referenceDoi VARCHAR 10.1002/(SICI)1097-4539(199909/10)28:53.0.CO;2-8 10.7717/peerj.8527 2199 73.8 referenceUrl VARCHAR https://doi.org/10.1002/(SICI)1097-4539(199909/10)28:5%3C335::AID-XRS361%3E3.0.CO;2-8 https://www.ncbi.nlm.nih.gov/nuccore/U96145 1652793 44.46 referenceCitation VARCHAR , Chen, C.Q., Zhi, Y., and Gao, J.. 2013. First Report of Fruit Rot on %Schisandra chinensis% Caused by %Penicillium glabrum% and %Penicillium adametzii% in China. Pl. Dis. 97:288 Řezáčová, V., Řezáč, M., Gryndler, M., Hršelová, H., Gryndlerová, H. and Michalová, T., 2021. Plant invasion alters community structure and decreases diversity of arbuscular mycorrhizal fungal communities. 1647520 0 namespace VARCHAR globalbioticinteractions/austraits globalbioticinteractions/usda-fungus-host 17 0 citation VARCHAR AAFC-DAOM DwC-Archive | Darwin Core Archive for Canadian National Mycological Herbarium Öpik, M., Vanatoa, A., Vanatoa, E., Moora, M., Davison, J., Kalwij, J.M., Reier, Ü., Zobel, M. 2010. The online database MaarjAM reveals global and ecosystemic distribution patterns in arbuscular mycorrhizal fungi (Glomeromycota). New Phytologist 188: 223-241. 70 0 archiveURI VARCHAR hash://md5/1162b1716c486384eddd59d48ae49658 https://mycoportal.org/portal/content/dwca/WSP_DwC-A.zip 54 0 lastSeenAt TIMESTAMP WITH TIME ZONE 2026-02-26 21:45:27.233+01 2026-02-26 22:49:21.019+01 19 0 contentHash VARCHAR urn:uuid:0659a54f-b713-4f86-a917-5be166a14110 urn:uuid:0659a54f-b713-4f86-a917-5be166a14110 1 0 eltonVersion VARCHAR 0.16.6 0.16.6 1 0