DOI: 10.5281/zenodo.13904174
title: TRY 6.0 - Species List from Taxonomic Harmonization – Matches with World Flora Online version 2023.12

description: Standardized names for TRY 6.0 are available from the TRY File Archive (TFA; see here: https://www.try-db.org/TryWeb/Data.php#100); these were created for the following publication:

Schellenberger Costa, D., Boehnisch, G., Freiberg, M., Govaerts, R., Grenié, M., Hassler, M., Kattge, J., Muellner-Riehl, A.N., Rojas Andrés, B.M., Winter, M., Watson, M., Zizka, A. and Wirth, C. (2023), The big four of plant taxonomy – a comparison of global checklists of vascular plant names. New Phytol, 240: 1687-1702. https://doi.org/10.1111/nph.18961

Here matched records are provided with the taxonomic backbone of World Flora Online (WFO) version 2023.01, obtained from https://zenodo.org/records/10425161.

Matches with WFO are given in the Zenodo archive in the fields for SID (=taxonID in WFO), scientificName (as in WFO) and scientificNameAuthorship (as in WFO). Fields of TRY_SpeciesID, TRY_AccSpeciesNameScientific and RecommendedScientificName were directly obtained from the TFA.

 

Matching was done via following steps:

1. Fungi matched in the TFA via the http://indexfungorum.org  were excluded (4,099 records).

2. The matching record in WFO was obtained by matching the TFA field of TPL_ID with the WFO field of tplID. Successful matches via this method are indicated in this Zenodo archive by the field of MATCH being set to TPL ID.

3.      Where matches in WFO included a non-empty acceptedNameUsageID, the currently accepted name of the taxon was obtained via this ID. Successful matches via this method are indicated in this Zenodo archive by the field of MATCH being set to TPL ID and fields of synonymID, scientificName.synonym and scientificNameAuthorship.synonym showing details for the match with the synonym.

4.      Taxa that were not matched in previous steps were matched for the TFA field of MatchedName. Matching was done via the WorldFlora package version 1.14-5 (Kindt 2020). Matches expected to be acceptable after visual inspection are indicated in this Zenodo archive by the field of MATCH being set to manual. Taxa at specific and infraspecific levels from the TFA where matches had only been achieved at generic levels for the MatchedName were excluded in this step.

5.      Taxa that were not matched in previous steps were matched for the TFA field of TRY_AccSpeciesName. Matching was done via the WorldFlora package version 1.14-5 (Kindt 2020). Matches expected to be acceptable after visual inspection are indicated in this Zenodo archive by the field of MATCH being set to manual.

6.      Taxa that were not matched in previous steps were matched for the TFA field of AlternativeName. Matching was done via the WorldFlora package version 1.14-5 (Kindt 2020). Matches expected to be acceptable after visual inspection are indicated in this Zenodo archive by the field of MATCH being set to manual.

7.      Taxa that were not matched in previous steps were matched for the TFA field of MatchedName against version 11 of the World Checklist of Vascular Plants. Matching was also done via the WorldFlora package version 1.14-5 (Kindt 2020), with similar scripts as shown in this Rpub. Matches expected to be acceptable after visual inspection are indicated in this Zenodo archive by the field of MATCH being set to manual and by the field of SID (and possibly synonymID) containing records where the WCVP ID is preceded by WCVP-.

8.      836 records where neither the TFA nor the previous steps managed to establish a match were removed.

9.      Taxa that could not be matched in previous steps are flagged by the field of MATCH being set to NONE - no species MatchedName (where TFA also did not achieve a match at the required specific or infraspecific level) or NONE (other records where no match was achieved).

 

The Zenodo archive contains 406,208 records with matches via the TPL, 96,040 records with manual matches, 1,822 records where the TFA also not achieve matches at required (infra-)specific levels and 361 records where no match was achieved (among this latter category were 202 records flagged in TFA as ‘not found in WFO’ and 140 records flagged in TFA as ‘found only here’).

 

References

·         Kattge J. 2023. TRY 6.0 - Species List from Taxonomic Harmonization. https://www.try-db.org/TryWeb/Data.php#100

·         Schellenberger Costa, D., Boehnisch, G., Freiberg, M., Govaerts, R., Grenié, M., Hassler, M., Kattge, J., Muellner-Riehl, A.N., Rojas Andrés, B.M., Winter, M., Watson, M., Zizka, A. and Wirth, C. (2023), The big four of plant taxonomy – a comparison of global checklists of vascular plant names. New Phytol, 240: 1687-1702. https://doi.org/10.1111/nph.18961

·         The World Flora Online Consortium, Alan Elliott, Roger Hyam, William Ulate, Mark Watson, Gregory Anderson, Giovani carlos Andrella, et al. “World Flora Online Plant List December 2023”. Zenodo, December 22, 2023. https://doi.org/10.5281/zenodo.10425161.

·         Kindt R (2020). “WorldFlora: An R package for exact and fuzzy matching of plant names against the World Flora Online taxonomic backbone data.” Applications in Plant Sciences, 8(9), e11388. https://doi.org/10.1002/aps3.11388

·         Borsch, T., Berendsohn, W., Dalcin, E., Delmas, M., Demissew, S., Elliott, A., Fritsch, P., Fuchs, A., Geltman, D., Güner, A., Haevermans, T., Knapp, S., le Roux, M.M., Loizeau, P.-A., Miller, C., Miller, J., Miller, J.T., Palese, R., Paton, A., Parnell, J., Pendry, C., Qin, H.-N., Sosa, V., Sosef, M., von Raab-Straube, E., Ranwashe, F., Raz, L., Salimov, R., Smets, E., Thiers, B., Thomas, W., Tulig, M., Ulate, W., Ung, V., Watson, M., Jackson, P.W. and Zamora, N. (2020), World Flora Online: Placing taxonomists at the heart of a definitive and comprehensive global resource on the world's plants. TAXON, 69: 1311-1341. https://doi.org/10.1002/tax.12373

·         Govaerts, R., Nic Lughadha, E., Black, N. et al. The World Checklist of Vascular Plants, a continuously updated resource for exploring global plant diversity. Sci Data 8, 215 (2021). https://doi.org/10.1038/s41597-021-00997-6

 

The development of this archive supported by the Darwin Initiative to project DAREX001 of Developing a Global Biodiversity Standard certification for tree-planting and restoration, by Norway’s International Climate and Forest Initiative through the Royal Norwegian Embassy in Ethiopia to the Provision of Adequate Tree Seed Portfolio project in Ethiopia, by the Green Climate Fund through the IUCN-led Transforming the Eastern Province of Rwanda through Adaptation project and through the Readiness proposal on Climate Appropriate Portfolios of Tree Diversity for Burkina Faso, by the Bezos Earth Fund to the Bezos Quality Tree Seed for Africa in Kenya and Rwanda project and by the German International Climate Initiative (IKI) to the regional tree seed programme on The Right Tree for the Right Place for the Right Purpose in Africa.