HiDaFernPT: Historical data of spore availability for 121 fern and lycopod taxa in Portugal (1926 – 2013)

Data Records

The data in this occurrence resource has been published as a Darwin Core Archive (DwC-A), which is a standardized format for sharing biodiversity data as a set of one or more data tables. The core data table contains 3,383 records.

This IPT archives the data and thus serves as the data repository. The data and resource metadata are available for download in the downloads section. The versions table lists other versions of the resource that have been made publicly available and allows tracking changes made to the resource over time.

Versions

The table below shows only published versions of the resource that are publicly accessible.

How to cite

Researchers should cite this work as follows:

Timóteo S, Heleno R, Covelo F, Santos J, Lopes P, Gouveia A C, Matos A, Salgado A, Girão da Cruz M T, Farminhão J, Horta M, Barreto G, Marques A V, Craveiro L, Pinto P, Santos M, Nunes B, Barreiro M, Dias A, Rodrigues G, Esteves L, Wanderley M, Santos I, Artiaga J P, Veríssimo J, Vilhena I, Moniz L, Leão A, Couras M, Mendes S B, Nereu M, Silva A M D D, Sales F, Gonçalves M T, Coutinho A, Freitas H, Silva J S, Ramos J, Marchante E, Costa J M (2023). Historical data of spore availability for 109 spontaneous and cultivated ferns and lycopods taxa in Portugal (1926 – 2013). Version 1.0. No organization. Occurrence dataset. http://194.210.120.147:8080/resource?r=ferns_lycopods_jbuc_is&v=1.0

Rights

Researchers should respect the following rights statement:

The publisher and rights holder of this work is Jardim Botânico da Universidade de Coimbra. This work is licensed under a Creative Commons Attribution Non Commercial (CC-BY-NC 4.0) License.

GBIF Registration

This resource has been registered with GBIF, and assigned the following GBIF UUID: 3de9aa6f-1f17-43d6-b46c-d6f5ada0b562.  Jardim Botânico da Universidade de Coimbra publishes this resource, and is itself registered in GBIF as a data publisher endorsed by GBIF Portugal.

Keywords

Occurrence; Ferns; Lycopods; Historical data; Index Seminum; Spores; Portugal

Contacts

Geographic Coverage

Mainland Portugal

Taxonomic Coverage

Plants identified to species or infraspecific level.

Temporal Coverage

Project Data

No Description available

Sampling Methods

This dataset includes the records of ferns and lycopods spores collected since 1926 by the staff of the Botanic Garden of the University of Coimbra. It includes the date, location, and species or infraspecific taxa for the spores collected every year to integrate the Botanic Garden of the University of Coimbra Index Seminum.

Method step description:

1. Taxonomic harmonization: - initial verification by botanist from the Herbarium of the University of Coimbra, to check small typos and authorities misspellings; - harmonization through the Global Name Resolver using function gnr_resolve from the R (R Core Team 2023) package taxixe 0.9.9 (Chamberlain & Szöcs 2013, Chamberlain et al. 2020), against the Global Biodiversity Information Facility - GBIF backbone, accessed on 2023-03-01; - species classification as native or introduced to Portugal based on the World Checklist of Vascular Plants - WCVP (Govaerts et al. 2021), using function wcvp_distribution from the R package rWCVP (Brown et al. 2023), accessed on 2023-06-28. The data set includes the original name, and the harmonized taxonomy based on GBIF and WCVP. Georeferencing protocol: - original record of collection localities clustered based on textual description using OpenRefine, followed by manual inspection; - locations georeferenced with point-radius georeferencing method (Chapman & Wieczorek 2020, Zermoglio et al. 2020), with geographic coordinates, and corresponding confidence intervals, obtained with Maps.ie (Maps.ie 2023), and uncertainty obtained with Georeferencing Calculator (Bloom et al. 2020; Wieczorek et al. 2021); - administrative levels obatined with Google Geocoding API through the Reverse Geocoding Service (Google 2022); - elevation retrieved with Google Elevation API.

Bibliographic Citations

1. R Core Team. (2023). R: A language and environment for statistical computing.
2. Chamberlain, S.A. & Szöcs, E. (2013). taxize: taxonomic search and retrieval in R. F1000Research. 10.12688/f1000research.2-191.v2
3. Chamberlain, S., Szoecs, E., Foster, Z., Arendsee, Z., Boettiger, C., Ram, K., Bartomeus, I., Baumgartner, J., O’Donnell, J. & Oksanen, J. (2020). taxize: Taxonomic information from around the web. R package version 0.9, 92.
4. Govaerts, R., Nic Lughadha, E., Black, N., Turner, R. & Paton, A. (2021). The World Checklist of Vascular Plants, a continuously updated resource for exploring global plant diversity. Scientific Data 8, 215. 10.1038/s41597-021-00997-6
5. Brown, M.J.M., Walker, B.E., Black, N., Govaerts, R.H.A., Ondo, I., Turner, R. & Nic Lughadha, E. (2023). rWCVP: a companion R package for the World Checklist of Vascular Plants. New Phytologist, 1–10. 10.1111/nph.18919
6. Chapman, A. D. & Wieczorek, J. R. (2020). Georeferencing best practices. Version 1.0. 10.15468/doc-gg7h-s853
7. Zermoglio P.F., Chapman A.D., Wieczorek J.R., Luna M.C. & Bloom D.A. (2020). Georeferencing Quick Reference Guide. Copenhagen: GBIF Secretariat 10.35035/e09p-h128
8. Maps.ie. (2023). https://www.maps.ie/draw-radius-circle-map. Accessed on 2023-03-20.
9. Bloom, D. A., Wieczorek, J. R. & Zermoglio, P. F. (2020). Georeferencing Calculator Manual. Copenhagen: GBIF Secretariat. Version 1.0. 10.35035/gdwq-3v93
10. Wieczorek, C. & Wieczorek, J. (2020). Georeferencing Calculator; http://georeferencing.org/georefcalculator/gc.html. Accessed on 2022-08-29, 2021.
11. Google. (2022). Google Geocoding API https://developers.google.com/maps/documentation/geocoding/start. Accessed on 2022-08-29.

Additional Metadata