Description
This dataset provides information on the exact day and site where spores of 109 taxa of ferns and lycopos were collected for the Index Seminum (seed exchange catalogue) of the Botanic Garden of the University of Coimbra, between 1926 and 2013. Spores were collected from spontaneous and cultivated individuals across Portugal, including both native and introduced taxa. The database consists of 3,383 curated records with information on the species, or infraspecific taxa (including authority), and the day and site where spores were collected. All records are georeferenced and provided with a confidence interval for the collection site.
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:
Heleno R, Costa J M, 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, Timóteo S (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:
This work is licensed under a Creative Commons Attribution Non Commercial (CC-BY-NC 4.0) License.
GBIF Registration
This resource has not been registered with GBIF
Keywords
Occurrence; Ferns; Lycopods; Historical data; Index Seminum; Spores; Portugal
Contacts
- Metadata Provider ●
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- Point Of Contact
https://orcid.org/0000-0002-4808-4907
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Geographic Coverage
Mainland Portugal
| Bounding Coordinates | South West [37.283, -9.048], North East [41.642, -6.905] |
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Taxonomic Coverage
Plants identified to species or infraspecific level.
| Kingdom | Plantae |
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| Phylum | Tracheophyta |
| Class | Lycopodiopsida, Polypodiopsida |
Temporal Coverage
| Start Date / End Date | 1926-05-06 / 2013-11-30 |
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Sampling Methods
This dataset includes the records 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 Batanic Garden of the University of Coimbra Index Seminum.
| Study Extent | Data covers mainland Portugal. |
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| Quality Control | Intermidiate quality checks at data entry, taxonomic harmonization and georeferencing stages to detect and correct errors. Final quality check of 1000 random entries. |
Method step description:
- 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
- R Core Team. (2023). R: A language and environment for statistical computing.
- Chamberlain, S.A. & Szöcs, E. (2013). taxize: taxonomic search and retrieval in R. F1000Research. 10.12688/f1000research.2-191.v2
- 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.
- 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
- 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
- Chapman, A. D. & Wieczorek, J. R. (2020). Georeferencing best practices. Version 1.0. 10.15468/doc-gg7h-s853
- 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
- Maps.ie. (2023). https://www.maps.ie/draw-radius-circle-map. Accessed on 2023-03-20.
- Bloom, D. A., Wieczorek, J. R. & Zermoglio, P. F. (2020). Georeferencing Calculator Manual. Copenhagen: GBIF Secretariat. Version 1.0. 10.35035/gdwq-3v93
- Wieczorek, C. & Wieczorek, J. (2020). Georeferencing Calculator; http://georeferencing.org/georefcalculator/gc.html. Accessed on 2022-08-29, 2021.
- Google. (2022). Google Geocoding API https://developers.google.com/maps/documentation/geocoding/start. Accessed on 2022-08-29.
Additional Metadata
| Alternative Identifiers | http://194.210.120.147:8080/resource?r=ferns_lycopods_jbuc_is |
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