v1.0.2

StatusAssignment

Anna Rönnfeldt¹, Katrin Schifferle¹, Valén Holle¹, Juliano Sarmento Cabral^2,3, Dylan Craven^4,5, Tiffany Knight^6,7,8,9, Hanno Seebens¹⁰, Patrick Weigelt¹¹, Damaris Zurell¹

1. University of Potsdam, Institute of Biochemistry and Biology, Am Neuen Palais 10, 14469 Potsdam, Germany
2. School of Biosciences, College of Life and Environmental Sciences, University of Birmingham, Birmingham, B15 2TT, UK
3. Ecological Modelling, Bonner Institute for Organismal Biology - Dept. of Plant Biodiversity, University of Bonn, Bonn, Germany
4. GEMA Center for Genomics, Ecology & Environment, Universidad Mayor, Camino La Pirámide 5750, Huechuraba, Santiago, Chile
5. Data Observatory Foundation, ANID Technology Center No. DO210001, Eliodoro Yáñez 2990, 7510277, Providencia, Santiago, Chile
6. Department of Species Interaction Ecology, Helmholtz Centre for Environmental Research – UFZ, Permoserstrasse 15, 04318 Leipzig, Germany
7. German Centre for Integrative Biodiversity Research (iDiv), Halle-Jena-Leipzig, Puschstrasse 4, 04103 Leipzig, Germany
8. Institute of Biology, Martin Luther University Halle-Wittenberg, Am Kirchtor 1, 06108 Halle (Saale), Germany
9. Department of Science and Conservation, National Tropical Botanical Garden, Kalāheo, HI, USA
10. Department of Animal Ecology & Systematics, Justus Liebig University, Heinrich-Buff-Ring 26, 35392 Giessen, Germany
11. Department of Environmental Science, Radboud Institute for Biological and Environmental Sciences (RIBES), Radboud University, Heyendaalseweg 135, 6525AJ Nijmegen, The Netherlands

This repository contains R scripts for matching global occurrence data for 3963 non-native plants species from the PaciFLora data set with a biogeographic status. The workflow integrates three complementary data sources to classify each occurrence as native, non-native, contradictory, or unknown. It's output provides a harmonised dataset as base for further analyses, facilitating comparative studies on topics such as the distribution and establishment potential of non-native species, or regional characteristics of their non-native ecological niches.

The workflow was conceptualised and implemented by Anna Rönnfeldt, Katrin Schifferle, Valén Holle, and Damaris Zurell.

Funding

This study was supported by the German Research Foundation DFG (grant no. ZU 361/3-1 to DZ).

Required data

These data have to be downloaded to reproduced this workflow:

• the species list from the PaciFLora data set. It lists 3963 vascular plant species known to occur as naturalised species on the Pacific Islands
• spatial data corresponding to level 3 tdwg regions
• GloNAF data for the status assignment

Workflow

A detailed workflow description is provided in the README of the GitHub repository.

v1.0.1

StatusAssignment

Anna Rönnfeldt¹, Katrin Schifferle¹, Valén Holle¹, Juliano Sarmento Cabral^2,3, Dylan Craven^4,5, Tiffany Knight^6,7,8,9, Hanno Seebens¹⁰, Patrick Weigelt¹¹, Damaris Zurell¹

1. University of Potsdam, Institute of Biochemistry and Biology, Am Neuen Palais 10, 14469 Potsdam, Germany
2. School of Biosciences, College of Life and Environmental Sciences, University of Birmingham, Birmingham, B15 2TT, UK
3. Ecological Modelling, Bonner Institute for Organismal Biology - Dept. of Plant Biodiversity, University of Bonn, Bonn, Germany
4. GEMA Center for Genomics, Ecology & Environment, Universidad Mayor, Camino La Pirámide 5750, Huechuraba, Santiago, Chile
5. Data Observatory Foundation, ANID Technology Center No. DO210001, Eliodoro Yáñez 2990, 7510277, Providencia, Santiago, Chile
6. Department of Species Interaction Ecology, Helmholtz Centre for Environmental Research – UFZ, Permoserstrasse 15, 04318 Leipzig, Germany
7. German Centre for Integrative Biodiversity Research (iDiv), Halle-Jena-Leipzig, Puschstrasse 4, 04103 Leipzig, Germany
8. Institute of Biology, Martin Luther University Halle-Wittenberg, Am Kirchtor 1, 06108 Halle (Saale), Germany
9. Department of Science and Conservation, National Tropical Botanical Garden, Kalāheo, HI, USA
10. Department of Animal Ecology & Systematics, Justus Liebig University, Heinrich-Buff-Ring 26, 35392 Giessen, Germany
11. Department of Environmental Science, Radboud Institute for Biological and Environmental Sciences (RIBES), Radboud University, Heyendaalseweg 135, 6525AJ Nijmegen, The Netherlands

This repository contains R scripts for matching global occurrence data for 3963 non-native plants species from the PaciFLora data set with a biogeographic status. The workflow integrates three complementary data sources to classify each occurrence as native, non-native, contradictory, or unknown. It's output provides a harmonised dataset as base for further analyses, facilitating comparative studies on topics such as the distribution and establishment potential of non-native species, or regional characteristics of their non-native ecological niches.

The workflow was conceptualised and implemented by Anna Rönnfeldt, Katrin Schifferle, Valén Holle, and Damaris Zurell.

Related publications

Holle et al. (2025) - Uncertainty in blacklisting potential Pacific plant invaders using species distribution models (https://doi.org/10.1111/1365-2664.70163)

Rönnfeldt et al. (2026) - Climatic niche conservatism in non-native plants depends on introduction history and biogeographic context (https://doi.org/10.1038/s41467-025-68023-6)

Funding

This study was supported by the German Research Foundation DFG (grant no. ZU 361/3-1 to DZ).

Required data

These data have to be downloaded to reproduced this workflow:

• the species list from the PaciFLora data set. It lists 3963 vascular plant species known to occur as naturalised species on the Pacific Islands
• spatial data corresponding to level 3 tdwg regions
• GloNAF data for the status assignment

Workflow

A detailed workflow description is provided in the README of the GitHub repository.

v1.0.0

StatusAssignment

by Katrin Schifferle, Anna Rönnfeldt, and Valén Holle

Purpose:
Download and cleaning of occurrence data from GBIF and BIEN based on the species list from PaciFLora. The cleaned occurrence data are then assigned a biogeographic status indicating whether the species is considered to be native or introduced in that region.