Catalogue of the Rust Fungi of Belgium

Arthur Vanderweyen1, André Fraiture1, Quentin Groom1, Peter Desmet2, Lien Reyserhove2

1 Botanic Garden Meise, , Belgium; 2 Research Institute for Nature and Forest (INBO), , Belgium

Corresponding author(s): Arthur VanderweyenAndré Fraiture (andre.fraiture@jardinbotaniquemeise.be)Quentin Groom (quentin.groom@plantentuinmeise.be)Peter Desmet (peter.desmet@inbo.be)Lien Reyserhove (lien.reyserhove@inbo.be)

Received {date}; Revised {date}; Accepted {date}; Published {date}

Citation: Combination of authors, year of data paper publication (in parentheses), Title, Journal Name, Volume, Issue number (in parentheses), and doi of the data paper.

Resource Citation

Vanderweyen A, Fraiture A, Groom Q, Desmet P, Reyserhove L (2018): Catalogue of the Rust Fungi of Belgium. v1.2. Botanic Garden Meise. Dataset/Checklist. https://doi.org/10.15468/2dboyn https://doi.org/10.15468/2dboyn

Abstract

The catalogue of rust fungi in Belgium is a species checklist dataset published by the Botanic Garden Meise. It contains information on 237 native and non-native species of rust fungi occurring in Belgium. The catalogue is the result of literature review and herbarium inspection of the main public Belgian herbaria, complemented with specimens from private herbaria. The checklist  has been published as three separate volumes by Vanderweyen & Fraiture (2006, 2008 and 2011). Here it is published as a standardized Darwin Core Archive and includes for each rust fungus: the scientific name, higher classification, full bibliographic reference and stable taxon ID (in the taxon core), the occurrence status, whether the species is native or introduced (establishment) and date of first and last recorded observation  in Belgium (given as a date range in the event date in the distribution extension). In the taxon core, we also provide the taxonomic information (scientific name and higher classification) of all 518 recorded host plant species and link those to their pathogenic rust fungus/fungi in the resource relationship extension. Issues with the dataset can be reported at: https://github.com/trias-project/uredinales-belgium-checklist
We have released this dataset to the public domain under a Creative Commons Zero waiver. We would appreciate it if you follow the GBIF citation guidelines (https://www.gbif.org/citation-guidelines) when using the data. If you have any questions regarding this dataset, don't hesitate to contact us via the contact information provided in the metadata or via https://twitter.com/trias_project.

Keywords: Checklist, Inventorythematic, checklist, inventory, rust fungi, rusts, Uredinales, host plants, plant pathogens, Belgium, TrIAS

General description

Purpose: This dataset was published as open data for the TrIAS project (Tracking Invasive Alien Species http://trias-project.be, Vanderhoeven et al. 2017), with technical support provided by the Research Institute for Nature and Forest (INBO). It is selected as one of the authoritative sources for the compilation of a unified and standardized checklist of alien species in Belgium.

Project details

Project title: Tracking Invasive Alien Species (TrIAS)
Personnel: Tim Adriaens, Peter Desmet, Quentin Groom, Diederik Strubbe, Sonia Vanderhoeven
Funding: TrIAS is funded by the Belgian Science Policy Office (BELSPO) call for Belgian Research Action through Interdisciplinary Networks (BRAIN).
Study area descriptions/descriptor: Belgium.
Design description: The project builds on two components: 1) The establishment of a data mobilization framework for alien species data from diverse data sources and 2) the development of data-driven procedures for risk evaluation based on risk modelling, risk mapping and risk assessment. TrIAS uses facilities from the Global Biodiversity Information Facility (GBIF, http://www.gbif.org), standards from the Biodiversity Information Standards organization (TDWG, http://www.tdwg.org) and expertise from Lifewatch (http://www.lifewatch.be) to create and facilitate a systematic workflow. Alien species data are gathered from a large set of regional, national and international initiatives, including citizen science data, with a wide taxonomic scope from marine, terrestrial and freshwater environments. Observation data are funnelled in repeatable ways to GBIF. In parallel, a Belgian checklist of alien species is established, benefiting from various taxonomic and project-based checklists foreseen for GBIF publication.

Data published through GBIF: https://ipt.biodiversity.be/resource?r=uredinales-belgium-checklist

Taxonomic coverage

General taxonomic coverage description: This dataset includes pathogenic rust fungi, i.e. fungi belonging to the order Pucciniales (previously also known as Uredinales), and their known host plants in Belgium. In total, 237 Uredinales species have been recorded in Belgium of which 26 are confirmed as ‘alien’ and 52 as ‘native’. The largest proportion of rust fungi belongs to the Pucciniaceae (78%), followed by the Melampsoraceae (6%) and Phragmidiaceae (6%). Small fractions are classified under the Coleosporiaceae, Pucciniastraceae, Cronartiaceae, Chaconiaceae, Uropyxidaceae, Uropyxidaceae, Raveneliaceae and Chaconiaceae.
Taxonomic ranks
Kingdom: Fungi
Phylum: Basidiomycota

Spatial coverage

General spatial coverage: This checklist covers all rust fungi recorded in Belgium. However, the presence of several species must still be confirmed because they are attested only by herbarium specimens or literature.
Coordinates: 49°29'24''N and 51°30'36''N Latitude; 2°31'48''E and 6°24'36''E Longitude 

Temporal coverage: January 1, 1850 - December 31, 2012

Methods

Method step description: 
- . 	The source data for this standardized checklist are the publications Vanderweyen & Fraiture (2007, 2008, 2011) which were manually transcribed to a tab-delimited text file.
- . 	This raw data file was uploaded to a GitHub repository (https://github.com/trias-project/uredinales-belgium-checklist). See https://trias-project.github.io/uredinales-belgium-checklist for an introduction to this repository and the mapping of this dataset.
- . 	We developed a RMarkdown script to document and perform the transformation of the data to Darwin Core, which includes the following steps:
- . 	Perform some basic data cleaning of the raw data.
- . 	Generate stable and unique identifiers for each taxon (taxonID).
- . 	Generate the full bibliographic citations (bibliographicCitation).
- . 	Create a taxon core file (http://rs.gbif.org/core/dwc_taxon.xml). The taxon core provides the taxonomic information for both rust fungi and their recorded host plants.
- . 	Create a distribution extension file (http://rs.gbif.org/extension/gbif/1.0/distribution.xml), including standardization of the distribution date range.
- . 	Create a resource relationship extension file (http://rs.gbif.org/extension/dwc/resource_relation_2018_01_18.xml), with information about the interactions between the pathogen (rust fungus) and host plant.
- . 	The resulting Darwin Core data files are uploaded to the INBO IPT and documented with metadata.
- . 	The dataset is published and registered with GBIF.
Study extent description: See Vanderweyen & Fraiture (2007)
Sampling description: See Vanderweyen & Fraiture (2007)
Quality control description: See step description.

Datasets

Dataset description
Object name: Darwin Core Archive Catalogue of the Rust Fungi of Belgium
Character encoding: UTF-8
Format name: Darwin Core Archive format
Format version: 1.0
Distribution: https://ipt.biodiversity.be/archive.do?r=uredinales-belgium-checklist
Publication date of data: 2019-03-19
Language: English
Licences of use: Public Domain (CC0 1.0)

Metadata language: English
Date of metadata creation: 2018-04-19
Hierarchy level: Dataset

References
Vanderweyen A, Fraiture A. (2011) Catalogue des Uredinals de Belgique (3ème partie). Puccinaceae (genre Puccinia). Lejeunia 189: 1-65.
Vanderweyen A, Fraiture A. (2008) Catalogue des Uredinals de Belgique (2ème partie). Puccinaceae (sauf Puccinia). Lejeunia 185: 1-31.
Vanderweyen A., Fraiture A. (2007) Catalogue des Uredinals de Belgique. (1st partie). Chaconiaceae, Coleosporiaceae, Cronartiaceae, Melampsoraceae, Phragmidiaceae, Pucciniastraceae, Raveneliaceae et Uropyxidaceae. Lejeunia 183: 1-36.
Vanderhoeven S, Adriaens T, Desmet P, Strubbe D, Backeljau T, Barbier Y, Brosens D, Cigar J, Coupremanne M, De Troch R, Eggermont H, Heughebaert A, Hostens K, Huybrechts P, Jacquemart A, Lens L, Monty A, Paquet J, Prévot C, Robertson T, Termonia P, Van De Kerchove R, Van Hoey G, Van Schaeybroeck B, Vercayie D, Verleye T, Welby S, Groom Q (2017) Tracking Invasive Alien Species (TrIAS): Building a data-driven framework to inform policy. Research Ideas and Outcomes 3: e13414. https://doi.org/10.3897/rio.3.e13414