Description
Project Overview
The project aims to investigate species diversity and variety from a citizen science perspective (more of a random character, i.e., not a strictly scientific research character).
Project Goals
- Investigate species diversity and variety on a larger scale (>1,000 samples)
- Give sequences a "face" = metadata such as environmental data, field images, etc.
- Provide tools for species identification
- Use DNA barcoding of the ITS region
- Be cost-effective
- Be methodologically feasible from fruiting body to analyzed sequence
- Disseminate knowledge about the method
Dataset Description
The dataset contains DNA-barcoded samples of fungal fruiting bodies collected in Sweden. The collection has been mostly random and the selection has primarily been based on the collector's own interest. Collectors are mainly amateur mycologists. Barcoding has been performed on the ITS region and parts of the SSU and LSU regions. Additional observational metadata such as coordinates, images, and environmental descriptions are linked to the Swedish Observation System for each respective sample.This dataset was published via the SBDI ASV portal.
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 316 records.
2 extension data tables also exist. An extension record supplies extra information about a core record. The number of records in each extension data table is illustrated below.
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:
Fritzson P, Bråvander B (2025). Fungal Diversity Survey Sweden ITS-LSU rDNA. Version 1.1. Biology Section, Uppsala University. Occurrence dataset. https://www.gbif.se/ipt/resource?r=fdss_its-lsu&v=1.1
Rights
Researchers should respect the following rights statement:
The publisher and rights holder of this work is Biology Section, Uppsala University. To the extent possible under law, the publisher has waived all rights to these data and has dedicated them to the Public Domain (CC0 1.0). Users may copy, modify, distribute and use the work, including for commercial purposes, without restriction.
GBIF Registration
This resource has been registered with GBIF, and assigned the following GBIF UUID: 7510f2e6-ebd2-414e-b91d-7e9c8b673655. Biology Section, Uppsala University publishes this resource, and is itself registered in GBIF as a data publisher endorsed by GBIF Sweden.
Keywords
Occurrence; Observation
Contacts
- Originator ●
- Point Of Contact
- Originator ●
- Point Of Contact
- Point Of Contact
- Associate Professor
- Evolutionsbiologiskt centrum, Norbyvägen 18D
- +46184716444
Geographic Coverage
Sweden
| Bounding Coordinates | South West [57.843, 14.819], North East [67.956, 23.25] |
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Taxonomic Coverage
All fungi samples identified to genus or species
| Kingdom | Fungi |
|---|---|
| Phylum | Ascomycota, Basidiomycota |
| Class | Eurotiomycetes, Geoglossomycetes, Agaricomycetes, Pezizomycetes |
| Order | Pezizales, Polyporales, Eurotiales, Hymenochaetales, Russulales, Thelephorales, Geoglossales, Boletales, Agaricales, Cantharellales, Gomphales |
| Family | Rhizopogonaceae, Tricholomataceae, Russulaceae, Auriscalpiaceae, Entolomataceae, Pluteaceae, Gomphaceae, Lycoperdaceae, Suillaceae, Hydnaceae, Mycenaceae, Physalacriaceae, Amanitaceae, Strophariaceae, Geoglossaceae, Psathyrellaceae, Steccherinaceae, Polyporaceae, Bankeraceae, Elaphomycetaceae, Omphalotaceae, Stereaceae, Clavariaceae, Pyronemataceae, Cortinariaceae, Inocybaceae, Schizoporaceae, Hymenogastraceae, Agaricales_fam_Incertae_sedis, Fomitopsidaceae, Bolbitiaceae, Pterulaceae, Lyophyllaceae, Hygrophoraceae |
Temporal Coverage
| Start Date / End Date | 2023-04-03 / 2024-02-01 |
|---|
Project Data
No Description available
| Title | Fungal Diversity Survey Sweden |
|---|
The personnel involved in the project:
- Originator
- Originator
Sampling Methods
The collection of fruiting bodies has been conducted randomly based on the collector's own interest and knowledge. Both known and unknown species to the collector have been gathered. All fruiting bodies have been dried using a mushroom dryer at a maximum of 35 degrees Celsius and then stored dry and dark in paper envelopes or zip bags. Subsequent handling is described in detail in protocol: https://www.protocols.io/view/uppsala-fungal-barcoding-using-ont-dna-extraction-n2bvj3mbblk5/v1
| Study Extent | Collection of fungi, mainly basidiomycetes, within Sweden and primarily in the Uppland province. |
|---|
Method step description:
- Step 1: From collection of fruitbodies to a barcoded sequence https://www.protocols.io/view/uppsala-fungal-barcoding-using-ont-dna-extraction-n2bvj3mbblk5/v1 Step 2: Bioinformatics. Raw reads to consensus sequencies https://github.com/Rosling-lab/ont_barcoding Step 3: Consensus sequencies analysis and database reporting Comming article xxxxx Databases: Swedish Speicies Observation System (Artportalen), GenBank, ENA, ASV
Additional Metadata
| Acknowledgements | Uppsala University/Evolutionary Biology Centre (EBC) Anna Rosling, Brendan Furneaux, Sara Mehrabi, Ioana Onut Brännström, David Manyara , Karl Soler Kinnerbäck Swedish University of Agricultural Sciences (SLU)/Artdatabanken Elisabet Ottosson Umeå University/NBIS, Jeanette Tångrot |
|---|---|
| Alternative Identifiers | 7510f2e6-ebd2-414e-b91d-7e9c8b673655 |
| https://www.gbif.se/ipt/resource?r=fdss_its-lsu |