Soil fungal communities of ectomycorrhizal dominated woodlands across West Africa
type: Dataset
distribution: Landing page for the dataset
description: Forests and woodlands in the Guineo-Sudanian transition zone contain many tree species that form symbiotic interactions with ectomycorrhizal (ECM) fungi, which facilitate plant growth by increasing nutrient and water uptake. Despite their importance for ecosystem functioning and anthropogenic use, diversity and distribution of ECM fungi is severely under-documented in West Africa. We conducted a broad regional sampling across five West African countries using soil eDNA to characterize the ECM as well as the total soil fungal community in two vegetation types dominated by ECM host tree species. Sequencing of the entire ITS region and much of the LSU region allows us to infer a phylogeny for all detected soil fungal species. This data resource contain amplicon sequence variants (ASVs) generated from the dataset using the procedure established in Kalsoom-Khan et al. (2020) after accessing general read quality and ensuring that the majority of reads fell within the expected length (1-2 kb). In brief, raw sequence reads were filtered and trimmed, and PacBio-type chimeras were detected and removed using the tool cutadapt. Amplicons sequenced in reverse were reverse complemented. Reads were filtered using DADA2, discarding sequences with more than 3 expected errors as well as those with a length outside the range of 1200–1800 bases. Filtered sequences were then denoised using DADA2, with complete pooling and an increased alignment band size of 32. Singleton ASVs are not included in DADA2 denoising output. De novo chimera detection and removal were also performed in DADA2, with a minimum parent overabundance of 3.5 and allowing detection of chimeras with a single base difference from their parent sequence. This dataset was published via the SBDI ASV portal (https://asv-portal.biodiversitydata.se/).
modified: 2026-03-12T00:00:00Z
issued: 2023-05-22T00:00:00Z
publisher: Uppsala University
qualified attribution: Attribution
  had role: principalInvestigator
  agent: Anna Rosling
    type: Agent
    account: https://orcid.org/0000-0002-7003-5941
    type: PrivateIndividual(s)
qualified attribution: Attribution
  had role: principalInvestigator
  agent: Brendan Furneaux
    type: Agent
    account: https://orcid.org/0000-0003-3522-7363
    type: PrivateIndividual(s)
qualified attribution: Attribution
  had role: principalInvestigator
  agent: Peter Meidl
    type: Agent
    type: PrivateIndividual(s)
keyword: Occurrence
keyword: Observation
keyword: OCCURRENCE
language: ENG

Landing page for the dataset
type: Distribution
title: Landningssida för datasetet @sv
access URL: Soil fungal communities of ectomycorrhizal dominated woodlands across West Africa
availability: stable

Uppsala University
type: Agent
name: Uppsala universitet @sv
type: Academia-ScientificOrganisation
source: https://ror.org/048a87296