Skip to Main content Skip to Navigation
Journal articles

Diversity, spatial distribution and activity of fungi in freshwater ecosystems

Abstract : High-throughput sequencing has given new insights into aquatic fungal community ecology over the last 10 years. Based on 18S ribosomal RNA gene sequences publicly available, we investigated fungal richness and taxonomic composition among 25 lakes and four rivers. We used a single pipeline to process the reads from raw data to the taxonomic affiliation. In addition, we studied, for a subset of lakes, the active fraction of fungi through the 18S rRNA transcripts level. These results revealed a high diversity of fungi that can be captured by 18S rRNA primers. The most OTU-rich groups were Dikarya (47%), represented by putative filamentous fungi more diverse and abundant in freshwater habitats than previous studies have suggested, followed by Cryptomycota (17.6%) and Chytridiomycota (15.4%). The active fraction of the community showed the same dominant groups as those observed at the 18S rRNA genes level. On average 13.25% of the fungal OTUs were active. The small number of OTUs shared among aquatic ecosystems may result from the low abundances of those microorganisms and/or they constitute allochthonous fungi coming from other habitats (e.g., sediment or catchment areas). The richness estimates suggest that fungi have been overlooked and undersampled in freshwater ecosystems, especially rivers, though they play key roles in ecosystem functioning as saprophytes and parasites.
Complete list of metadata

Cited literature [14 references]  Display  Hide  Download
Contributor : Gestionnaire Hal-Su <>
Submitted on : Wednesday, March 6, 2019 - 11:03:24 AM
Last modification on : Tuesday, July 13, 2021 - 3:14:48 AM
Long-term archiving on: : Friday, June 7, 2019 - 4:35:29 PM


Publisher files allowed on an open archive


Distributed under a Creative Commons Attribution 4.0 International License



Cécile Lepère, Isabelle Domaizon, Jean-François Humbert, Ludwig Jardillier, Mylène Hugoni, et al.. Diversity, spatial distribution and activity of fungi in freshwater ecosystems. PeerJ, PeerJ, 2019, 7, pp.e6247. ⟨10.7717/peerj.6247⟩. ⟨hal-02058841⟩



Record views


Files downloads