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Advancing biodiversity assessments with environmental DNA: Long-read technologies help reveal the drivers of Amazonian fungal diversity

Artikel i vetenskaplig tidskrift
Författare Camila Ritter
M. Dunthorn
S. Anslan
V. X. de Lima
L. Tedersoo
Rolf Henrik Nilsson
Alexandre Antonelli
Publicerad i Ecology and Evolution
Volym 10
Nummer/häfte 14
Sidor 7509-7524
ISSN 2045-7758
Publiceringsår 2020
Publicerad vid Institutionen för biologi och miljövetenskap
Sidor 7509-7524
Språk en
Länkar dx.doi.org/10.1002/ece3.6477
Ämnesord environmental DNA, high-throughput sequencing, metabarcoding, neotropical biodiversity, PacBio, third-generation sequencing, community structure, ectomycorrhizal fungi, tree diversity, soil, forest, topography, patterns, identification, evolution, bacterial, Environmental Sciences & Ecology, Evolutionary Biology
Ämneskategorier Biologiska vetenskaper


Fungi are a key component of tropical biodiversity. However, due to their inconspicuous and largely subterranean nature, they are usually neglected in biodiversity inventories. The goal of this study was to identify the key determinants of fungal richness, community composition, and turnover in tropical rainforests. We tested specifically for the effect of soil properties, habitat, and locality in Amazonia. For these analyses, we used high-throughput sequencing data of short and long reads of fungal DNA present in soil and organic litter samples, combining existing and novel genomic data. Habitat type (phytophysiognomy) emerges as the strongest factor explaining fungal community composition. Naturally open areas-campinas-are the richest habitat overall. Soil properties have different effects depending on the soil layer (litter or mineral soil) and the choice of genetic marker. We suggest that campinas could be a neglected hotspot of fungal diversity. An underlying cause for their rich diversity may be the overall low soil fertility, which increases the reliance on biotic interactions essential for nutrient absorption in these environments, notably ectomycorrhizal fungi-plant associations. Our results highlight the advantages of using both short and long DNA reads produced through high-throughput sequencing to characterize fungal diversity. While short reads can suffice for diversity and community comparison, long reads add taxonomic precision and have the potential to reveal population diversity.

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