Skip to main content

Research Repository

Advanced Search

Space-time dynamics in monitoring neotropical fish communities using eDNA metabarcoding

Sales, NG; Wangensteen Fuentes, OS; Carvalho, DC; Deiner, K; Praebel, K; Coscia, I; McDevitt, A; Mariani, S

Space-time dynamics in monitoring neotropical fish communities using eDNA metabarcoding Thumbnail


NG Sales

OS Wangensteen Fuentes

DC Carvalho

K Deiner

K Praebel

I Coscia

A McDevitt

S Mariani


The biodiverse Neotropical ecoregion remains insufficiently assessed, poorly managed, and threatened by unregulated human activities. Novel, rapid and cost-effective DNA-based approaches are valuable to improve understanding of the biological communities and for biomonitoring in remote areas. Here, we evaluate the potential of environmental DNA (eDNA) metabarcoding for assessing the structure and distribution of fish communities by analysing water and sediment from 11 locations along the Jequitinhonha River catchment (Brazil). Each site was sampled twice, before and after a major rain event in a five-week period and fish diversity was estimated using high-throughput sequencing of 12S rRNA amplicons. In total, 252 Molecular Operational Taxonomic Units (MOTUs) and 34 fish species were recovered, including endemic, introduced, and previously unrecorded species for this basin. Spatio-temporal variation of eDNA from fish assemblages was observed and species richness during the first campaign was nearly twice as high as the second campaign. Yet, peaks of diversity were primarily associated with only four of the locations. No correlation between β-diversity and longitudinal distance or presence of dams was detected, but low species richness observed at sites located near dams might that these anthropogenic barriers may have an impact on local fish diversity. Unexpectedly high α-diversity levels recorded at the river mouth suggest that these sections should be further evaluated as putative “eDNA reservoirs” for rapid monitoring. By uncovering spatio-temporal changes, unrecorded biodiversity components, and putative anthropogenic impacts on fish assemblages, we further strengthen the potential of eDNA metabarcoding as a biomonitoring tool, especially in regions often neglected or difficult to access.


Sales, N., Wangensteen Fuentes, O., Carvalho, D., Deiner, K., Praebel, K., Coscia, I., …Mariani, S. (2021). Space-time dynamics in monitoring neotropical fish communities using eDNA metabarcoding. Science of the Total Environment, 754, 142096.

Journal Article Type Article
Acceptance Date Aug 29, 2020
Online Publication Date Sep 1, 2020
Publication Date Feb 1, 2021
Deposit Date Sep 2, 2020
Publicly Available Date Sep 1, 2021
Journal Science of the Total Environment
Print ISSN 0048-9697
Electronic ISSN 1879-1026
Publisher Elsevier
Volume 754
Pages 142096
Publisher URL
Related Public URLs