OTUs Table and fastq sequences from environmental DNA applied to trematode communities

This OTUs table and fastq
sequences underlie the main results of the study
"Make visible the invisible: Optimized development of an
environmental DNA metabarcoding tool for the characterization of trematode
parasitic communities". In this study, our aim was to
develop an optimized eDNA-based metabarcoding approach to detect
trematodes and characterize their communities, most of which associated to
aquatic environments. We thus assessed the ability of our
eDNA-based metabarcoding approach to reconstruct trematode communities
compared to a classical trematode monitoring method over four freshwater
aquatic ecosystems.  We focused on 4 natural sites from Occitanie
Region (Southern France) that differ in terms of habitats, and in which
the trematode communities were previously at least partially
characterized. At each of these sites, we sampled the water-sediment
interface from which the eDNA was extracted and sequenced with a MiSeq
amplicons sequencing approach.   Over the four natural ecosystems
screened in nature, 33 OTUs were generated from the eDNA-based approach,
from which 11 trematode species were identified. In comparison, we
identified five trematode species using the classical monitoring method,
three of which were also detected by the eDNA-based approach.