Data from: DNA metabarcoding improves the taxonomical resolution of visually determined diet composition of beaked redfish (Sebastes sp.) ...

• Main Authors: Brown-Vuillemin, Sarah, Bernatchez, Louis, Normandeau, Eric, Hernandez, Cécilia, Chabot, Denis, Tremblay, Réjean, Sirois, Pascal, Nozères, Claude, Robert, Dominique
• Format: Dataset
• Language: English
• Published: Dryad 2022
• Subjects: FOS Natural sciences; Stomach content analysis; stomach content DNA; Canada; Joli; Maurice; Mont Joli; Sebastes mentella
• Online Access: https://dx.doi.org/10.5061/dryad.37pvmcvpr; https://datadryad.org/stash/dataset/doi:10.5061/dryad.37pvmcvpr

Beaked redfish, dominated by Sebastes mentella, have recently reached record abundance levels in the Gulf of St. Lawrence (GSL) and knowledge of their diet composition is essential to understand the trophic role that these groundfish play in the ecosystem. The objective of the present study was to compare the performance of the visual examination and DNA metabarcoding of stomach contents of the same individual redfish caught in the estuary and northern Gulf of St. Lawrence. Using a universal metazoan mitochondrial cytochrome c oxidase subunit I (COI) marker, a total of 27 taxonomic sequence matches, 16 at the species level considered as primary prey, were obtained from 185 stomachs with DNA metabarcoding and compared to the 26 prey types, 16 at genus or species level, obtained with stomach content analysis (SCA). While both techniques pointed to a similar definition of diet composition, our results also revealed that the SCA and DNA metabarcoding perform differently among prey categories, both in terms of ... : Redfish stomachs were thawed for visual analysis at the Maurice-Lamontagne Institute (Mont-Joli, Canada) and each prey taxon found in the stomach contents was weighed and identified to the lowest taxonomic level possible under a dissecting microscope and using keys and identification guides. For metabarcoding, matched reads with equal quality scores for more than one species were assigned to a higher taxonomic level since it was impossible to discriminate species with certainty. Barque (https://github.com/enormandeau/barque) then produced a table of prey taxa counts (including the multiple hits) for each sample. ...