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The Gut Microbiota of Farmed and Wild Brook Trout (Salvelinus fontinalis): Evaluation of Feed-Related Differences Using 16S rRNA Gene Metabarcoding

The gut microbiota has become a topic of increasing importance in various fields, including aquaculture. Several fish species have been the subject of investigations concerning the intestinal microbiota, which have compared different variables, including the intestinal portions, the environment, and...

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Autores principales: Mugetti, Davide, Pastorino, Paolo, Beltramo, Chiara, Audino, Tania, Arillo, Alessandra, Esposito, Giuseppe, Prearo, Marino, Bertoli, Marco, Pizzul, Elisabetta, Bozzetta, Elena, Acutis, Pier Luigi, Peletto, Simone
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10386504/
https://www.ncbi.nlm.nih.gov/pubmed/37512808
http://dx.doi.org/10.3390/microorganisms11071636
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author Mugetti, Davide
Pastorino, Paolo
Beltramo, Chiara
Audino, Tania
Arillo, Alessandra
Esposito, Giuseppe
Prearo, Marino
Bertoli, Marco
Pizzul, Elisabetta
Bozzetta, Elena
Acutis, Pier Luigi
Peletto, Simone
author_facet Mugetti, Davide
Pastorino, Paolo
Beltramo, Chiara
Audino, Tania
Arillo, Alessandra
Esposito, Giuseppe
Prearo, Marino
Bertoli, Marco
Pizzul, Elisabetta
Bozzetta, Elena
Acutis, Pier Luigi
Peletto, Simone
author_sort Mugetti, Davide
collection PubMed
description The gut microbiota has become a topic of increasing importance in various fields, including aquaculture. Several fish species have been the subject of investigations concerning the intestinal microbiota, which have compared different variables, including the intestinal portions, the environment, and diet. In this study, the microbiota of farmed and wild brook trout (Salvelinus fontinalis) were analyzed, in which the wall and content of the medial portion of the intestine were considered separately. A total of 66 fish (age class 2+) were sampled, of which 46 were wild and 20 were farmed brook trout, in two different years. Microbiota data were obtained using a 16S metabarcoding approach by analyzing the V3–V4 hypervariable regions of the corresponding 16S rRNA. The data showed that the core microbiota of these species consist of Proteobacteria (Alpha- and Gammaproteobacteria), Actinobacteria, Firmicutes (Bacilli and Clostridia), and, only for farmed animals, Fusobacteria. The latter taxon’s presence is likely related to the fishmeal-based diet administered to farmed brook trout. Indeed, alpha and beta diversity analysis showed differences between wild and farmed fish. Finally, statistically significant differences in the microbiota composition were observed between the intestinal walls and contents of wild fish, while no differences were detected in reared animals. Our work represents the first study on the intestinal microbiota of brook trout with respect to both farmed and wild specimens. Future studies might focus on the comparison of our data with those pertaining to other fish species and on the study of other portions of the brook trout intestine.
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spelling pubmed-103865042023-07-30 The Gut Microbiota of Farmed and Wild Brook Trout (Salvelinus fontinalis): Evaluation of Feed-Related Differences Using 16S rRNA Gene Metabarcoding Mugetti, Davide Pastorino, Paolo Beltramo, Chiara Audino, Tania Arillo, Alessandra Esposito, Giuseppe Prearo, Marino Bertoli, Marco Pizzul, Elisabetta Bozzetta, Elena Acutis, Pier Luigi Peletto, Simone Microorganisms Article The gut microbiota has become a topic of increasing importance in various fields, including aquaculture. Several fish species have been the subject of investigations concerning the intestinal microbiota, which have compared different variables, including the intestinal portions, the environment, and diet. In this study, the microbiota of farmed and wild brook trout (Salvelinus fontinalis) were analyzed, in which the wall and content of the medial portion of the intestine were considered separately. A total of 66 fish (age class 2+) were sampled, of which 46 were wild and 20 were farmed brook trout, in two different years. Microbiota data were obtained using a 16S metabarcoding approach by analyzing the V3–V4 hypervariable regions of the corresponding 16S rRNA. The data showed that the core microbiota of these species consist of Proteobacteria (Alpha- and Gammaproteobacteria), Actinobacteria, Firmicutes (Bacilli and Clostridia), and, only for farmed animals, Fusobacteria. The latter taxon’s presence is likely related to the fishmeal-based diet administered to farmed brook trout. Indeed, alpha and beta diversity analysis showed differences between wild and farmed fish. Finally, statistically significant differences in the microbiota composition were observed between the intestinal walls and contents of wild fish, while no differences were detected in reared animals. Our work represents the first study on the intestinal microbiota of brook trout with respect to both farmed and wild specimens. Future studies might focus on the comparison of our data with those pertaining to other fish species and on the study of other portions of the brook trout intestine. MDPI 2023-06-22 /pmc/articles/PMC10386504/ /pubmed/37512808 http://dx.doi.org/10.3390/microorganisms11071636 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Mugetti, Davide
Pastorino, Paolo
Beltramo, Chiara
Audino, Tania
Arillo, Alessandra
Esposito, Giuseppe
Prearo, Marino
Bertoli, Marco
Pizzul, Elisabetta
Bozzetta, Elena
Acutis, Pier Luigi
Peletto, Simone
The Gut Microbiota of Farmed and Wild Brook Trout (Salvelinus fontinalis): Evaluation of Feed-Related Differences Using 16S rRNA Gene Metabarcoding
title The Gut Microbiota of Farmed and Wild Brook Trout (Salvelinus fontinalis): Evaluation of Feed-Related Differences Using 16S rRNA Gene Metabarcoding
title_full The Gut Microbiota of Farmed and Wild Brook Trout (Salvelinus fontinalis): Evaluation of Feed-Related Differences Using 16S rRNA Gene Metabarcoding
title_fullStr The Gut Microbiota of Farmed and Wild Brook Trout (Salvelinus fontinalis): Evaluation of Feed-Related Differences Using 16S rRNA Gene Metabarcoding
title_full_unstemmed The Gut Microbiota of Farmed and Wild Brook Trout (Salvelinus fontinalis): Evaluation of Feed-Related Differences Using 16S rRNA Gene Metabarcoding
title_short The Gut Microbiota of Farmed and Wild Brook Trout (Salvelinus fontinalis): Evaluation of Feed-Related Differences Using 16S rRNA Gene Metabarcoding
title_sort gut microbiota of farmed and wild brook trout (salvelinus fontinalis): evaluation of feed-related differences using 16s rrna gene metabarcoding
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10386504/
https://www.ncbi.nlm.nih.gov/pubmed/37512808
http://dx.doi.org/10.3390/microorganisms11071636
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