The microbiome of Chinook salmon (Oncorhynchus tshawytscha) in a recirculation aquaculture system

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dc.contributor.author Steiner, Konstanze
dc.contributor.author Heasman, Kevin
dc.contributor.author Laroche, Olivier
dc.contributor.author Pochon, Xavier
dc.contributor.author Preece, Mark
dc.contributor.author Bowman, John P
dc.contributor.author Walker, Seumas P
dc.contributor.author Symonds, Jane E
dc.date.accessioned 2021-03-04T03:18:46Z
dc.date.available 2021-03-04T03:18:46Z
dc.date.issued 2021-3-1
dc.identifier.citation Aquaculture 534:736227 01 Mar 2021
dc.identifier.issn 0959-8030
dc.identifier.uri https://hdl.handle.net/2292/54583
dc.description.abstract © 2020 Elsevier B.V. The intestinal microbiome has recently been described for a variety of fish species and has been shown to influence host biology, including physiology, health and behavior. Knowledge of the intestinal microbiome of a species and how it can favorably be modulated to enhance production in different rearing systems is therefore of benefit for farmed fish. Here we describe the microbiome of the digesta (feces) of Chinook salmon (Oncorhynchus tshawytscha) reared in a seawater recirculation aquaculture system (RAS) and compare it to the microbiome found in the surrounding water and feed. The effects of varying lipid levels in three different diets were also investigated. We used high-throughput sequencing of the V3/V4 region of the 16S rRNA gene to determine the microbial community in the different samples. The dominant phyla in Chinook salmon feces were Firmicutes, Bacteroidetes, Proteobacteria and Actinobacteria. Most of the taxa dominating feces samples were also present in the surrounding water or feed, suggesting that the microbiome is partially shared with the ambient environment. About 40% of all taxa were only present in feces, indicating that these bacterial taxa were either acquired previously and could belong to the attached, rather than transient, microbiome or were at levels below detection in the surrounding environment but grew well in the gut. Differences among individuals were detected and could suggest host-specific variability, which requires further investigation. Variation in dietary lipid levels did not alter the microbiome among cohorts. Identifying the key bacterial communities in the Chinook salmon gut microbiome will help establish strategies to reliably attain and maintain a healthy gut microbiome in fish reared in RAS systems.
dc.language en
dc.publisher Elsevier BV
dc.relation.ispartofseries Aquaculture
dc.rights Items in ResearchSpace are protected by copyright, with all rights reserved, unless otherwise indicated. Previously published items are made available in accordance with the copyright policy of the publisher.
dc.rights.uri https://researchspace.auckland.ac.nz/docs/uoa-docs/rights.htm
dc.title The microbiome of Chinook salmon (Oncorhynchus tshawytscha) in a recirculation aquaculture system
dc.type Journal Article
dc.identifier.doi 10.1016/j.aquaculture.2020.736227
pubs.begin-page 736227
pubs.volume 534
dc.date.updated 2021-02-13T04:43:55Z
dc.rights.holder Copyright: Elsevier BV en
pubs.publication-status Accepted
dc.rights.accessrights http://purl.org/eprint/accessRights/RetrictedAccess en
pubs.subtype Journal Article
pubs.elements-id 833384
pubs.number 736227


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