Please use this identifier to cite or link to this item: http://hdl.handle.net/1893/33144
Appears in Collections:Aquaculture Journal Articles
Peer Review Status: Refereed
Title: A Temporally Dynamic Gut Microbiome in Atlantic Salmon During Freshwater Recirculating Aquaculture System (RAS) Production and Post-seawater Transfer
Author(s): Lorgen-Ritchie, Marlene
Clarkson, Michael
Chalmers, Lynn
Taylor, John F
Migaud, Herve
Martin, Samuel A M
Keywords: aquaculture
Atlantic salmon (Salmo salar)
intestine
microbiome
recirculating aquaculture systems
temporal
Issue Date: 2021
Date Deposited: 24-Aug-2021
Citation: Lorgen-Ritchie M, Clarkson M, Chalmers L, Taylor JF, Migaud H & Martin SAM (2021) A Temporally Dynamic Gut Microbiome in Atlantic Salmon During Freshwater Recirculating Aquaculture System (RAS) Production and Post-seawater Transfer. Frontiers in Marine Science, 8, Art. No.: 711797. https://doi.org/10.3389/fmars.2021.711797
Abstract: Atlantic salmon aquaculture is undergoing an expansion of land-based recirculating aquaculture systems (RAS), especially for freshwater (FW) stages of production. Juvenile salmon undergo parr-smolt transformation, also known as smoltification and become pre-adapted to tolerate seawater (SW). One aspect requiring study is the development of microbial communities during this time, especially in RAS systems. Here we analyzed temporal changes in microbiome associated with the intestine in Atlantic salmon during smolt production in a commercial RAS production facility and followed the same cohort of fish post-seawater transfer (SWT), using 16S rRNA gene sequencing. Microbial diversity and richness showed an increase over time across FW production, but declined sharply and significantly 1-week post-SWT before re-establishing itself with a completely different community structure after 4 weeks. Core microbial taxa could be assigned to three distinct categories; (1) omnipresent, (2) salinity specific, or (3) transient. By including diet and water samples in the analyses, we classified true core taxa associated with the host, those associated with the diet, and transient cores associated with microbial communities in tank water. The rising trend observed in microbial richness in the water may be a consequence of a temporal increase in organic load while dominance of Vibrionaceae may be attributed to the higher temperatures maintained during RAS production and above average natural water temperatures post-SWT. Functional analysis suggests modulation of metabolic pathways post-SWT, but downstream impacts on fish growth and health in a commercial setting remain to be elucidated. A deeper understanding of the interplay between microbial composition and functionality can play a role in optimizing fish performance in tightly regulated RAS production.
DOI Link: 10.3389/fmars.2021.711797
Rights: © 2021 Lorgen-Ritchie, Clarkson, Chalmers, Taylor, Migaud and Martin. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY - https://creativecommons.org/licenses/by/4.0/). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
Licence URL(s): http://creativecommons.org/licenses/by/4.0/

Files in This Item:
File Description SizeFormat 
fmars-08-711797.pdfFulltext - Published Version2.69 MBAdobe PDFView/Open



This item is protected by original copyright



A file in this item is licensed under a Creative Commons License Creative Commons

Items in the Repository are protected by copyright, with all rights reserved, unless otherwise indicated.

The metadata of the records in the Repository are available under the CC0 public domain dedication: No Rights Reserved https://creativecommons.org/publicdomain/zero/1.0/

If you believe that any material held in STORRE infringes copyright, please contact library@stir.ac.uk providing details and we will remove the Work from public display in STORRE and investigate your claim.