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Pyrosequencing-based characterization of gastrointestinal bacteria of Atlantic salmon (Salmo salar L.) within a commercial mariculture system

journal contribution
posted on 2023-05-18, 01:49 authored by Zarkasi, KZ, Abell, GCJ, Taylor, RS, Neuman, C, Hatje, E, Mark TamplinMark Tamplin, Katouli, M, John BowmanJohn Bowman

Aims: The relationship of Atlantic salmon gastrointestinal (GI) tract bacteria to environmental factors, in particular water temperature within a commercial mariculture system, was investigated.

Methods and Results: Salmon GI tract bacterial communities commercially farmed in south-eastern Tasmania were analysed, over a 13-month period across a standard commercial production farm cycle, using 454 16S rRNA-based pyrosequencing. Faecal bacterial communities were highly dynamic but largely similar between randomly selected fish. In postsmolt, the faecal bacteria population was dominated by Gram-positive fermentative bacteria; however, by midsummer, members of the family Vibrionaceae predominated. As fish progressed towards harvest, a range of different bacterial genera became more prominent corresponding to a decline in Vibrionaceae. The sampled fish were fed two different commercial diet series with slightly different protein, lipid and digestible energy level; however, the effect of these differences was minimal.

Conclusions: The overall data demonstrated dynamic hind gut communities in salmon that were related to season and fish growth phases but were less influenced by differences in commercial diets used routinely within the farm system studied.

Significance and Impact of the Study: This study provides understanding of farmed salmon GI bacterial communities and describes the relative impact of diet, environmental and farm factors.


Publication title

Journal of Applied Microbiology








Tasmanian Institute of Agriculture (TIA)


Blackwell Publishing Ltd

Place of publication

9600 Garsington Rd, Oxford, England, Oxon, Ox4 2Dg

Rights statement

Copyright 2014 Wiley

Repository Status

  • Restricted

Socio-economic Objectives

Aquaculture fin fish (excl. tuna)

Usage metrics

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