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


Zarkasi, KZ and Abell, GCJ and Taylor, RS and Neuman, C and Hatje, E and Tamplin, ML and Katouli, M and Bowman, JP, Pyrosequencing-based characterization of gastrointestinal bacteria of Atlantic salmon (Salmo salar L.) within a commercial mariculture system, Journal of Applied Microbiology, 117, (1) pp. 18-27. ISSN 1364-5072 (2014) [Refereed Article]

Copyright Statement

Copyright 2014 Wiley

DOI: doi:10.1111/jam.12514


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.

Item Details

Item Type:Refereed Article
Keywords:16S rRNA gene, Atlantic salmon, intestinal bacteria, next-generation sequencing, pyrosequencing, season
Research Division:Biological Sciences
Research Group:Microbiology
Research Field:Bacteriology
Objective Division:Animal Production and Animal Primary Products
Objective Group:Fisheries - aquaculture
Objective Field:Aquaculture fin fish (excl. tuna)
UTAS Author:Zarkasi, KZ (Mr Kamarul Zarkasi)
UTAS Author:Tamplin, ML (Professor Mark Tamplin)
UTAS Author:Bowman, JP (Associate Professor John Bowman)
ID Code:92926
Year Published:2014
Web of Science® Times Cited:95
Deposited By:Tasmanian Institute of Agriculture
Deposited On:2014-07-01
Last Modified:2017-11-03

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