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Microbial ecology of Atlantic salmon (Salmo salar) hatcheries: impacts of the built environment on fish mucosal microbiota


Minich, JJ and Poore, GD and Jantawongsri, K and Johnston, CJ and Bowie, K and Bowman, jp and Knight, R and Nowak, B and Allen, EE, Microbial ecology of Atlantic salmon (Salmo salar) hatcheries: impacts of the built environment on fish mucosal microbiota, Applied and Environmental Microbiology, 86, (12) Article e00411-20. ISSN 1098-5336 (2020) [Refereed Article]

Copyright Statement

Copyright 2020 American Society for Microbiology

DOI: doi:10.1128/AEM.00411-20


Successful rearing of fish in hatcheries is critical for conservation, recreational fishing, commercial fishing through wild stock enhancements, and aquaculture production. Flowthrough (FT) hatcheries require more water than recirculating aquaculture systems (RAS), which enable up to 99% of their water to be recycled, thus significantly reducing environmental impacts. Here, we evaluated the biological and physical microbiome interactions of three Atlantic salmon hatcheries (RAS n = 2, FT n = 1). Gill, skin, and digesta from six juvenile fish along with tank biofilms and water were sampled from tanks in each of the hatcheries (60 fish across 10 tanks) to assess the built environment and mucosal microbiota using 16S rRNA gene sequencing. The water and tank biofilm had more microbial richness than fish mucus, while skin and digesta from RAS fish had 2 times the richness of FT fish. Body sites each had unique microbiomes (P < 0.001) and were influenced by hatchery system type (P < 0.001), with RAS being more similar. A strong association between the tank and fish microbiome was observed. Water and tank biofilm richness was positively correlated with skin and digesta richness. Strikingly, the gill, skin, and digesta communities were more similar to that in the origin tank biofilm than those in all other experimental tanks, suggesting that the tank biofilm has a direct influence on fish-associated microbial communities. Lastly, microbial diversity and mucous cell density were positively associated with fish growth and length. The results from this study provide evidence for a link between the tank microbiome and the fish microbiome, with the skin microbiome as an important intermediate.

Item Details

Item Type:Refereed Article
Keywords:Atlantic salmon, hatcheries, microbiology, 16S, aquaculture, built environment, environmental microbiology, microbial ecology, microbiome
Research Division:Agricultural, Veterinary and Food Sciences
Research Group:Fisheries sciences
Research Field:Aquaculture
Objective Division:Animal Production and Animal Primary Products
Objective Group:Fisheries - aquaculture
Objective Field:Aquaculture fin fish (excl. tuna)
UTAS Author:Jantawongsri, K (Mr Khattapan Jantawongsri)
UTAS Author:Bowman, jp (Associate Professor John Bowman)
UTAS Author:Nowak, B (Professor Barbara Nowak)
ID Code:139569
Year Published:2020
Web of Science® Times Cited:10
Deposited By:TIA - Research Institute
Deposited On:2020-06-22
Last Modified:2020-07-28

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