Published 2022

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Publication details

Journal : ISME Communications , vol. 2 , p. 4 , 2022

Publisher : Springer Nature

International Standard Numbers :
Printed : 2730-6151
Electronic : 2730-6151

Publication type : Short communication

Contributors : Karlsen, Christian Renè; Tzimorotas, Dimitrios; Robertsen, Espen Mikal; Hånes, Katrine; Bogevik, André Sture; Rud, Ida

Research areas

Feed development and nutrition

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Kjetil Aune
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There is an increasing interest in the impact of feed on the fish gut microbiome. Most of the studies are based on sequencing the bacterial housekeeping gene 16S rRNA from extracted total DNA, including resident and non-resident live bacteria as well as dead bacteria. It has not been a common practice to include the feed as control, although it contains various nutritious ingredients that microorganisms can use before or after feed preparation. Thus, study designs using digesta as a proxy for the intestinal microbiome raise the concern that composition of the gut microbiome might be biased by carry-over of microbial DNA from the feed itself. Here we report analysis of 15 feeds and representative intestinal digesta of Atlantic salmon (Salmo salar) from five independent case studies. This allowed us to identify “feed microbiomes” that were microbially diverse and shared taxa with digesta microbiomes. Digesta-specific microbiomes were identified, though they were mainly enriched by a few taxa, such as Mycoplasma and Ruminococcaceae. Overall, findings are consistent with a model wherein gut microbial profiles are to a different degree influenced by bacterial DNA present in the feed itself through a “feed microbiome” carry-over effect.


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