The malleable gut microbiome of juvenile rainbow trout (Oncorhynchus mykiss): Dietdependent shifts of bacterial community structures

Stéphanie Céline Michl, Jenni Marie Ratten, Matt Beyer, Mario Hasler, Julie La Roche, Carsten Schulz

Résultat de recherche: Articleexamen par les pairs

115 Citations (Scopus)

Résumé

Plant-derived protein sources are the most relevant substitutes for fishmeal in aquafeeds. Nevertheless, the effects of plant based diets on the intestinal microbiome especially of juvenile Rainbow trout (Oncorhynchus mykiss) are yet to be fully investigated. The present study demonstrates, based on 16S rDNA bacterial community profiling, that the intestinal microbiome of juvenile Rainbow trout is strongly affected by dietary plant protein inclusion levels. After first feeding of juveniles with either 0%, 50% or 97% of total dietary protein content derived from plants, statistically significant differences of the bacterial gut community for the three diet-types were detected, both at phylum and order level. The microbiome of juvenile fish consisted mainly of the phyla Proteobacteria, Firmicutes, Bacteroidetes, Fusobacteria and Actinobacteria, and thus fits the salmonid core microbiome suggested in previous studies. Dietary plant proteins significantly enhanced the relative abundance of the orders Lactobacillales, Bacillales and Pseudomonadales. Animal proteins in contrast significantly promoted Bacteroidales, Clostridiales, Vibrionales, Fusobacteriales and Alteromonadales. The overall alpha diversity significantly decreased with increasing plant protein inclusion levels and with age of experimental animals. In order to investigate permanent effects of the first feeding diet-type on the early development of the microbiome, a diet change was included in the study after 54 days, but no such effects could be detected. Instead, the microbiome of juvenile trout fry was highly dependent on the actual diet fed at the time of sampling.

Langue d'origineEnglish
Numéro d'articlee0177735
JournalPLoS One
Volume12
Numéro de publication5
DOI
Statut de publicationPublished - mai 2017

Note bibliographique

Funding Information:
We are very grateful for the support of the Skretting Aquaculture Research Centre (Stavanger, Norway) by providing the chemical analysis of dietary fatty acids and amino acids. There are no conflicts of interest. We would like to thank Jennifer Tolman for her assistance during DNA sample preparation, Jackie Zorz and Dhwani Desai for their help during the QIIME data processing and our colleagues from GMA for substantial support during sampling. We acknowledge financial support by Land Schleswig-Holstein within the funding programme Open Access Publikationsfonds.

Publisher Copyright:
© This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 public domain dedication.

ASJC Scopus Subject Areas

  • General

PubMed: MeSH publication types

  • Journal Article

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