Journal article
Characterization of mid-intestinal microbiota of farmed Chinook salmon using 16S rRNA gene metabarcoding
Archives of Biological Sciences, Vol.71(4), pp.577-587
2019
Abstract
With the growing importance of aquaculture worldwide, characterization of the microbiota of high-value aquaculture species and identification of their shifts induced by changes in fish physiology or nutrition is of special interest. Here we report the first 16S rRNA gene metabarcoding survey of the mid-intestinal bacteria of Chinook salmon (Oncorhynchus tshawytscha), an economically important aquacultured species. The microbiota of 30 farmed Chinook salmon from a single cohort was surveyed using metabarcode profiling of the V3-V4 hypervariable region of the bacterial 16S rRNA gene. Seawater, feed and mid-intestinal samples and controls were sequenced in quadruplicate to assess both biological and technical variation in the microbial profiles. Over 1000 operational taxonomic units were identified within the cohort, providing a first glimpse into the mid-intestinal microbiota of farmed Chinook salmon. The taxonomic distribution of the salmon microbiota was reasonably stable, with around two thirds of individuals dominated by members of the family Vibrionaceae. We anticipate that the workflow presented in this paper could be applied in other aquacultured fish species to capture variation or dysbiosis occurring as a result of changes in feed, health or environmental conditions.
Details
- Title
- Characterization of mid-intestinal microbiota of farmed Chinook salmon using 16S rRNA gene metabarcoding
- Authors/Creators
- M. Ciric (Author/Creator)D. Waite (Author/Creator)J. Draper (Author/Creator)J.B. Jones (Author/Creator)
- Publication Details
- Archives of Biological Sciences, Vol.71(4), pp.577-587
- Publisher
- National Library of Serbia
- Identifiers
- 991005544012307891
- Murdoch Affiliation
- Murdoch University
- Language
- English
- Resource Type
- Journal article
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- Collaboration types
- Domestic collaboration
- International collaboration
- Citation topics
- 3 Agriculture, Environment & Ecology
- 3.2 Marine Biology
- 3.2.116 Aquaculture Nutrition
- Web Of Science research areas
- Biology
- ESI research areas
- Biology & Biochemistry