Journal
CELLS
Volume 8, Issue 12, Pages -Publisher
MDPI
DOI: 10.3390/cells8121592
Keywords
CpG ODN; immunostimulant; functional feed; immune response; miRNA; biomarker; sequencing; Atlantic salmon
Categories
Funding
- Norwegian Research Council [280839/E40]
- High North Programme grant of Norway [HNP-2015/10026]
- Genomic Applications Partnership Program [GAPP] - Government of Canada through Genome Canada [6607]
- Genome Atlantic
- Cargill Innovation
- Natural Sciences and Engineering Research Council of Canada (NSERC) [341304-2012]
- Government of Newfoundland and Labrador through the Department of Tourism, Culture, Industry and Innovation (Leverage RD award) [5401-1019-108]
- NSERC
- Memorial University of Newfoundland SGS fellowship
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MicroRNAs (miRNAs) are key regulators in fish immune responses. However, no study has previously characterized the impact of polyriboinosinic polyribocytidylic acid (pIC) and formalin-killed typical Aeromonas salmonicida (ASAL) on miRNA expression in Atlantic salmon fed a commercial diet with and without immunostimulant CpG. To this end, first, we performed small RNA deep sequencing and qPCR analyses to identify and confirm pIC- and/or ASAL-responsive miRNAs in the head kidney of salmon fed a control diet. DESeq2 analyses identified 12 and 18 miRNAs differentially expressed in pIC and ASAL groups, respectively, compared to the controls. Fifteen of these miRNAs were studied by qPCR; nine remained significant by qPCR. Five miRNAs (miR-27d-1-2-5p, miR-29b-2-5p, miR-146a-5p, miR-146a-1-2-3p, miR-221-5p) were shown by qPCR to be significantly induced by both pIC and ASAL. Second, the effect of CpG-containing functional feed on miRNA expression was investigated by qPCR. In pre-injection samples, 6 of 15 miRNAs (e.g., miR-181a-5-3p, miR-462a-3p, miR-722-3p) had significantly lower expression in fish fed CpG diet than control diet. In contrast, several miRNAs (e.g., miR-146a-1-2-3p, miR-192a-5p, miR-194a-5p) in the PBS- and ASAL-injected groups had significantly higher expression in CpG-fed fish. Multivariate statistical analyses confirmed that the CpG diet had a greater impact on miRNA expression in ASAL-injected compared with pIC-injected fish. This study identified immune-relevant miRNA biomarkers that will be valuable in the development of diets to combat infectious diseases of salmon.
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