Impact of selenium supplementation on fish antiviral responses: a whole transcriptomic analysis in rainbow trout (Oncorhynchus mykiss) fed supranutritional levels of Sel-Plex®

Pacitti, D.; Lawan, M. M.; Feldmann, J.; Sweetman, J.; Wang, T.; Martin, S. A. M.; Secombes, C. J.

doi:10.1186/s12864-016-2418-7

Table 3 List of selected transcripts significantly modulated in the liver of fish fed the Sel-Plex enriched diet²

From: Impact of selenium supplementation on fish antiviral responses: a whole transcriptomic analysis in rainbow trout (Oncorhynchus mykiss) fed supranutritional levels of Sel-Plex®

Trait	SeC	SeC	SeP	CP	Acc.	Identity7	HGNC	Gene Function⁹
Identifier¹	Liv²	HK³	Liv⁴	Liv⁵	Number⁶	Identity7	symbol⁸	Gene Function⁹
TC147106	4.1				BT048822	Apolipoprotein A-IV precursor	APOA4	positive regulation of lipid catabolic process
TC147106	4.1				BT048822	Apolipoprotein A-IV precursor	APOA4	plasma lipoprotein particle remodeling
TC143041	2.4	2.4	−2.2	−1.3	EF062859	cAMP responsive element-binding protein	CREB1	positive regulation of lipid metabolic and biosynthetic process
TC162807	−3.2				AF281344	Fatty acid binding protein	FABP1	positive regulation of lipid catabolic process and fatty acid metabolic process
TC132505	−2.9		−1.7	−1.4	NM_001124594	Growth hormone secretagogue receptor 1a	GHSR	positive regulation of fatty acid lipid metabolic process
TC133989	−2.0				AJ223954	Interleukin-1-beta	IL1B	positive regulation of lipid catabolic process and lymphocyte mediated immunity
TC161770	2.3				DQ789367	nonclassical MHC class I antigen	MR1	positive regulation of lymphocyte mediated immunity
TC167571	2.1				NM_001165374	Lysosomal-associated membrane protein 1	LAMP1	positive regulation of lymphocyte mediated immunity
TC134954	2.0				not-annotated	not-annotated	CRP	regulation of macrophage derived foam cell differentiation
TC154249	−2.1				DQ156149	Salmo salar clone BAC S0085O16	CETP	plasma lipoprotein particle remodeling
TC154249	−2.1				DQ156149	Salmo salar clone BAC S0085O16	CETP	regulation of macrophage derived foam cell differentiation
TC132491	−2.6				AY600084	Vitellogenin 2	APOB	plasma lipoprotein particle remodeling
TC132491	−2.6				AY600084	Vitellogenin 2	APOB	regulation of macrophage derived foam cell differentiation
TC172388	2.6		−2.3	1.3	NM_001124329	Superoxide dismutase 1 soluble	SOD1	regulation of steroid metabolic process
TC172388	2.6		−2.3	1.3	NM_001124329	Superoxide dismutase 1 soluble	SOD1	cellular response to reactive oxygen species
TC169043	2.3				NM_001160555	Hemoglobin subunit beta-1	HBB	cellular response to reactive oxygen species
TC133128	−2.8				NM_001124660	Cyclin-dependent kinasekinase	CDK1	cellular response to reactive oxygen species
TC149187	−2.3				EU221177	Salmo salar clone 242 N16	LRRC16A	regulation of actin filament depolymerization
TC136960	−2.4				NM_001140990	Vacuolar protein sorting 72 homolog	VPS72	regulation of actin filament depolymerization
TC168877	−2.1				NM_001165377	Beta-adducin	ADD2	regulation of actin filament depolymerization
TC156862	−2.4				NM_001124352	Type II keratin E2	KRT8	sarcomere organization
TC137650	−3.1	−4.2	1.3	−1.1	BT125454	Telethonin	TCAP	sarcomere organization
TC137650	−3.1	−4.2	1.3	−1.1	BT125454	Telethonin	TCAP	muscle filament sliding
TC163493	2.2		−1.2	1.6	NM_001139606	Slow troponin T family-like	TNNT2	sarcomere organization
TC163493	2.2		−1.2	1.6	NM_001139606	Slow troponin T family-like	TNNT2	muscle filament sliding
TC134405	−2.2		−1.7	−3.0	BT049717	Myosin light polypeptide 3	MYL4	muscle filament sliding

The selection was based on the results of the GO analysis (Fig. 5). Genes with corresponding microarray feature code¹ involved in a biological process that were significantly altered by the experimental diet in the liver were selected. If the transcripts were also significantly modulated in the HK of fish fed the experimental diet and injected with PBS³, in the liver of fish fed a normal diet and injected with poly(I:C)⁴, or in the same tissue of fish fed the experimental diet and injected with poly(I:C)⁵, these values are given. All the transcripts shown were significantly modulated at p < 0.05 following a Benjamini–Hochberg correction and had a fold change ≥2. Accession numbers of the cDNA sequences⁶, their identity⁷ and the corresponding human orthologue⁸ determined by BLASTx within the Ensemble database are reported. For each gene the function assigned by ClueGO software is also indicated. SeC represents the groups comparison addressed to analyse the effects of the Sel-Plex enriched diet. CP and SeP instead represent the comparisons addressed to analyse the effect of poly(I:C) stimulation on fish fed either a control diet or the experimental diet respectively

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ISSN: 1471-2164

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