Table 3.
Liver transcripts differentially expressed when examining the explanatory power of the variable 'total lipid' level in flesh of four families of Atlantic salmon fed the same low FM/high VO diet
|
Probe name |
Gene |
High/Low Lipid |
p-value |
|
|---|---|---|---|---|
| Lo LC-PUFA (HL/LL) | Hi LC-PUFA (HH/LH) | |||
|
Metabolism (30%) | ||||
|
Lipid metabolism (8%) | ||||
| Ssa#STIR02479 |
Butyrophilin subfamily 2 member A2 precursor |
7.76 |
1.23 |
0.0001 |
| Ssa#STIR03356 |
Acyl carrier protein, mitochondrial precursor |
- 5.17 |
- 1.55 |
0.0004 |
| Ssa#STIR00151_3 |
Polyunsaturated fatty acid elongase (elovl2) |
- 1.40 |
- 1.87 |
0.0190 |
| Ssa#STIR00151_2 |
Polyunsaturated fatty acid elongase (elovl2) |
- 1.28 |
- 1.97 |
0.0238 |
| Con_CANDS_03 |
Polyunsaturated fatty acid elongase (elovl2) |
- 1.33 |
- 1.82 |
0.0310 |
| Ssa#STIR24266 |
Acyl carrier protein, mitochondrial precursor |
- 2.88 |
- 1.52 |
0.0312 |
| Ssa#STIR21802 |
Stearoyl-CoA desaturase |
3.53 |
3.17 |
0.0324 |
| Ssa#STIR00151_4 |
Polyunsaturated fatty acid elongase (elovl2) |
- 1.41 |
- 1.82 |
0.0393 |
| Ssa#S35501441_S |
Acyl carrier protein, mitochondrial precursor |
- 2.65 |
- 1.44 |
0.0457 |
| Ssa#KSS4634 |
Stearoyl-CoA desaturase |
3.52 |
2.82 |
0.0486 |
|
Energy metabolism and generation of precursor metabolites (11%) | ||||
| Ssa#S31995754 |
Cytochrome c oxidase subunit 2 |
6.57 |
- 1.12 |
0.0002 |
| Ssa#STIR03496 |
LYR motif-containing protein 5 |
1.20 |
1.48 |
0.0233 |
| Ssa#STIR03740 |
6-Phosphogluconate dehydrogenase, decarboxylating |
1.60 |
1.93 |
0.0238 |
| Ssa#TC106663 |
Creatine kinase, testis isozyme |
1.76 |
1.46 |
0.0380 |
| Ssa#STIR19155 |
NADH dehydrogenase iron-sulfur protein 7 |
1.21 |
2.30 |
0.0409 |
| Ssa#STIR12872 |
V-type ATPase B subunit |
- 1.19 |
- 1.24 |
0.0419 |
|
Protein and amino acid metabolism (4%) | ||||
| Ssa#STIR03710 |
Proteasome subunit beta type-9 precursor |
1.94 |
25.52 |
0.0001 |
| Ssa#S30294677 |
Serine protease HTRA1 precursor (Serine protease 11) |
3.42 |
2.44 |
0.0089 |
|
Carbohydrate metabolism (4%) | ||||
| Ssa#TC106766 |
Glycogenin |
8.64 |
1.67 |
0.0093 |
| Ssa#S30290426 |
Serine dehydratase-like |
1.60 |
1.72 |
0.0393 |
|
Xenobiotic and oxidant metabolism (4%) | ||||
| Ssa#S35671757 |
Extracellular superoxide dismutase |
2.18 |
1.09 |
0.0061 |
| Ssa#STIR25620 |
Microsomal glutathione S-transferase 1 |
2.45 |
2.72 |
0.0096 |
| Omy#S18159333 |
Microsomal glutathione S-transferase 1 |
2.47 |
3.15 |
0.0233 |
|
Transport (2%) | ||||
| Ssa#S35599996 |
ATPase, H + transporting, lysosomal, V1 subunit H |
45.10 |
15.16 |
0.0000 |
|
Translation (4%) | ||||
| Ssa#STIR26031 |
Mitochondrial 28 S ribosomal protein S34 |
1.19 |
19.22 |
0.0000 |
| Ssa#S30241612 |
39 S ribosomal protein L16 |
1.30 |
1.51 |
0.0324 |
|
Regulation of transcription (12%) | ||||
| Ssa#STIR06878 |
Cytosolic iron-sulfur protein assembly 1 |
- 1.16 |
- 1.56 |
0.0106 |
| Ssa#TC112002 |
Retinoid X receptor beta |
1.20 |
- 16.00 |
0.0254 |
| Omy#S15320037 |
SWI/SNF-related matrix-associated actin-dependent regulator of chromatin a4 |
- 1.97 |
- 1.53 |
0.0324 |
| Ssa#CN181280 |
alpha thalassaemia mental retardation X-linked protein |
- 3.05 |
- 6.90 |
0.0419 |
| Ssa#S35697153 |
YLP motif containing 1 |
- 1.49 |
- 1.32 |
0.0428 |
| Ssa#S35486480 |
Zinc finger protein 492 |
- 1.08 |
- 2.29 |
0.0452 |
|
Signalling and protein modification (13%) | ||||
| Ssa#STIR15776 |
Dolichyl-diphosphooligosaccharide-protein glycosyltransferase subunit 4 |
- 84.27 |
2.44 |
0.0000 |
| Ssa#STIR23530 |
Dolichyl-diphosphooligosaccharide-protein glycosyltransferase subunit 4 |
- 83.34 |
2.60 |
0.0000 |
| Ssa#STIR03642 |
Dolichyl-diphosphooligosaccharide-protein glycosyltransferase subunit 4 |
- 49.76 |
2.34 |
0.0001 |
| Ssa#STIR01857 |
Dolichyl-diphosphooligosaccharide-protein glycosyltransferase subunit 4 |
- 74.19 |
2.51 |
0.0011 |
| Ssa#S35516167 |
14 kDa phosphohistidine phosphatase |
1.57 |
1.34 |
0.0019 |
| Ssa#STIR11086 |
Lunatic fringe |
- 5.47 |
- 2.00 |
0.0154 |
| Ssa#S30263209 |
HtrA serine peptidase 3 |
3.71 |
2.33 |
0.0154 |
| Ssa#STIR22920 |
HCLS1-associated protein X-1 |
1.73 |
2.33 |
0.0390 |
| Ssa#S35701148 |
Phosphatase and actin regulator 3 |
- 1.52 |
- 65.53 |
0.0404 |
| Omy#S15290792 |
Serine/threonine-protein kinase PLK2 |
1.70 |
2.03 |
0.0468 |
|
Immune response (29%) | ||||
| Ssa#STIR00130_4 |
Complement factor H precursor (cfh) |
- 1.43 |
- 1.67 |
0.0012 |
| Ssa#S35536179 |
novel NACHT domain containing protein |
- 1.89 |
- 2.41 |
0.0013 |
| Ssa#S30241035 |
MHC class I |
- 1.55 |
- 30.59 |
0.0024 |
| Ssa#S35516341 |
Tripartite motif-containing protein 25 (trim25) |
- 5.64 |
- 4.34 |
0.0125 |
| Ssa#S18834140 |
Complement factor H precursor (cfh) |
- 1.34 |
- 1.57 |
0.0131 |
| Omy#utu04b09 |
Complement factor H precursor (cfh) |
- 1.56 |
- 1.70 |
0.0134 |
| Ssa#STIR15577 |
Tissue factor pathway inhibitor a |
21.03 |
1.59 |
0.0151 |
| Ssa#S35558236 |
C-type lectin domain family 16, member A |
4.59 |
2.25 |
0.0190 |
| Ssa#STIR10409 |
CD83 antigen precursor |
1.98 |
1.68 |
0.0238 |
| Omy#S15332652 |
Putative pentraxin |
- 1.33 |
159.84 |
0.0246 |
| Ssa#S35685271 |
GTPase IMAP family member 7 |
−168.44 |
- 4.09 |
0.0263 |
| Ssa#S35551959 |
Duodenase-1 |
- 2.94 |
- 2.77 |
0.0349 |
| Ssa#S35558945 |
Tripartite motif-containing protein 25 (trim25) |
- 5.74 |
- 4.28 |
0.0373 |
| Ssa#S35685273 |
Lactose-binding lectin l-2 precursor putative |
1.56 |
4.04 |
0.0380 |
| Ssa#S31977617 |
Scavenger receptor cysteine-rich type 1 protein m130 |
- 1.31 |
- 2.05 |
0.0404 |
| Ssa#STIR04893 |
Lactose-binding lectin l-2 precursor putative |
1.57 |
4.15 |
0.0419 |
| Ssa#S30264865 |
Indoleamine-pyrrole 2,3-dioxygenase |
2.83 |
1.06 |
0.0444 |
| Ssa#S31981622 |
Granzyme A |
- 5.31 |
- 4.33 |
0.0444 |
| Ssa#S35685718 |
CD83 antigen precursor |
2.03 |
1.58 |
0.0462 |
| Ssa#KSS3969 |
Leukocyte cell-derived chemotaxin 2 precursor (lect2) |
3.16 |
4.86 |
0.0486 |
|
Structural proteins (10%) | ||||
| Ssa#STIR03004 |
Troponin I, slow skeletal muscle |
- 202.28 |
- 135.03 |
0.0000 |
| Ssa#CK891024 |
Vitelline envelope protein gamma |
1.07 |
- 15.43 |
0.0002 |
| Ssa#STIR02053 |
Troponin I, slow skeletal muscle |
- 70.21 |
- 10.07 |
0.0005 |
| Omy#S34312003 |
similar to Titin (Connectin) |
- 44.29 |
- 29.86 |
0.0013 |
| Omy#S15317515 |
Type I keratin E7 |
5.08 |
2.43 |
0.0167 |
| Ssa#STIR05140 |
Troponin I, slow skeletal muscle |
- 13.16 |
- 14.20 |
0.0124 |
| Ssa#STIR08802 |
Myosin regulatory light chain 2, smooth muscle isoform |
1.55 |
1.34 |
0.0324 |
|
Miscellaneous/unknown function | ||||
| Ssa#S35519407 |
Tetratricopeptide repeat protein 23 |
3.64 |
1.02 |
0.0012 |
| Ssa#S35584894 |
NCK-associated protein 1-like |
- 1.82 |
- 1.70 |
0.0019 |
| Ssa#S35521859_S |
FAM36A |
1.11 |
5.75 |
0.0047 |
| Ssa#STIR02307 |
FAM36A |
1.16 |
3.31 |
0.0058 |
| Ssa#TC87798 |
Envelope polyprotein |
- 1.83 |
- 1.03 |
0.0233 |
| Ssa#STIR20319 |
TPA-induced transmembrane protein |
- 1.09 |
1.75 |
0.0233 |
| Ssa#TC110493_S |
Beta-3-galactosyltransferase |
6.80 |
1.80 |
0.0233 |
| Ssa#S30270166 |
Transmembrane protein 37 |
2.13 |
1.90 |
0.0254 |
| Ssa#STIR08658 |
Tetraspanin-3 putative |
- 3.20 |
- 1.47 |
0.0312 |
| Ssa#S30293470 |
Deoxyribonuclease gamma precursor |
2.19 |
2.85 |
0.0366 |
| Ssa#S35667723 |
Dynein, cytoplasmic 1, light intermediate chain 2 |
- 1.90 |
- 1.48 |
0.0366 |
| Ssa#CX354464 |
Retinol dehydrogenase 12 |
2.37 |
2.35 |
0.0373 |
| Ssa#S35582016 |
Type I iodothyronine deiodinase |
1.51 |
1.74 |
0.0380 |
| Ssa#S35515630 |
C7orf57 |
1.32 |
1.13 |
0.0380 |
| Ssa#STIR15617 |
FAM36A |
1.02 |
4.60 |
0.0403 |
| Ssa#STIR31448 |
osteopontin-like |
- 4.84 |
- 1.58 |
0.0419 |
| Ssa#STIR26263 |
Anterior gradient protein 2 homolog precursor |
3.72 |
1.68 |
0.0419 |
| Ssa#TC65497_S |
Adipocyte plasma membrane-associated protein |
2.50 |
1.64 |
0.0419 |
| Ssa#TC93681 |
Ring finger protein 44 |
- 1.23 |
- 1.17 |
0.0455 |
| Ssa#EG819142 | Glutaminyl-peptide cyclotransferase-like | - 1.11 | - 1.49 | 0.0455 |
Results were obtained by two-way ANOVA analysis (p < 0.05; fold change cut-off of 1.2) with Benjamini-Hochberg multiple testing correction. Transcripts (109 probes; 18% unknowns) are arranged by categories of biological function and, within these, by p-value. Indicated are also the probe names and the expression ratio determined separately between families with high vs low total lipid level, for each n-3 LC-PUFA grouping. Percentages of distribution of genes within each category do not include non-annotated probes, those representing the same gene or with a miscellaneous function.