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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

From: Hepatic transcriptome analysis of inter-family variability in flesh n-3 long-chain polyunsaturated fatty acid content in Atlantic salmon

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

  1. 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.
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BMC Genomics

ISSN: 1471-2164

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