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Table 4 KEGG biochemical mapping of the genes harboring SNPs with allelic imbalances in fish families showing contrasting growth and muscle phenotypes

From: Identification of SNPs associated with muscle yield and quality traits using allelic-imbalance analyses of pooled RNA-Seq samples in rainbow trout

  Total (all traits) WBW Muscle % Fat % Schear Witness
KEGG categories No. of sequences (%) No. of KOs No. of sequences (%) No. of KOs No. of sequences (%) No. of KOs No. of sequences (%) No. of KOs No. of sequences (%) No. of KOs No. of sequences (%) No. of KOs
Metabolism 275 182 133 99 130 96 102 77 125 92 142 105
Carbohydrate Metabolism 77 (28.00) 43 42(31.58) 28 39 (30.00) 27 26 (25.49) 19 39 (31.20) 25 47 (33.10) 28
Glycollysis / Gluconeogenesis 39 18 19 10 19 14 13 7 21 11 20 13
Citrate cycle (TCA cycle) 19 14 8 8 9 7 7 6 10 9 9 7
Pyruvate metabolism 16 10 6 4 7 7 5 4 10 8 6 5
Pentose phosphate pathway 13 5 8 5 7 5 7 3 3 2 3 3
Energy Metabolism 88 (32.00) 57 42 (31.58) 32 45 (34.62) 29 37 (36.27) 26 30 (24.00) 21 41 (28.87) 32
Oxidative phosphorylation 52 37 20 17 28 18 18 15 13 11 19 16
Amino Acid Metabolism 56 (20.36) 41 26 (19.55) 21 24 (18.46) 20 2 (20.59) 16 28 (22.40) 22 32 (22.54) 26
Lipid Metabolism 27 (9.82) 22 14 (10.53) 11 11 (8.46) 11 7 (6.86) 6 16 (12.80) 14 13 (9.15) 11
Fatty acid degradation 15 13 8 6 9 9 4 3 11 10 8 7
Metabolism Cofactors and Vitamins 14 (5.09) 11 4 (3.01) 4 6 (4.62) 4 5 (4.90) 5 5 (4.00) 5 4 (2.82) 4
Nucleotide Metabolism 13 (4.73) 8 5 (3.76) 3 5 (3.85) 5 6 (5.88) 5 7 (5.60) 5 5 (3.52) 4
Genetic Informatio Processing 176 112 69 50 79 59 50 40 83 59 74 55
Translation 105 (59.66) 69 36 (52.19) 31 48 (60.76) 39 30 (60.00) 27 45 (54.22) 35 47 (63.51) 40
Ribosome 68 48 25 23 32 26 21 19 33 27 32 28
RNA transport 22 12 9 6 11 9 7 6 8 4 7 6
Folding. Sorting and Degradation 62 (35.23) 38 28 (40.58) 17 24 (30.38) 16 19 (38.00) 12 30 (36.14) 19 23 (31.08) 13
Protein processing in endoplasmic reticulum 23 14 11 7 7 4 7 5 14 9 7 4
RNA Degradation 16 5 11 4 10 5 8 4 9 3 11 5
Proteasome 12 11 4 4 5 5 1 1 4 4 4 3
Ubiquitin mediated proteolysi 9 7 2 2 2 2 1 1 3 3 1 1
Transcription 9 (5.11) 5 5 (7.25) 2 7 (8.86) 4 1 (2.00) 1 8 (9.64) 5 4 (5.41) 2
Spliceosome 9 5 5 2 7 4 1 1 8 5 4 2
Environmental Information Processing 166 99 70 45 88 61 62 45 76 55 87 58
Signal Transduction 147 (88.55) 87 62 (88.57) 39 79 (89.77) 53 56 (90.32) 41 69 (90.79) 50 74 (85.06) 50
P13K-Akt signaling pathway 35 21 12 8 13 10 12 8 13 10 24 16
Calcium signaling pathway 36 18 16 9 13 8 14 10 16 12 16 11
MAPK signaling pathway 26 18 10 6 17 12 7 6 12 9 10 8
cGMP-PKG signaling pathway 26 16 10 7 8 8 7 6 10 8 12 10
AMPK signaling pathway 21 12 10 5 14 8 9 3 10 6 12 7
cAMP signaling pathway 18 12 6 5 4 4 7 6 8 7 7 6
HIF-1signaling pathway 11 9 4 2 7 4 3 3 9 6 8 4
Hippo signaling pathway 13 7 2 2 7 5 6 6 5 5 5 4
FoxO signaling pathway 7 6 3 3 2 2 3 3 1 1 3 3
mTOR signaling pathway 5 5 1 1 2 2 0 0 1 1 3 3
Signaling Molecules and Interaction 19 (11.45) 12 8 (11.43) 6 9 (10.23) 8 6 (9.68) 4 7 (9.21) 5 13 (14.94) 8
ECM-receptor interaction 17 10 7 5 7 6 6 4 7 5 13 8
Cell adhesion molecules 3 2 1 1 2 2 0 0 0 0 2 1
Cellular Processes 152 85 68 41 70 42 54 4 64 44 83 56
Cellular community 54 (35.53) 27 27 (39.71) 13 29 (41.43) 15 26 (48.15) 16 27 (42.19) 16 36 (43.37) 21
Focal adhesion 35 21 13 10 17 11 14 11 15 11 23 17
Tight junction 19 10 18 6 17 6 15 8 16 7 10 6
Gap juction 8 2 1 1 1 1 2 2 2 2 7 2
Adherens junction 5 3 4 3 5 3 3 3 5 3 3 3
Transport and Catabolism 42 (27.63) 24 17 (25.00) 11 20 (28.57) 14 8 (17.81) 8 16 (25.00) 11 18 (21.69) 11
Cell Growth and Death 36 (23.68) 22 16 (23.53) 11 1217.14 8 13 (24.07) 12 14 (21.88) 13 19 (22.89) 16
Apoptosis 19 13 13 7 5 4 6 6 7 7 11 9
p53 signaling pathway 7 5 6 4 3 1 1 1 3 3 4 4
Cell Motility 20 (13.16) 12 8 (11.76) 6 9 (12.86) 5 7 (12.96) 6 7 (10.94) 4 10 (12.05) 8
Regulation of actin cytoskeleton 20 12 8 6 9 5 7 6 7 4 10 8
Organismal Systems 274 154 108 66 124 84 109 81 122 82 129 89
Endocrine System 105 (38.32) 53 44 (40.74) 25 49 (39.52) 32 36 (33.03) 24 53 (43.44) 3 56 (43.41) 33
Glucagon signaling pathway 36 12 19 8 14 9 12 7 22 11 23 10
Insulin signaling pathway 32 12 14 7 11 6 7 4 12 6 22 10
Thyroid hormone signaling pathway 11 7 4 4 6 5 3 3 4 4 6 6
Thyroid hormone synthesis 6 4 3 2 1 1 3 3 2 2 1 1
Circulatory System 49 (17.88) 30 18 (16.67) 12 22 (17.74) 15 19 (17.43) 16 16 (13.11) 13 15 (11.63) 12
Immune System 44 (16.06) 28 16 (17.81) 10 21 (16.94) 14 22 (20.18) 17 24 (19.67) 16 23 (17.83) 17
Digestive System 32 (11.68) 16 13 (12.04) 9 9 (7.26) 7 18 (16.54) 11 13 (10.66) 9 20 (15.50) 14
Protein digestion and absorption 12 5 6 4 7 5 8 5 5 3 8 4
Mineral absorption 4 2 1 1 1 1 2 2 1 1 2 2
Nervous System 27 (9.85) 17 7 (6.48) 5 12 (9.68) 9 11 (10.09) 10 10 (8.20) 9 9 (6.98) 8
Aging 17 (6.20) 10 10 (9.26) 5 11 (8.87) 7 3 (2.75) 3 6 (4.92) 2 6 (4.65) 5
Total 1043 632 448 301 491 342 377 285 470 332 515 363