Table S1Differentially expressed genes in soleus muscle of male (M) and female (F) rats fed either a normal diet (ND) or high fat diet (HFD), identified through microarray profiling.
Genesymbol / Gene description / Accession No. / ND-F/ ND-M / HFD-F/
HFD-M / HFD-M/ ND-M / HFD-F/ ND-F
Amino acid metabolism
Hpd / 4-hydroxyphenylpyruvate dioxygenase / NM_017233.1 / 1.12 / 1.59 / -1.83 / -1.29
Apoptosis
Pmp22 / peripheral myelin protein 22 / NM_012912.1 / 1.88 / 1.01 / 1.06 / -1.76
Atf3 / activating transcription factor 3 / NM_031688.1 / -1.01 / -2.51 / -1.12 / -2.81
Bdnf / brain derived neurotrophic factor / NM_024127.2 / 1.17 / -1.42 / 1.11 / -1.50
Il15 / interleukin 15 / NM_012603.2 / -1.02 / 1.38 / 1.07 / 1.52
Sphk2 / sphingosine kinase 2 / NM_013092.1 / -1.12 / -1.22 / -1.40 / -1.53
Sncg / synuclein, gamma (breast cancer-specific protein 1) / NM_012513.2 / 1.52 / 1.06 / 1.13 / -1.27
Blood circulation and gas exchange
Aplnr / apelin receptor / NM_031349.2 / 1.01 / 1.19 / -1.57 / -1.33
Carbohydrate metabolism
Neu2 / neuraminidase 2 / NM_017130.1 / 1.57 / 1.14 / 1.46 / 1.06
Pfkp / phosphofructokinase, platelet / NM_206847.1 / 1.02 / -1.24 / -1.01 / -1.27
Eno3 / enolase 3, beta / NM_012949.1 / -1.19 / -1.14 / -1.01 / 1.04
Cell adhesion
Mpz / myelin protein zero / NM_017027.1 / 1.71 / 1.01 / 1.01 / -1.67
Gpc3 / glypican 3 / NM_012774.1 / 1.35 / -1.25 / 1.05 / -1.60
Spp1 / secreted phosphoprotein 1 / NM_012881.1 / -1.34 / 1.34 / -1.95 / -1.08
Ttn / PREDICTED: titin / XM_001065955.1 / -1.46 / 1.59 / -1.53 / 1.52
Postn / PREDICTED: osteoblast specific factor / XM_342245.3 / -1.47 / 1.49 / -1.82 / 1.20
Col1a1 / PREDICTED: procollagen, type 1, alpha 1 / XM_001081230.1 / -2.60 / -1.01 / -3.90 / -1.52
Cell cycle
Gadd45a / growth arrest and DNA-damage-inducible 45 alpha / NM_012604.1 / 1.25 / 1.17 / 1.61 / 1.52
Tob2 / transducer of ERBB2 / NM_024127.2 / 1.18 / 1.28 / 1.69 / 1.83
Wee1 / wee 1 homolog (S. pombe) / NM_001007146.1 / -1.02 / 1.43 / 1.32 / 1.93
Fkbp5 / FK506 binding protein 5 / XM_001074167.1 / -2.22 / 1.54 / -1.51 / 2.26
Cell proliferation and differentiation
Mal / T-cell differentiation protein / NM_012798.1 / 1.81 / -1.13 / 1.09 / -1.89
Myocd / transcription factor myocardin / NM_182667.1 / 1.62 / -1.36 / 1.82 / -1.21
Bhlhb2 / basic helix-loop-helix domain containing, class B2 / NM_053328.1 / 1.55 / -1.27 / 1.76 / -1.12
Bhlhb3 / basic helix-loop-helix domain containing, class B3 / NM_133303.1 / 1.53 / -1.09 / 2.70 / 1.62
Esm1 / endothelial cell-specific molecule 1 / NM_022604.2 / 1.09 / 1.38 / -2.02 / -1.60
Nfkbia / PREDICTED: nuclear factor of kappa light chain gene enhancer in B-cells inhibitor, alpha / XM_343065.3 / -1.13 / -1.45 / 1.58 / 1.23
Errfi1 / ERBB receptor feedback inhibitor 1 / NM_001014071.1 / -1.26 / -1.90 / 1.15 / -1.31
Hbegf / heparin-binding EGF-like growth factor / NM_012945.1 / -1.81 / -1.04 / -2.30 / -1.32
Cell structure and motility
Gem / PREDICTED:GTP binding protein (gene overexpressed in skeletal muscle) / NM_001013222.1 / -1.08 / -1.73 / 1.12 / -1.43
Rhoj / ras homolog gene family, member J / NM_053356.1 / -1.15 / -1.22 / -1.58 / -1.68
Rnd1 / Rho family GTPase 1 / XM_001081230.1 / -1.39 / -1.21 / -1.79 / -1.56
Enah / enabled homolog (Drosophila) / NM_017027.1 / -1.05 / -1.13 / -1.45 / -1.57
Actn3 / actinin alpha 3 / NM_001024339.1 / 1.93 / -2.20 / 2.50 / -1.70
Cmya1 / PREDICTED: cardiomyopathy associated 1 / NM_001034075.1 / 1.09 / -1.49 / -1.64 / -2.65
Eln / elastin / NM_001034075.1 / 1.08 / -1.32 / -1.12 / -1.60
Cldn5 / claudin 5 / XM_232788.4 / -1.34 / -1.04 / -1.87 / -1.46
Col1a2 / collagen, type I, alpha 2 / NM_001008320.1 / -1.47 / 1.00 / -1.85 / -1.26
(Continued)
Genesymbol / Gene description / Accession No. / ND-F/ ND-M / HFD-F/
HFD-M / HFD-M/ ND-M / HFD-F/ ND-F
Developmental processes
Wnt16 / PREDICTED: wingless-related MMTV integration site 16 / XM_342325.3 / 1.79 / 1.05 / 1.75 / 1.03
Nr4a3 / nuclear receptor subfamily 4, group A, member 3 / NM_017037.1 / 1.22 / -2.80 / 1.82 / -1.88
Rcan1 / regulator of calcineurin 1 / NM_012604.1 / 1.16 / -1.64 / -1.42 / -2.70
Hes1 / hairy and enhancer of split 1 (Drosophila) / NM_182667.1 / -1.29 / 1.16 / -1.61 / -1.08
Egr2 / early growth response 2 / NM_053328.1 / -1.35 / -1.08 / -1.52 / -1.21
Nr4a2 / nuclear receptor subfamily 4, group A, member 2 / NM_133303.1 / -1.64 / -1.63 / -1.26 / -1.25
RGD
1559565 / PREDICTED: similar to EF hand domain containing 1 / NM_031628.1 / 1.24 / -1.24 / -1.05 / -1.61
Angpt1 / angiopoietin 1 / NM_012513.2 / 1.23 / -1.26 / 1.54 / -1.01
Csrp2 / cysteine and glycine-rich protein 2 / NM_012605.1 / -1.08 / 1.38 / 1.08 / 1.62
Klf4 / Kruppel-like factor 4 (gut) / NM_017185.1 / -1.12 / -1.84 / 1.04 / -1.57
Wsb1 / WD repeat and SOCS box-containing 1 / NM_177425.3 / -1.19 / -1.19 / -1.52 / -1.53
Col11a1 / PREDICTED: procollagen, type XI, alpha 1 / NM_053633.1 / -1.86 / 1.39 / -2.52 / 1.03
Tnmd / tenomodulin / NM_022197.1 / -1.98 / 1.04 / -2.42 / -1.17
Electron transport
Atp5s / ATP synthase, H+ transporting, mitochondrial F0 complex, subunit s / NM_001007749.1 / -1.14 / 1.15 / -1.12 / 1.18
Fmo1 / flavin containing monooxygenase 1 / NM_012792.1 / -1.07 / 1.58 / -1.07 / 1.57
Fmo2 / flavin containing monooxygenase 2 / NM_144737.2 / -1.12 / 1.59 / 1.02 / 1.82
Cyp26b1 / cytochrome P450, family 26, subfamily b, polypeptide 1 / NM_181087.2 / -1.66 / -1.02 / -2.06 / -1.26
Immunity and defense
Ak3l1 / adenylate kinase 3-like 1 / NM_017135.2 / 1.02 / 1.26 / -1.36 / -1.10
PVR / poliovirus receptor / XM_342172.3 / 1.14 / -1.30 / -1.12 / -1.66
Cd93 / CD93 molecule / NM_199115.2 / -1.05 / -1.36 / -1.51 / -1.95
Nfil3 / nuclear factor, interleukin 3 regulated / NM_001008827.1 / -1.39 / -1.41 / -2.18 / -2.21
Angptl4 / angiopoietin-like 4 / NM_212505.1 / -2.03 / 1.29 / -3.62 / -1.38
Nmi / N-myc (and STAT) interactor / NM_022936.1 / 1.09 / -1.54 / 1.17 / -1.44
Gbp2 / guanylate nucleotide binding protein 2 / NM_024127.2 / -1.08 / -1.51 / 1.27 / -1.10
Coq10b / coenzyme Q10 homolog B / NM_013092.1 / 1.09 / -1.59 / 1.62 / -1.07
Ier3 / immediate early response 3 / NM_017076.1 / 1.72 / 1.10 / 2.01 / 1.28
RT1-A1 / RT1 class Ia, locus A1 / NM_013129.1 / 2.45 / -1.97 / 1.27 / -3.80
Hla-dmb / major histocompatibility complex, class II, DM beta / NM_133624.1 / 1.55 / -1.25 / 1.18 / -1.64
Mill1 / MHC I like leukocyte 1 / NM_133624.1 / 1.13 / -1.63 / 1.60 / -1.15
RT1-A2 / RT1 class Ia, locus A2 / NM_053727.2 / -1.51 / -1.21 / 1.09 / 1.36
Intracellular protein traffic
Tuba8 / tubulin, alpha 8 / NM_053554.1 / 1.10 / -1.44 / -1.12 / -1.77
Picalm / phosphatidylinositol binding clathrin assembly protein / NM_012798.1 / -1.12 / -1.57 / 1.15 / -1.21
Lipid, fatty acid and steroid metabolism
Abcd2 / ATP-binding cassette, sub-family D (ALD), member 2 / NM_033352.1 / 1.25 / 1.24 / 1.30 / 1.28
Decr1 / 2,4-dienoyl CoA reductase 1, mitochondrial / NM_017130.1 / 1.25 / 1.01 / 1.68 / 1.35
Dgat2 / diacylglycerol O-acyltransferase homolog 2 / NM_001034090.1 / 1.10 / 1.58 / 1.52 / 2.18
Cyp4b1 / cytochrome P450, family 4, subfamily b, polypeptide 1 / NM_032071.1 / -1.13 / 1.31 / 1.03 / 1.53
Ephx1 / epoxide hydrolase 1, microsomal / NM_001012345.1 / 1.54 / 1.09 / 1.66 / 1.17
Synj2 / synaptojanin 2 / NM_173094.1 / 1.36 / 1.53 / 1.28 / 1.44
Hmgcs2 / 3-hydroxy-3-methylglutaryl-Coenzyme A synthase 2 / NM_016999.2 / -1.03 / 1.23 / 1.39 / 1.76
Sult1a1 / sulfotransferase family, cytosolic, 1A, phenol-preferring, member 1 / NM_031834.1 / -1.23 / 1.38 / 1.06 / 1.81
(Continued)
Genesymbol / Gene description / Accession No. / ND-F/ ND-M / HFD-F/
HFD-M / HFD-M/ ND-M / HFD-F/ ND-F
Miscellaneous
Gda / guanine deaminase / NM_031776.1 / -1.01 / 1.59 / -1.22 / 1.31
Muscle contraction
Actg2 / actin, gamma 2, smooth muscle, enteric / NM_012893.1 / -1.03 / -1.39 / 1.11 / -1.22
Myh3 / myosin, heavy chain 3, skeletal muscle, embryonic / NM_012604.1 / 1.66 / 1.55 / 1.08 / 1.00
Myh7b / myosin, heavy polypeptide 7B, cardiac muscle, beta / XM_230774.4 / 1.02 / 1.19 / 1.10 / 1.29
Pvalb / parvalbumin / NM_022499.1 / 1.35 / -1.59 / 1.80 / -1.19
Chrnd / cholinergic receptor, nicotinic, delta / NM_019298.1 / 1.22 / 1.12 / 1.59 / 1.47
Mybph / myosin binding protein H / NM_031813.1 / 1.10 / 1.18 / 1.62 / 1.73
Tnnt3 / troponin T type 3 / NM_031532.1 / 1.06 / -1.65 / -1.15 / -2.03
Tpm1 / tropomyosin 1, alpha / NM_001034075.1 / 1.00 / -1.53 / -1.11 / -1.70
Mylpf / myosin light chain, phosphorylatable / NM_012605.1 / -1.02 / -1.47 / -1.08 / -1.55
Tnni2 / troponin I type 2 / NM_017185.1 / -1.07 / -1.65 / -1.23 / -1.91
Mybpc2 / PREDICTED: myosin binding
protein C / XM_001077870.1 / -1.35 / -1.57 / -1.25 / -1.46
Neuronal activities
Comt / catechol-O-methyltransferase / NM_001012174.1 / -1.25 / -1.06 / 1.46 / 1.72
Nucleoside, nucleotide and nucleic acid metabolism
Pde10a / phosphodiesterase 10A / NM_053328.1 / 1.09 / -1.06 / -1.35 / -1.57
Nr1d1 / nuclear receptor subfamily 1, group D, member 1 / NM_133303.1 / 1.74 / -1.53 / 1.55 / -1.71
Per2 / period homolog 2 (Drosophila) / NM_031628.1 / 1.49 / 1.31 / 2.61 / 2.31
Klf2 / Kruppel-like factor 2 / NM_053713.1 / -1.20 / -1.58 / 1.05 / -1.27
Arntl / aryl hydrocarbon receptor nuclear translocator-like / NM_001007684.1 / -1.35 / -1.23 / -2.15 / -1.96
Egr1 / early growth response 1 / NM_053727.2 / -1.72 / -1.31 / -2.28 / -1.73
Zfp36 / zinc finger protein 36 / NM_022197.1 / -1.12 / -1.56 / 1.32 / -1.05
Oncogenesis
Btg2 / B-cell translocation gene 2, anti-proliferative / NM_017061.1 / -1.45 / -1.95 / -1.26 / -1.70
Myc / myelocytomatosis oncogene / NM_031688.1 / 1.18 / -1.70 / 1.21 / -1.65
Fos / FBJ murine osteosarcoma viral oncogene homolog / NM_012603.2 / -1.43 / -1.45 / -1.94 / -1.96
Lox / lysyl oxidase / NM_017259.1 / -1.92 / -1.08 / -2.33 / -1.32
Other metabolism
Ephx2 / epoxide hydrolase 2, cytoplasmic / NM_022936.1 / 1.28 / -1.99 / 2.10 / -1.21
Retsat / retinol saturase (all trans retinol 13,14 reductase) / NM_145084.1 / 1.00 / 2.74 / 1.19 / 3.25
Phosphate metabolism
Map2k6 / mitogen-activated protein kinase kinase 6 / NM_053703.2 / 1.41 / 1.11 / 1.69 / 1.32
Nudt7 / PREDICTED: nudix (nucleoside diphosphate linked moiety X)-type motif 7 / XM_001076428.1 / -1.02 / -1.08 / 1.52 / 1.44
Protein metabolism and modification
Paip1 / PREDICTED: polyadenylate binding protein-interacting protein 1 / XM_345160.3 / 1.63 / -1.25 / 1.42 / -1.43
Rpl30 / ribosomal protein L30 / NM_017130.1 / 1.10 / -1.22 / -1.88 / -2.52
Snf1lk / SNF1-like kinase / NM_022699.2 / -1.27 / -2.46 / -1.20 / -2.32
Pdk4 / pyruvate dehydrogenase kinase, isozyme 4 / NM_001012742.1 / -1.51 / -1.13 / -1.59 / -1.19
Slpi / secretory leukocyte peptidase inhibitor / NM_031056.1 / 1.53 / -1.16 / 1.22 / -1.45
Cma1 / chymase 1, mast cell / NM_021693.1 / 1.18 / -1.30 / -1.16 / -1.77
Usp2 / ubiquitin specific peptidase 2 / XM_001065955.1 / 1.11 / 1.35 / 2.01 / 2.45
Cpxm2 / carboxypeptidase X 2 (M14 family) / NM_053551.1 / 1.01 / 2.23 / -1.73 / 1.28
Mmp14 / matrix metallopeptidase 14 / NM_001012174.1 / -1.11 / -1.12 / -1.72 / -1.73
Protein targeting and localization
Colq / collagen-like tail subunit of asymmetric acetylcholinesterase / NM_019274.1 / -1.40 / -1.07 / -1.62 / -1.25
(Continued)
Genesymbol / Gene description / Accession No. / ND-F/ ND-M / HFD-F/
HFD-M / HFD-M/ ND-M / HFD-F/ ND-F
Sensory perception
Mup5 / major urinary protein 5 / NM_203325.1 / -1.27 / -1.65 / 1.23 / -1.06
LOC682605 / PREDICTED: similar to Major urinary protein precursor / XM_001062261.1 / -1.36 / -1.52 / 1.14 / 1.01
Fmod / fibromodulin / NM_080698.1 / -1.79 / 1.31 / -3.07 / -1.31
Kera / PREDICTED: keratocan / XM_235082.3 / -1.81 / -1.16 / -2.09 / -1.34
Signal transduction
Gja1 / gap junction protein, alpha 1 / NM_012945.1 / -1.61 / -1.20 / -1.34 / 1.00
Sart1 / squamous cell carcinoma antigen recognized by T cells / NM_001007146.1 / -1.08 / 1.51 / -1.09 / 1.48
RGD
1560967 / PREDICTED: similar to Pins / NM_001034148.1 / 1.22 / 0.51 / 1.27 / 1.60
Cx3cl1 / chemokine (C-X3-C motif) ligand 1 / NM_013129.1 / -1.02 / 0.17 / -1.50 / -1.62
Rgs2 / regulator of G-protein signaling 2 / NM_013129.1 / -1.24 / 0.63 / -1.30 / -1.52
RGD
735140 / hypothetical protein LK44 / NM_053453.1 / -1.13 / 1.30 / 1.04 / 1.53
Ppargc1a / peroxisome proliferator-activated receptor gamma, coactivator 1 alpha / NM_031347.1 / 1.04 / 1.21 / 1.04 / 1.22
Transport
Slc22a3 / solute carrier family 22 (extraneuronal monoamine transporter), member 3 / NM_019230.1 / 1.68 / -1.25 / 1.03 / -2.04
Ucp3 / uncoupling protein 3 (mitochondrial, proton carrier) (Ucp3), nuclear gene encoding mitochondrial protein / NM_019298.1 / -1.36 / -1.48 / -2.55 / -2.77
Tfrc / PREDICTED: transferrin receptor / NM_203325.1 / -1.48 / -1.64 / 1.11 / 1.01
Slc25a20 / solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 20 / NM_053965.2 / 1.04 / 1.13 / 1.06 / 1.15
Slc25a25 / solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 25 / NM_013167.2 / -1.42 / -1.97 / 1.99 / 1.44
Gstm5 / glutathione S-transferase, mu 5 / NM_172038.1 / 1.16 / 1.26 / 1.01 / 1.10