Table 1.
Genes differentially expressed depending on genotype and/or ACTH treatment
| Gene symbol | Gene name | Gene Function | p-value (ANOVA) | Fold Change | |||||
| genotype: MS/LW | treatment: ACTH/control | ||||||||
| genotype | treatment | interaction | control | ACTH | LW | MS | |||
| Genes up-regulated in Meishan pigs | |||||||||
| Rnf2 | ring finger protein 2 | Transcription regulation | 2.81E-13 | 7.89E-01 | 1.96E-02 | 3.5 | 2.5 | 1.2 | -1.2 |
| Mdk | midkine (neurite growth-promoting factor 2) | Cell growth/maintenance | 4.97E-06 | NS | NS | 2.0 | 1.5 | 1.2 | -1.1 |
| Snf1lk | SNF1-like kinase | Protein Kinase activity | 8.19E-05 | NS | NS | 1.8 | 1.8 | 1.2 | 1.3 |
| Ccnd1 | cyclin D1 | Cell growth/maintenance | 9.83E-06 | NS | NS | 1.7 | 1.5 | 1.1 | 1.0 |
| Cd99 | CD99 molecule | Structural/Cell adhesion/ECM | 1.01E-05 | NS | NS | 1.7 | 1.6 | 1.0 | 1.0 |
| Col21a1 | collagen, type XXI, alpha 1 | Structural/Cell adhesion/ECM | 9.39E-05 | NS | NS | 1.7 | 1.5 | -1.0 | -1.2 |
| Gprc5b | G protein-coupled receptor, family C, group 5, member B | Signal transduction (glutamatergic) | 9.53E-07 | NS | NS | 1.6 | 1.5 | 1.1 | -1.0 |
| Ldhd | lactate dehydrogenase D | ATP biosynthesis | 3.77E-06 | NS | NS | 1.6 | 1.6 | 1.1 | 1.1 |
| Ppp1r1a | protein phosphatase 1, regulatory (inhibitor) subunit 1A | Phosphatase inhibitor | 8.18E-06 | NS | NS | 1.6 | 1.4 | -1.0 | -1.2 |
| Mrps6 | mitochondrial ribosomal protein S6 | Translation | 1.25E-06 | NS | NS | 1.6 | 1.4 | 1.1 | -1.1 |
| Traf5 | TNF receptor-associated factor 5 | Signal transduction | 5.80E-05 | NS | NS | 1.5 | 1.5 | 1.0 | 1.0 |
| Cse1l | CSE1 chromosome segregation 1-like (yeast) | Protein transport | 2.98E-06 | NS | NS | 1.5 | 1.4 | 1.1 | 1.0 |
| Hist2h2aa | histone cluster 2, H2aa4 | Nucleosome Assembly | 2.10E-05 | NS | NS | 1.5 | 1.5 | -1.1 | -1.1 |
| Cd99 | CD99 molecule | Structural/Cell adhesion/ECM | 2.27E-05 | NS | NS | 1.5 | 1.6 | -1.1 | 1.0 |
| Mif | macrophage migration inhibitory factor (glycosylation-inhibiting factor) | Cell growth/maintenance | 1.25E-05 | NS | NS | 1.5 | 1.3 | 1.1 | -1.0 |
| Ptpmt1 | protein tyrosine phosphatase, mitochondrial 1 | Protein Phosphatase activity | 1.73E-08 | NS | NS | 1.5 | 1.5 | 1.0 | 1.1 |
| Mdh2 | malate dehydrogenase 2, NAD (mitochondrial) | Tricarboxylic acid cycle | 2.59E-06 | NS | NS | 1.5 | 1.5 | 1.0 | 1.1 |
| Malat1 | metastasis associated lung adenocarcinoma transcript 1 (non coding RNA) | unknown | 4.07E-05 | NS | NS | 1.5 | 1.3 | -1.0 | -1.2 |
| Suclg2 | succinate-CoA ligase, GDP-forming, beta subunit | Tricarboxylic acid cycle | 1.82E-05 | NS | NS | 1.4 | 1.3 | 1.0 | -1.1 |
| Eif3s7 | eukaryotic translation initiation factor 3, subunit 7 zeta, 66/67kDa | Translation regulation | 4.61E-05 | 5.87E-01 | 2.64E-02 | 1.4 | 1.1 | 1.1 | -1.2 |
| Magi3 | membrane associated guanylate kinase, WW and PDZ domain containing 3 | Protein Kinase activity | 2.40E-05 | NS | NS | 1.4 | 1.8 | -1.2 | 1.0 |
| Ppap2b | phosphatidic acid phosphatase type 2B | Protein Phosphatase activity | 3.45E-05 | 6.74E-02 | 4.48E-02 | 1.4 | 2.2 | -1.0 | 1.5 |
| Cys1 | cystin 1 | unknown | 1.08E-08 | NS | NS | 1.4 | 1.5 | -1.1 | -1.0 |
| Txnl2 | thioredoxin-like 2 | Electron transport | 5.63E-05 | NS | NS | 1.4 | 1.3 | 1.0 | 1.0 |
| C8orf53 | chromosome 8 open reading frame 53 | unknown | 1.34E-05 | NS | NS | 1.4 | 1.4 | 1.1 | 1.1 |
| C14orf2 | chromosome 14 open reading frame 2 | unknown | 1.65E-05 | NS | NS | 1.4 | 1.3 | 1.0 | -1.0 |
| Dusp26 | dual specificity phosphatase 26 (putative) | unknown | 3.78E-06 | NS | NS | 1.4 | 1.4 | 1.0 | 1.0 |
| Sod2 | superoxide dismutase 2, mitochondrial | Super oxide metabolism | 1.61E-06 | NS | NS | 1.4 | 1.5 | -1.1 | -1.0 |
| Ssr3 | signal sequence receptor, gamma (translocon-associated protein gamma) | Cotranslational membrane targeting | 7.82E-05 | NS | NS | 1.4 | 1.3 | 1.1 | 1.0 |
| Xpnpep1 | X-prolyl aminopeptidase (aminopeptidase P) 1, soluble | Proteolysis | 3.05E-05 | NS | NS | 1.3 | 1.3 | -1.0 | -1.0 |
| Hint1 | histidine triad nucleotide binding protein 1 | Signal transduction | 6.24E-05 | NS | NS | 1.3 | 1.2 | 1.1 | 1.0 |
| Hsbp1 | heat shock factor binding protein 1 | Transcription regulation | 6.13E-05 | NS | NS | 1.3 | 1.2 | 1.0 | -1.0 |
| Mrps10 | mitochondrial ribosomal protein S10 | Structural constituent of ribosome | 6.05E-05 | NS | NS | 1.3 | 1.3 | -1.0 | 1.0 |
| Lpp | LIM domain containing preferred translocation partner in lipoma | unknown | 4.71E-05 | NS | NS | 1.2 | 1.3 | 1.1 | 1.1 |
| Pgk1 | phosphoglycerate kinase 1 | Protein Kinase activity | 1.83E-05 | NS | NS | 1.2 | 1.4 | -1.1 | 1.1 |
| Ppap2d | phosphatidic acid phosphatase type 2d | Protein Phosphatase activity | 6.15E-06 | NS | NS | 1.2 | 1.3 | -1.0 | 1.1 |
| Atp5b | ATP synthase, H+ transporting, mitochondrial F1 complex, beta polypeptide | ATP biosynthesis | 1.07E-05 | NS | NS | 1.2 | 1.1 | 1.0 | -1.0 |
| Ccny | cyclin Y | unknown | 1.59E-05 | NS | NS | 1.2 | 1.3 | 1.0 | 1.1 |
| Cox6b1 | cytochrome c oxidase subunit Vib polypeptide 1 (ubiquitous) | Oxydoreductase activity | 9.02E-05 | NS | NS | 1.2 | 1.3 | -1.0 | 1.1 |
| Genes down-regulated in Meishan pigs | |||||||||
| C1qa | complement component 1, q subcomponent, A chain | Cell-cell signaling | 3.08E-06 | NS | NS | -2.1 | -1.5 | -1.1 | 1.2 |
| Cited1 | Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 1 | Transcription regulation | 1.88E-10 | NS | NS | -1.8 | -2.0 | 1.1 | -1.0 |
| Tmem14c | transmembrane protein 14C | Structural/Cell adhesion/ECM (mito) | 4.24E-06 | 4.81E-01 | 4.54E-02 | -1.8 | -1.3 | -1.2 | 1.1 |
| Hmgb3 | high-mobility group box 3 | Transcription regulation | 2.00E-08 | NS | NS | -1.6 | -1.4 | -1.2 | -1.0 |
| Tmem14c | transmembrane protein 14C | Structural/Cell adhesion/ECM (mito) | 5.40E-09 | 3.37E-01 | 1.61E-02 | -1.6 | -1.3 | -1.1 | 1.1 |
| Bphl | biphenyl hydrolase-like (serine hydrolase; breast epithelial mucin-associated antigen) | Amino acid metabolism | 2.71E-06 | NS | NS | -1.5 | -1.4 | -1.1 | -1.0 |
| Ttll12 | tubulin tyrosine ligase-like family, member 12 | unknown | 8.52E-08 | NS | NS | -1.5 | -1.6 | 1.1 | -1.0 |
| Gpx3 | glutathione peroxidase 3 (plasma) | Peroxidase activity | 8.06E-08 | NS | NS | -1.5 | -1.5 | -1.0 | -1.1 |
| Fkbp4 | FK506 binding protein 4, 59kDa | Protein binding | 4.64E-05 | NS | NS | -1.4 | -1.3 | 1.0 | 1.1 |
| Gns | glucosamine (N-acetyl)-6-sulfatase (Sanfilippo disease IIID) | Glycosaminoglycan catabolism | 5.48E-05 | NS | NS | -1.3 | -1.5 | 1.1 | -1.1 |
| Nr1h2 | nuclear receptor subfamily 1, group H, member 2 | Transcription regulation | 1.30E-05 | NS | NS | -1.2 | -1.3 | 1.0 | -1.1 |
| H2afj | H2A histone family, member J | Nucleosome Assembly | 3.50E-05 | NS | NS | -1.2 | -1.3 | -1.0 | -1.1 |
| Genes up-regulated by ACTH | |||||||||
| Bag3 | BCL2-associated athanogene 3 | Cell growth/maintenance | 3.76E-01 | 9.34E-11 | 5.19E-03 | 1.2 | -1.3 | 3.0 | 2.0 |
| Ier3 | immediate early response 3 | Cell growth/maintenance | 4.49E-01 | 2.83E-09 | 3.81E-02 | 1.3 | -1.1 | 2.6 | 1.9 |
| Adamts1 | ADAM metallopeptidase with thrombospondin type 1 motif, 1 | Cell growth/maintenance | NS | 2.37E-06 | NS | 1.4 | -1.1 | 2.6 | 1.7 |
| Gadd45a | growth arrest and DNA-damage-inducible, alpha | Regulation of protein kinase activity | NS | 1.46E-07 | NS | 1.1 | -1.1 | 2.1 | 1.7 |
| Id3 | inhibitor of DNA binding 3, dominant negative helix-loop-helix protein | Transcription regulation | NS | 4.69E-07 | NS | -1.1 | -1.2 | 2.0 | 1.9 |
| Tfpi2 | tissue factor pathway inhibitor 2 | Structural/Cell adhesion/ECM | NS | 4.72E-07 | NS | 1.1 | 1.0 | 1.8 | 1.7 |
| Odc1 | ornithine decarboxylase 1 | Cell growth/maintenance | NS | 2.85E-06 | NS | 1.2 | 1.0 | 1.6 | 1.4 |
| Tomm20 | translocase of outer mitochondrial membrane 20 homolog (yeast) | Protein transport (mb ext mito) | NS | 9.51E-05 | NS | 1.2 | 1.1 | 1.5 | 1.4 |
| Timp1 | TIMP metallopeptidase inhibitor 1 | Cell growth/maintenance | NS | 2.88E-07 | NS | 1.0 | -1.1 | 1.4 | 1.3 |
| Ddx3x | DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, X-linked | RNA helicase activity | NS | 1.19E-05 | NS | 1.1 | 1.0 | 1.4 | 1.3 |
| C10orf46 | chromosome 10 open reading frame 46 | unknown | NS | 6.70E-06 | NS | 1.0 | 1.2 | 1.4 | 1.6 |
| Gnl2 | guanine nucleotide binding protein-like 2 (nucleolar) | unknown | NS | 3.73E-05 | NS | 1.1 | -1.0 | 1.3 | 1.2 |
| Genes down regulated by ACTH | |||||||||
| Stat5a | signal transducer and activator of transcription 5A | Transcription regulation | NS | 8.12E-05 | NS | -1.0 | 1.0 | -1.4 | -1.3 |
| Wasf2 | WAS protein family, member 2 | Signal transduction (G-protein) | NS | 7.81E-05 | NS | -1.0 | 1.0 | -1.3 | -1.3 |
| Unc84b | unc-84 homolog B (C. elegans) | Cell growth/maintenance | NS | 4.26E-05 | NS | 1.2 | -1.0 | -1.3 | -1.6 |
| Cntf | ciliary neurotrophic factor | Signal transduction | NS | 4.93E-05 | NS | -1.0 | 1.1 | -1.3 | -1.2 |
| Nfe2l2 | nuclear factor (erythroid-derived 2)-like 2 | Transcription regulation | NS | 5.59E-06 | NS | 1.1 | 1.0 | -1.3 | -1.3 |
| Pcbd1 | pterin-4 alpha-carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) | Transcription regulation | NS | 5.70E-05 | NS | 1.1 | 1.0 | -1.2 | -1.3 |
| Bmpr2 | bone morphogenetic protein receptor, type II (serine/threonine kinase) | Protein Kinase activity | NS | 3.15E-05 | NS | -1.1 | 1.0 | -1.2 | -1.1 |
| Ctnnb1 | catenin (cadherin-associated protein), beta 1, 88kDa | Transcription regulation | NS | 1.01E-05 | NS | -1.0 | -1.1 | -1.2 | -1.2 |
| Gdf8 | growth differentiation factor 8 | Signal transduction (TGFb) | NS | 5.41E-05 | NS | 1.1 | -1.1 | -1.2 | -1.3 |
| Genes upregulated in Meishan and by ACTH | |||||||||
| Crem | cAMP responsive element modulator | Transcription regulation | 4.34E-02 | 2.70E-10 | NS | 1.7 | 1.1 | 4.4 | 3.0 |
| Cd83 | CD83 molecule | Signal transduction | 6.77E-06 | 3.80E-10 | NS | 1.9 | 1.5 | 3.2 | 2.6 |
| Eif1b | eukaryotic translation initiation factor 1B | Translation regulation | 9.08E-06 | 7.89E-10 | NS | 1.5 | 1.9 | 2.5 | 3.3 |
| Tob1 | transducer of ERBB2, 1 | Transcription regulation | 4.11E-02 | 6.96E-08 | NS | 1.1 | 1.0 | 2.5 | 2.3 |
| Ldlr | low density lipoprotein receptor (familial hypercholesterolemia) | Cholesterol mobilization | 5.19E-03 | 4.15E-07 | NS | 1.6 | 1.3 | 2.3 | 1.8 |
| Chchd2 | coiled-coil-helix-coiled-coil-helix domain containing 2 | unknown | 4.72E-04 | 3.36E-06 | NS | 1.4 | 1.3 | 1.6 | 1.5 |
| Ckb | creatine kinase, brain | Structural/Cell adhesion/ECM | 1.03E-06 | 3.00E-02 | NS | 2.1 | 1.9 | 1.3 | 1.2 |
| Mki67ip | MKI67 (FHA domain) interacting nucleolar phosphoprotein | rRNA metabolism | 1.25E-04 | 9.14E-05 | NS | 1.3 | 1.3 | 1.3 | 1.3 |
| Maob | monoamine oxidase B | Electron transport | 4.43E-05 | 4.23E-03 | NS | 1.4 | 1.3 | 1.2 | 1.2 |
| Dnaja | DnaJ (Hsp40) homolog, subfamily A, member 2 | Cell growth/maintenance | 1.59E-05 | 2.55E-03 | NS | 1.5 | 1.2 | 1.2 | 1.0 |
| H19 | H19, imprinted maternally expressed untranslated mRNA | unknown | 9.02E-07 | 5.79E-03 | NS | 1.5 | 1.6 | 1.1 | 1.3 |
| Dleu1 | deleted in lymphocytic leukemia, 1 | Cell growth/maintenance | 4.90E-07 | 2.14E-03 | NS | 1.5 | 2.0 | 1.1 | 1.4 |
| Genes up-regulated in Meishan and down-regulated by ACTH | |||||||||
| Selenbp1 | selenium binding protein 1 | Transporter activity | 2.98E-05 | 1.41E-02 | NS | 1.3 | 1.5 | -1.3 | -1.1 |
| C16orf33 | chromosome 16 open reading frame 33 | unknown | 5.03E-05 | 3.98E-02 | NS | 1.2 | 1.3 | -1.2 | -1.0 |
| Ech1 | enoyl Coenzyme A hydratase 1, peroxisomal | Fatty acid metabolism | 5.27E-07 | 6.31E-03 | NS | 1.4 | 1.4 | -1.2 | -1.2 |
| Anpep | alanyl (membrane) aminopeptidase (aminopeptidase N, aminopeptidase M, microsomal aminopeptidase, CD13, p150) | Development/Morphogenesis | 5.65E-12 | 8.27E-03 | NS | 2.1 | 1.9 | -1.1 | -1.2 |
| Iscu | iron-sulfur cluster scaffold homolog (E. coli) | unknown | 6.09E-05 | 1.03E-03 | NS | 1.3 | 1.2 | -1.1 | -1.2 |
| Enpp2 | ectonucleotide pyrophosphatase/phosphodiesterase 2 (autotaxin) | Signal transduction (G-protein) | 8.22E-05 | 6.17E-03 | NS | 1.4 | 1.3 | -1.1 | -1.2 |
| Klhl22 | kelch-like 22 (Drosophila) | unknown | 2.75E-04 | 9.94E-05 | NS | 1.3 | 1.1 | -1.1 | -1.2 |
| Sdha | succinate dehydrogenase complex, subunit A, flavoprotein (Fp) | Tricarboxylic acid cycle | 3.38E-05 | 3.08E-02 | NS | 1.2 | 1.2 | -1.0 | -1.1 |
| Genes down regulated in Meishan and by ACTH | |||||||||
| Ctdsp2 | CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 2 | unknown | 1.84E-02 | 4.68E-08 | NS | -1.1 | -1.3 | -1.6 | -1.8 |
| Pecam1 | platelet/endothelial cell adhesion molecule (CD31 antigen) | Signal transduction | 2.74E-05 | 8.45E-04 | NS | -1.6 | -1.6 | -1.4 | -1.5 |
| Dab2 | disabled homolog 2, mitogen-responsive phosphoprotein (Drosophila) | Cell growth/maintenance | 2.92E-02 | 5.63E-05 | NS | -1.1 | -1.3 | -1.4 | -1.7 |
| Cyb5b | cytochrome b5 type B (outer mitochondrial membrane) | Transporter activity | 4.15E-03 | 2.59E-06 | NS | -1.1 | -1.3 | -1.4 | -1.6 |
| Ostf1 | osteoclast stimulating factor 1 | Signal transduction | 1.66E-07 | 1.08E-02 | NS | -1.7 | -1.5 | -1.3 | -1.1 |
| Gdf8 | growth differentiation factor 8 | Signal transduction (TGFb) | 4.95E-03 | 6.71E-05 | NS | -1.1 | -1.3 | -1.3 | -1.4 |
| Nfat5 | nuclear factor of activated T-cells 5, tonicity-responsive | Transcription regulation | 2.75E-03 | 1.27E-05 | NS | -1.2 | -1.2 | -1.3 | -1.3 |
| Acox1 | acyl-Coenzyme A oxidase 1, palmitoyl | Fatty acid metabolism | 7.62E-10 | 4.31E-04 | NS | -1.7 | -1.5 | -1.2 | -1.1 |
| Ephx1 | epoxide hydrolase 1, microsomal (xenobiotic) | Proteolysis | 1.60E-06 | 2.62E-02 | NS | -1.8 | -1.6 | -1.2 | -1.1 |
| Ccdc85b | coiled-coil domain containing 85B | unknown | 1.66E-05 | 4.54E-02 | NS | -1.6 | -1.4 | -1.2 | -1.1 |
| A2m | alpha-2-macroglobulin | Protein transport | 2.45E-10 | 3.68E-03 | NS | -1.8 | -1.7 | -1.2 | -1.1 |
| Nono | non-POU domain containing, octamer-binding | mRNA processing | 1.01E-06 | 3.80E-03 | NS | -1.4 | -1.3 | -1.2 | -1.1 |
| Ifltd1 | intermediate filament tail domain containing 1 | unknown | 6.75E-06 | 1.81E-04 | NS | -1.2 | -1.4 | -1.2 | -1.3 |
| Myst4 | MYST histone acetyltransferase (monocytic leukemia) 4 | Transcription regulation | 9.48E-06 | 1.18E-02 | NS | -1.3 | -1.3 | -1.1 | -1.2 |
| Genes down regulated in Meishan and up-regulated by ACTH | |||||||||
| Gadd45b | growth arrest and DNA-damage-inducible, beta | Regulation of protein kinase activity | 6.38E-04 | 1.41E-11 | NS | -1.3 | -1.3 | 2.4 | 2.4 |
| C14orf4 | chromosome 14 open reading frame 4 | unknown | 8.66E-03 | 7.41E-05 | NS | -1.0 | -1.2 | 1.4 | 1.2 |
Genes differentially expressed between Meishan (MS) and Large White (LW) pigs and/or in response to acute stimulation by ACTH were identified using a pig cDNA microarray made up of 8959 cDNA clones. The most significant affected genes (p < 0.0001) were listed in the table, categorized on the basis of up or down-regulated by genotype and/or ACTH and sorting by decreasing fold changes. (unknown transcripts were excluded) Complete list is given in the additional file 1.