Table 2.
Genes with Increased Transcription in Brucella spp. Infected as Compared to Uninfected RAW 264.7 Macrophages
| H1: Mφ ≠ Mφ + B. melitensis = Mφ + B. neotomae = Mφ + B. ovis | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Probe set | Entrez gene | SLRa |
EBarrays probability | Gene symbol | Gene product | Additional statisticsc | |||
| Mb | Nb | Ob | Average ± SEM | ||||||
| Chemotaxis | |||||||||
| 102736_at | 20296 | 6.4 | 5.8 | 6.5 | 6.2 ± 0.5 | 0.996 | Ccl2 | Chemokine (C-C motif) ligand 2 (MCP-1) | a, b, c |
| 103486_at | 16176 | 7.5 | 6.1 | 6.7 | 6.8 ± 0.2 | 0.869 | Il1b | Interleukin 1 beta | a, b, c |
| 94761_at | 20306 | 5.6 | 4.6 | 6.0 | 5.4 ± 0.3 | 0.764 | Ccl7 | Chemokine (C-C motif) ligand 7 (MCP-3) | a, b, c |
| 98406_at | 20304 | 2.7 | 2.2 | 3.8 | 2.9 ± 0.6 | 0.658 | Ccl5 | Chemokine (C-C motif) ligand 5 (RANTES) | |
| 101160_at | 20310 | 4.8 | 4.4 | 4.6 | 4.6 ± 0.1 | 0.997 | Cxcl2 | Chemokine (C-X-C motif) ligand 2 (MIP-2α) | a, b, c |
| 94146_at | 20303 | 3.6 | 3.3 | 3.6 | 3.5 ± 0.2 | 0.999 | Ccl4 | Chemokine (C-C motif) ligand 4 (MIP-1β) | a, b, c |
| 98822_at | 53606 | 2.3 | 2.0 | 3.0 | 2.4 ± 0.3 | 0.891 | Isg15 | ISG15 ubiquitin-like modifier | |
| 102424_at | 20302 | 2.6 | 2.4 | 2.9 | 2.6 ± 0.2 | 0.905 | Ccl3 | Chemokine (C-C motif) ligand 3 (MIP-1α) | a, b |
| 104388_at | 20308 | 2.8 | 2.4 | 2.7 | 2.6 ± 0.2 | 0.932 | Ccl9 | Chemokine (C-C motif) ligand 9 (MIP-1γ) | a, b |
| 93858_at | 15945 | 1.7 | 2.1 | 2.2 | 2.0 ± 0.2 | 0.522 | Cxcl10 | Chemokine (C-X-C motif) ligand 10 | c |
| Defense response | |||||||||
| 92948_at | 12981 | 6.4 | 5.0 | 5.1 | 5.5 ± 0.4 | 0.723 | Csf2 | Colony stimulating factor 2 (granulocyte-macrophage) | a, b |
| 100981_at | 15957 | 4.6 | 4.2 | 5.6 | 4.8 ± 0.3 | 0.720 | Ifit1 | Interferon-induced protein with tetratricopeptide repeats 1 | a, b, c |
| 102629_at | 21926 | 4.3 | 4.1 | 4.2 | 4.2 ± 0.2 | 0.999 | Tnf | Tumor necrosis factor | a, b, c |
| 94142_at | 12985 | 4.7 | 3.7 | 4.6 | 4.3 ± 0.2 | 0.987 | Csf3 | Colony stimulating factor 3 (granulocyte) | a, b, c |
| 103639_at | 15958 | 2.8 | 3.2 | 3.7 | 3.2 ± 0.4 | 0.907 | Ifit2 | Interferon-induced protein with tetratricopeptide repeats 2 | |
| 93871_at | 16181 | 4.0 | 3.4 | 3.9 | 3.7 ± 0.2 | 0.996 | Il1rn | Interleukin 1 receptor antagonist | a, b, c |
| 102921_s_at | 14102 | 2.5 | 3.5 | 2.7 | 2.9 ± 0.4 | 0.914 | Fas | Fas (TNF receptor superfamily member) | c |
| 102712_at | 20210 | 3.4 | 2.3 | 2.9 | 2.9 ± 0.2 | 0.948 | Saa3 | Serum amyloid A 3 | c |
| 94928_at | 21938 | 2.5 | 2.0 | 2.5 | 2.4 ± 0.2 | 0.885 | Tnfrsf1b | Tumor necrosis factor receptor superfamily, member 1b | a, b, c |
| 92534_at | 14579 | 2.6 | 2.0 | 2.9 | 2.5 ± 0.2 | 0.839 | Gem | GTP binding protein (gene overexpressed in skeletal muscle) | |
| 98988_at | 80859 | 3.1 | 2.7 | 2.1 | 2.6 ± 0.2 | 0.94304859 | Nfkbiz | Nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor, zeta | |
| Protein-nucleus import | |||||||||
| 97238_at | 21335 | 2.8 | 3.2 | 2.9 | 3.0 ± 0.6 | 0.940 | Tacc3 | Transforming, acidic coiled-coil containing protein 3 | |
| 104149_at | 18035 | 2.6 | 2.1 | 1.9 | 2.2 ± 0.2 | 0.704 | Nfkbia | Nuclear factor of kappa light chain gene enhancer in B-cells inhibitor, alpha | a, b |
| 161135_f_at | 66406 | 2.3 | 1.2 | 2.6 | 2.0 ± 0.3 | 0.43736716 | Sac3d1 | SAC3 domain containing 1 | |
| Apoptosis | |||||||||
| 94186_at | 22029 | 5.0 | 4.4 | 4.6 | 4.7 ± 0.2 | 0.943 | Traf1 | Tnf receptor-associated factor 1 | a, b, c |
| 104712_at | 17869 | 3.7 | 4.0 | 3.0 | 3.6 ± 0.4 | 0.890 | Myc | Myelocytomatosis oncogene | c |
| 99392_at | 21929 | 2.6 | 2.3 | 2.0 | 2.3 ± 0.5 | 0.814 | Tnfaip3 | Tumor necrosis factor, alpha-induced protein 3 | c |
| 161666_f_at | 17873 | 3.8 | 3.4 | 3.6 | 3.6 ± 0.2 | 0.970 | Gadd45b | Growth arrest and DNA-damage-inducible 45 beta | a, b |
| 102779_at | 17873 | 2.7 | 2.4 | 2.7 | 2.6 ± 0.3 | 0.947 | Gadd45b | Growth arrest and DNA-damage-inducible 45 beta | c |
| Fatty acid biosynthesis | |||||||||
| 104647_at | 19225 | 5.6 | 4.7 | 4.4 | 4.9 ± 0.3 | 0.929 | Ptgs2 | Prostaglandin-endoperoxide synthase 2 | a, b, c |
| 94057_g_at | 20249 | 2.2 | 2.4 | 2.2 | 2.3 ± 0.2 | 0.849 | Scd1 | Stearoyl-coenzyme A desaturase 1 | |
| Cell surface receptor linked signal transduction | |||||||||
| 95344_at | 16165 | 3.0 | 3.3 | 3.0 | 3.1 ± 0.3 | 0.941 | Il13ra2 | Interleukin 13 receptor, alpha 2 | c |
| 97733_at | 11541 | 2.8 | 2.6 | 2.5 | 2.7 ± 0.2 | 0.931 | Adora2b | Adenosine A2b receptor | a, b |
| 104498_at | 26556 | 2.4 | 3.2 | 1.3 | 2.3 ± 0.3 | 0.421 | Homer1 | Homer homolog 1 (Drosophila) | b |
| 102663_at | 18793 | 2.7 | 2.2 | 2.7 | 2.5 ± 0.2 | 0.953 | Plaur | Urokinase plasminogen activator receptor | a, b, c |
| Regulation of biological process | |||||||||
| 92232_at | 12702 | 5.6 | 4.4 | 5.2 | 5.1 ± 0.2 | 0.912 | Socs3 | Suppressor of cytokine signaling 3 | a, b, c |
| 162206_f_at | 12702 | 3.9 | 3.1 | 3.4 | 3.5 ± 0.1 | 0.967 | Socs3 | Suppressor of cytokine signaling 3 | a, b |
| 92471_i_at | 20556 | 2.4 | 1.6 | 2.6 | 2.2 ± 0.3 | 0.595 | Slfn2 | Schlafen 2 | |
| Regulation of transcription, DNA-dependent | |||||||||
| 101415_i_at | 81845 | 2.5 | 2.9 | 1.9 | 2.4 ± 0.3 | 0.777 | Bat4 | HLA-B associated transcript 4 | |
| 102709_at | 15260 | 2.4 | 2.5 | 2.7 | 2.5 ± 0.1 | 0.915 | Hira | Histone cell cycle regulation defective homolog A (S. cerevisiae) | a, b |
| 103651_r_at | 68705 | 2.4 | 2.2 | 2.0 | 2.2 ± 0.2 | 0.808 | Gtf2f2 | General transcription factor IIF, polypeptide 2 | |
| 102882_at | 22704 | 2.4 | 2.1 | 2.5 | 2.3 ± 0.3 | 0.579 | Zfp46 | Zinc finger protein 46 | |
| Protein metabolism | |||||||||
| 160829_at | 21664 | 5.1 | 4.7 | 4.5 | 4.8 ± 0.4 | 0.958 | Phlda1 | Pleckstrin homology-like domain, family A, member 1 | a, b |
| 93352_at | 21817 | 2.2 | 1.8 | 2.0 | 2.0 ± 0.5 | 0.530 | Tgm2 | Transglutaminase 2, C polypeptide | |
| 102782_at | 71340 | 3.3 | 3.5 | 2.8 | 3.2 ± 0.2 | 0.926 | Riok1 | RIO kinase 1 | a, b |
| 97548_at | 328110 | 3.1 | 2.7 | 2.9 | 2.9 ± 0.2 | 0.950 | Prpf39 | PRP39 pre-mRNA processing factor 39 homolog (yeast) | |
| Cell growth and/or maintenance | |||||||||
| 104451_at | 18174 | 2.4 | 1.8 | 2.4 | 2.2 ± 0.1 | 0.805 | Slc11a2 | Solute carrier family 11 (proton-coupled divalent metal ion transporters), member 2 (Nramp2) | a, b |
| 94379_at | 16561 | 3.2 | 2.8 | 3.2 | 3.1 ± 0.1 | 0.945 | Kif1b | Kinesin family member 1B | a, b |
| 94384_at | 15937 | 2.8 | 2.6 | 2.2 | 2.5 ± 0.3 | 0.890 | Ier3 | Immediate early response 3 | b, c |
| 160729_f_at | 21884 | 3.3 | 2.1 | 3.4 | 2.9 ± 0.2 | 0.736 | Fabp9 | Fatty acid binding protein 9, testis | a, b |
| 161281_f_at | 15937 | 3.6 | 3.0 | 1.8 | 2.8 ± 0.3 | 0.44599685 | — | Immediate early response 3 | |
| Physiological process | |||||||||
| 160084_at | 546355 | 3.2 | 2.7 | 3.1 | 3.0 ± 0.3 | 0.995 | Odc | Similar to ornithine decarboxylase | b |
| AFFX-GapdhMur/M 32599_5_st | 14433 | 2.9 | 2.3 | 1.7 | 2.3 ± 0.4 | 0.761 | Gapdh | Similar to glyceraldehyde-3-phosphate dehydrogenase | |
| 102749_at | 12865 | 1.9 | 2.4 | 2.5 | 2.3 ± 0.4 | 0.672 | Cox7a1 | Cytochrome c oxidase, subunit VIIa 1 | |
| 94147_at | 18787 | 2.6 | 2.3 | 1.9 | 2.3 ± 0.3 | 0.813 | Serpine1 | Serine (or cysteine) proteinase inhibitor, clade E, member 1 | c |
| 102694_at | 26436 | 2.5 | 1.5 | 3.4 | 2.5 ± 0.2 | 0.498 | Psg16 | Pregnancy specific glycoprotein 16 | a, b |
| Miscellaneous classification | |||||||||
| 96515_at | 14204 | 1.9 | 1.9 | 2.5 | 2.1 ± 0.4 | 0.550 | Il4i1 | Interleukin 4 induced 1 | |
| 98774_at | 16365 | 4.0 | 4.2 | 4.1 | 4.1 ± 0.3 | 0.973 | Irg1 | Immunoresponsive gene 1 | a, b, c |
| 98773_s_at | 16365 | 3.4 | 3.1 | 3.3 | 3.3 ± 0.3 | 0.998 | Irg1 | Immunoresponsive gene 1 | a, b |
| 94971_at | 72391 | 2.7 | 1.9 | 2.6 | 2.4 ± 0.4 | 0.851 | Cdkn3 | Cyclin-dependent kinase inhibitor 3 | |
| 162384_f_at | 12457 | 1.9 | 3.4 | 2.8 | 2.7 ± 0.4 | 0.748 | Ccrn4l | CCR4 carbon catabolite repression 4-like | |
| 94389_at | 66373 | 1.9 | 2.4 | 1.9 | 2.1 ± 0.4 | 0.503 | Lsm5 | LSM5 homolog, U6 small nuclear RNA associated (S. cerevi-siae) | |
| 97714_r_at | 54130 | 2.7 | 1.7 | 3.2 | 2.5 ± 0.3 | 0.753 | Actr1a | ARP1 actin-related protein 1 homolog A (yeast) | b |
| 96162_at | 50764 | 1.6 | 3.4 | 2.3 | 2.5 ± 0.2 | 0.492 | Fbxo15 | F-box only protein 15 | b |
| 93869_s_at | 12044 | 2.3 | 2.2 | 2.3 | 2.3 ± 0.2 | 0.627 | Bcl2a1a | B-cell leukemia/lymphoma 2 related protein A1a | b, c |
| 94505_at | 67245 | 1.9 | 1.8 | 2.2 | 2.0 ± 0.1 | 0.512 | Peli1 | Pellino 1 | a, b |
| 104177_at | 58185 | 2.8 | 1.9 | 3.0 | 2.5 ± 0.3 | 0.827 | Rsad2 | Radical S-adenosyl methionine domain containing 2 | |
| 100669_at | 25465 | 2.1 | 2.0 | 2.5 | 2.2 ± 0.6 | 0.583 | — | Interleukin 17 | |
| 161511_f_at | 53606 | 2.1 | 2.1 | 3.1 | 2.4 ± 0.5 | 0.825 | Isg15 | Interferon stimulated gene, ubiquitin-like modifier | |
| 97693_at | 30865 | 5.6 | 5.0 | 5.4 | 5.3 ± 0.2 | 0.965 | C78513 | EST C78513 | |
| 104477_at | 3.0 | 3.3 | 3.8 | 3.4 ± 0.3 | 0.919 | — | Transcribed locus | ||
| 99849_at | 319202 | 2.7 | 2.0 | 2.7 | 2.5 ± 0.2 | 0.908 | 1200016 E24Rik | RIKEN cDNA 1200016E24 gene | |
a
Signal log ratio = LOG2 (experimental Brucella spp. infected signal/control uninfected signal) ± SEM.
b
M, N, O indicate Brucella spp. used to infect macrophages B. melitensis, B. neotomae and B. ovis, respectively.
c
Identified by additional statistical analyses: a, ANOVA P ≥ 0.01; b, SAM delta = 0.05; c, B. abortus microarrays (14).