Table S2 Genes significantly upregulated (p<0.05) at least 2-fold compared to naïve control only in BCG ΔureC::hly ΔnuoG-vaccinated micea.
DAY 1GENE SYMBOL / FC / P(Corr)b / DESCRIPTIONc / KNOWN OR SUSPECTED FUNCTION(S)
Dppa4 / 2.03 / 1.03E-04 / Developmental pluripotency associated 4 / Development, transcription, epigenetic modification.
Il18 / 2.296 / 7.76E-04 / Interleukin-18 / Stimulates IFN-γ production in T-helper type I cells, augments natural killer cell activity.
Slc7a5 / 2.39 / 1.26E-03 / Solute carrier family 7 (cationic amino acid transporter, y+ system), member 5 / High-affinity transport of large neutral amino acids. May be involved in peptide–antigen binding.
Vmn2r7 / 2.376 / 1.55E-03 / Vomeronasal 2, receptor 7 / Pheremone receptor, lipid binding.
Serpina3n / 2.152 / 2.25E-03 / Serine (or cysteine) peptidase inhibitor, clade A, member 3N / Acute phase response, inflammatory response. Although its physiological function is unclear, it can inhibit neutrophil cathepsin G and mast cell chymase, both of which can convert angiotensin-1 to the active angiotensin-2.
Cdc123 / 2.091 / 3.91E-03 / Cell division cycle 123 / Required for S phase entry of the cell cycle.
Calml4 / 2.293 / 5.40E-03 / Calmodulin-like 4 / Belongs to family of sensor/signal transduction calcium binding proteins which are involved in many processes including inflammation, metabolism, apoptosis, intracellular movement, short-term and long-term memory, and the immune response.
Cd209c / 2.103 / 7.14E-03 / CD209c antigen (DC-SIGN) / Pattern-recognition receptor on DCs involved in initiation of primary immune response. Marker of inflammatory, monocyte-derived DCs.
Itih4 / 2.101 / 2.53E-02 / Inter alpha-trypsin inhibitor, heavy chain 4 / Type II acute-phase protein involved in inflammatory responses to trauma.
Fcer1a / 2.069 / 3.05E-02 / Fc receptor, IgE, high affinity I, alpha polypeptide / IgE binding, expressed on mast cells, basophils and inflammatory DCs, role in allergic response.
Serpinb7 / 2.929 / 4.34E-02 / Serine (or cysteine) peptidase inhibitor, clade B, member 7 / Serpins play a role in coagulation and inflammation. Protease inhibitor. Might function as an inhibitor of Lys-specific proteases. Might influence the maturation of megakaryocytes.
Avpr1a / 3.624 / 4.88E-02 / Arginine vasopressin receptor 1A / A receptor mediating cell contraction and proliferation, platelet aggregation, release of coagulation factor and glycogenolysis.
DAY 3
GENE SYMBOL / FC / P(Corr) / DESCRIPTION / KNOWN OR SUSPECTED FUNCTION(S)
Spink2 / 12.887 / 8.23E-04 / Serine peptidase inhibitor, Kazal type 2 / Modulates apoptotic susceptibility.
Ifng / 10.57 / 4.05E-04 / IFN-gamma / Immunity (especially intracellular pathogens).
Sv2c / 6.545 / 1.61E-03 / Synaptic vesicle glycoprotein 2c / Positively regulates vesicle fusion by maintaining the readily releasable pool of secretory vesicles (by similarity).
Cxcl9 / 5.67 / 1.99E-04 / Chemokine (C-X-C motif) ligand 9 / T cell chemoattractant induced by IFN-γ.
Clec4d / 5.598 / 3.51E-05 / C-type lectin domain family 4, member d (CLECSF8) / Anti-mycobacterial immunity.
Slc44a5 / 5.41 / 2.37E-03 / Solute carrier family 44, member 5 / Caspase-independent cell death.
Cxcl10 / 5.292 / 4.92E-04 / Chemokine (C-X-C motif) ligand 10 / Innate immunity, chemoattractant induced by IFN-γ.
Tnp2 / 5.291 / 1.32E-03 / Nuclear transition protein 2 / Cell cycle.
Adamts4 / 5.248 / 1.76E-04 / A disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 4 / Choline transporter-like protein.
Mtfr2 / 5.071 / 1.28E-05 / Mitochondrial fission regulator 2 / Mitochondrial respiration, fission (by similarity).
Rps27a / 4.881 / 2.21E-03 / Ribosomal protein S27A / Fusion protein consisting of ubiquitin at the N terminus and ribosomal protein S27a at the C terminus.
Il2ra / 4.793 / 8.24E-04 / IL-2 receptor, alpha chain / T cell differentiation.
Ccl2 / 4.62 / 3.73E-05 / Chemokine (C-C motif) ligand 2 / Recruits monocytes, memory T cells, and DCs.
Zbp1 / 4.534 / 1.70E-03 / Z-DNA-binding protein 1 / Plays a role in the innate immune response by binding to foreign DNA and inducing type-I IFN production.
Bcat1 / 4.478 / 1.01E-03 / Branched chain aminotransferase 1, cytosolic / Metabolism, cell proliferation.
Gbp2 / 4.441 / 9.82E-05 / Guanylate binding protein 2 / IFN-inducible, immunity, intracellular resistance, associates with autophagy protein LC3.
Cth / 4.401 / 9.17E-04 / Cystathionase (cystathionine gamma-lyase) / Metabolism, produces cysteine.
Bex1 / 4.365 / 8.24E-04 / Brain-expressed gene 1 / Cell cycle.
Dtl / 4.303 / 6.18E-04 / Denticleless E3 ubiquitin protein ligase homolog (Drosophila) / Cell cycle and DNA damage response.
Il12rb1 / 4.23 / 6.55E-05 / IL-12 receptor, beta 1 / Differentiation to Th1, IFN-γ production, enhances activity of NK cells and CD8+ T cells.
Plac8 / 4.221 / 2.65E-05 / Placenta-specific 8 / Innate immunity, chromatin binding.
Gm4841 / 4.193 / 2.13E-04 / IFN-inducible GTPase-like (predicted) / Unknown.
Batf2 / 4.185 / 2.55E-07 / Basic leucine zipper transcription factor, ATF-like 2 / AP-1 family transcription factor, differentiation of CD8+ DCs.
Igtp / 4.136 / 8.45E-04 / IFN-g-induced GTPase / Immune defence.
Slc16a3 / 4.107 / 3.65E-06 / Solute carrier family 16 (monocarboxylic acid transporters), member 3 / Metabolism, negative regulation of cytokines that signal through JAK/STAT3, modulator of IFN-g action.
Cenpe / 4.057 / 5.86E-04 / Centromere protein E / Cell cycle, mitosis, MHCI antigen processing and presentation.
Ocstamp / 3.934 / 1.61E-04 / Osteoclast stimulatory transmembrane protein / Probable cell surface receptor that plays a role in cellular fusion and cell differentiation.
Csf2 / 3.929 / 9.79E-04 / Colony stimulating factor 2 (granulocyte-macrophage) (GM-CSF) / Differentiation of macrophages and granulocytes.
Ect2 / 3.918 / 1.02E-05 / Ect2 oncogene / Cell cycle, mitosis.
Timp1 / 3.863 / 4.57E-04 / Tissue inhibitor of metalloproteinase 1 / Inhibitor of matrix metalloproteases.
Iigp1 / 3.842 / 2.34E-04 / IFN-inducible GTPase 1 / Immunity to intracellular parasites, recruited to the vacuole membrane, destroys the membrane, exposing the parasite.
Sgol2 / 3.84 / 2.19E-04 / Shugoshin-like 2 / Cell cycle, mitosis.
Htr7 / 3.827 / 2.11E-05 / 5-hydroxytryptamine receptor 7 / Serotonin receptor, regulation of circadian rhythms, smooth muscle relaxation, learning and memory.
Hist1h3g / 3.797 / 3.27E-04 / Histone cluster 1, H3g / DNA replication, transcription.
Tgtp2 / 3.781 / 1.02E-03 / T cell-specific GTPase 2, IFN-γ-inducible GTPase Ifggb5 protein / Unknown.
Ccr4 / 3.735 / 4.47E-04 / Chemokine (C-C motif) receptor 4 / Receptor for chemokines MIP-1, RANTES, TARC and MCP-1. Cell recruitment.
Ncapg / 3.723 / 1.26E-03 / Non-SMC condensin I complex, subunit G / Cell cycle, mitosis.
Cenph / 3.684 / 2.88E-05 / Centromere protein H / Cell cycle, mitosis.
Soat2 / 3.661 / 4.84E-06 / Sterol O-acyltransferase 2 / Lipoprotein assembly and dietary cholesterol absorption.
Socs1 / 3.605 / 1.09E-03 / Suppressor of cytokine signaling 1 / Maintains T regulatory cell activity, suppresses IFN-γ and IL-17.
Cenpw / 3.595 / 1.73E-04 / Centromere protein W / Mitosis.
Dbx2 / 3.547 / 3.15E-04 / Developing brain homeobox 2 / Transcription factor / regulation of transcription.
Trem2 / 3.482 / 1.33E-05 / Triggering receptor expressed on myeloid cells 2 / Functions in immune response and may be involved in chronic inflammation by triggering the production of constitutive inflammatory cytokines.
Cks1brt / 3.474 / 1.01E-04 / CDC28 protein kinase 1b, retrogene / Cell division, cell cycle.
Npm1 / 3.459 / 3.97E-04 / Nucleophosmin 1 / Cell cycle, mitosis.
Cenpk / 3.457 / 1.19E-04 / Centromere protein K / Mitosis.
Fignl1 / 3.43 / 3.54E-04 / Fidgetin-like 1 / Involved in DNA double-strand break repair via homologous recombination.
Zbtb32 / 3.423 / 2.29E-04 / Zinc finger and BTB domain-containing 32 / NK cell proliferation, GATA3 inhibition, T helper cell proliferation.
Dnph1 / 3.414 / 2.15E-03 / 2'-deoxynucleoside 5'-phosphate N-hydrolase 1 / Stimulated by c-Myc, a transcription factor involved in cell proliferation, differentiation and apoptosis.
Spc25 / 3.404 / 5.21E-04 / SPC25, NDC80 kinetochore complex component, homolog (S. cerevisiae) / May be involved in kinetochore-microtubule interaction and spindle checkpoint activity.
Ly6a / 3.389 / 2.15E-03 / Lymphocyte antigen 6 complex, locus A / T cell activation, T cell proliferation.
Tacc3 / 3.381 / 2.40E-04 / Transforming, acidic coiled-coil containing protein 3 / Mitosis.
Gbp5 / 3.348 / 3.17E-05 / Guanylate binding protein 5 / IFN-inducible, immunity, intracellular resistance.
Uhrf1 / 3.345 / 1.55E-04 / Ubiquitin-like, containing PHD and RING finger domains, 1. E3 ubiquitin-protein ligase / Protein ubiquitination, acts as a key epigenetic regulator by bridging DNA methylation and chromatin modification.
Irgm2 / 3.335 / 5.82E-04 / Immunity-related GTPase family M member 2 / Immunity, regulation of autophagy, important role in resistance to intracellular pathogens.
Batf / 3.333 / 5.55E-07 / Basic leucine zipper transcription factor, ATF-like / Transcription factor, mediates the differentiation of Th17, T follicular helper cell, CD8+ DCs and class-switch recombination in B cells.
Ly6f / 3.306 / 3.74E-04 / Lymphocyte antigen 6 complex, locus F / Overexpression increases apoptotic susceptibility.
Serpina3f / 3.283 / 2.09E-03 / Serine (or cysteine) peptidase inhibitor, clade A, member 3F / Unknown.
Lamc2 / 3.28 / 1.64E-04 / Laminin, gamma 2 / Laminins are involved in cell adhesion, differentiation, migration, signaling, and metastasis.
Gmnn / 3.275 / 4.87E-04 / Geminin / Cell cycle regulation inhibits DNA replication.
Olfr118 / 3.272 / 9.03E-05 / Olfactory receptor 118 / Detection of chemical stimulus involved in sensory perception of smell, G-protein coupled receptor signaling pathway.
Lmnb1 / 3.27 / 8.13E-05 / Lamin B1 / Lamin proteins are thought to be involved in nuclear stability, chromatin structure and gene expression.
Slc13a3 / 3.242 / 6.88E-05 / Solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 3 / Solute carrier family 13, member 3.
Tcam1 / 3.239 / 1.73E-03 / Testicular cell adhesion molecule 1 / Intercellular adhesion molecule.
Hist1h2ao / 3.24 / 1.83E-03 / Histone cluster 1, H2ao / Negative regulator of cell proliferation.
Ttll9 / 3.233 / 1.06E-03 / Tubulin tyrosine ligase-like family, member 9 / Probable tubulin polyglutamylase that forms polyglutamate side chains on tubulin.
Cenpi / 3.195 / 7.94E-03 / Centromere protein I / Cell cycle.
Dut / 3.135 / 1.62E-04 / Deoxyuridine triphosphatase / Nucleotide metabolism.
Hsp90aa1 / 3.112 / 4.33E-05 / Heat shock protein 90, alpha (cytosolic), class A member 1 / Cell cycle, cell proliferation, Binds LPS and mediates inflammatory response, including TNF secretion by monocytes.
Dnase2b / 3.107 / 1.21E-03 / Deoxyribonuclease II beta / Hydrolyzes DNA under acidic conditions.
Cdca7 / 3.096 / 6.83E-04 / Cell division cycle-associated 7 / Cell cycle, mitosis, a c-Myc responsive gene.
Hist1h2an / 3.09 / 4.33E-05 / Histone cluster 1, H2an / Mitosis.
Cdca2 / 3.069 / 1.21E-03 / Cell division cycle-associated 2 / Cell division.
Stmn1 / 3.057 / 6.71E-05 / Stathmin 1 / Caspase independent apoptosis. Proposed to function as an intracellular relay integrating regulatory signals of the cellular environment.
Cks1b / 3.049 / 1.27E-04 / CDC28 protein kinase 1b / Cell cycle.
Kpna2 / 3.021 / 6.71E-05 / Karyopherin (importin) alpha 2 / Nuclear protein import, adapter protein for nuclear receptor KPNB1. IFN signalling and GPCR pathways.
Ticrr / 3.02 / 1.27E-04 / TOPBP1-interacting checkpoint and replication regulator / Initiation of DNA replication.
Serpina3g / 3.012 / 9.10E-04 / Serine (or cysteine) peptidase inhibitor, clade A, member 3G / Promotes the survival of cytotoxic T lymphocytes, allowing them to differentiate into memory CD8+ T cells.
Mybl2 / 3 / 1.17E-04 / Myeloblastosis oncogene-like 2 / Transcription factor involved in the regulation of cell survival, proliferation, and differentiation.
Eme1 / 2.99 / 1.61E-05 / Essential meiotic endonuclease 1 homolog 1 (S. pombe) / DNA repair, mitosis.
Tmem97 / 2.987 / 1.56E-05 / Transmembrane protein 97 / Control of cellular cholesterol levels.
Timm8a1 / 2.985 / 8.04E-04 / Translocase of inner mitochondrial membrane 8A1 / Import and insertion of some multi-pass transmembrane proteins into the mitochondrial inner membrane.
Knstrn / 2.965 / 2.22E-04 / Kinetochore-localized astrin/SPAG5 binding / Mitosis.
Cd300lf / 2.946 / 1.23E-05 / CD300 antigen-like family member F / Regulation of immune response, expressed on myeloid cells.
Ly6i / 2.919 / 9.67E-05 / Lymphocyte antigen 6 complex, locus I / Induced during early immune response to infection.
Vcan / 2.913 / 1.46E-03 / Versican / Cell adhesion, proliferation, proliferation, migration and angiogenesis, tissue morphogenesis and maintenance.
Ly6c1 / 2.892 / 2.15E-03 / Lymphocyte antigen 6 complex, locus C1 / Homing of activated cells.
Bard1 / 2.889 / 3.16E-04 / BRCA1 associated RING domain 1 / Cell cycle, DNA damage.
Gvin1 / 2.881 / 9.07E-04 / GTPase, very large IFN-inducible 1 / Unknown.
Rad54l / 2.881 / 2.15E-04 / RAD54 like (S. cerevisiae) / DNA repair and recombination.
Zwilch / 2.847 / 1.47E-03 / Zwilch kinetochore protein / Cell cycle, mitosis.
Hmgb2 / 2.842 / 2.52E-04 / High mobility group box 2 / DNA binding proteins that associates with chromatin and has the ability to bend DNA.
Gins1 / 2.832 / 3.65E-04 / GINS complex subunit 1 (Psf1 homolog) / DNA replication.
Tubb6 / 2.813 / 2.54E-04 / Tubulin, beta 6 class V / Component of microtubules, mitosis, movement of vesicles and cell organelles.
Cenpm / 2.807 / 1.81E-03 / Centromere protein M / Cell cycle, mitosis.
Mnda / 2.807 / 4.16E-04 / Myeloid cell nuclear differentiation antigen / May act as a transcriptional activator/repressor in the myeloid lineage. Plays a role in the granulocyte/monocyte cell-specific response to IFN.
Tvp23a / 2.806 / 7.02E-05 / Trans-golgi network vesicle protein 23A / Unknown.
Poc1a / 2.806 / 1.08E-03 / POC1 centriolar protein homolog A (Chlamydomonas) / Cell cycle, mitosis.
Car12 / 2.804 / 1.34E-03 / Carbonic anyhydrase 12 / Metabolism. Hypoxia induced, neutralizes acidity.
Uck2 / 2.796 / 1.34E-03 / Uridine-cytidine kinase 2 / Metabolism, DNA and RNA synthesis.
Ndufab1 / 2.794 / 4.69E-05 / NADH dehydrogenase (ubiquinone) 1, alpha/beta subcomplex, 1 / Carrier of the growing fatty acid chain in fatty acid biosynthesis in mitochondria. Subunit of mitochondrial NADH dehydrogenase (Complex I).
Fabp5 / 2.791 / 1.99E-03 / Fatty acid-binding protein 5, epidermal / May play roles in fatty acid uptake, transport, and metabolism.
Hspd1 / 2.79 / 2.00E-04 / Heat shock protein 1 (chaperonin) / May function as a signaling molecule in the innate immune system.
Mcm3 / 2.785 / 2.86E-04 / Minichromosome maintenance-deficient 3 (S. cerevisiae) / DNA replication.
Adamts1 / 2.758 / 7.93E-05 / A disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 1 / Associated with various inflammatory processes.