Table 1 Selected differentially expressed host cell genes in L. m.-infected BMDM
Selected differentially expressed host cell genes in L. m .-infected BMDM 1Â h p.i. | |||
| Â | Gene name (probe set ID) | Symbol | logFC |
Additional autophagy-related genes | |||
| Â | BCL2/adenovirus E1B interacting protein 3 (1422470_at) | Bnip3 | 0.417 |
Selected differentially expressed host cell genes in L. m .-infected BMDM 24Â h p.i. | |||
| Â | Gene name (probe set ID) | Symbol | logFC |
LISA | |||
| Â | ATP-binding cassette, sub-family E (OABP), member 1 (1416014_at) | Abce1 | 0.392 |
| Â | Acyl-CoA synthetase long-chain family member 4 (1418911_s_at) | Acsl4 | 0.347 |
| Â | AHA1, activator of heat shock protein ATPase homolog 1 (yeast) (1424147_at) | Ahsa1 | 0.422 |
| Â | Aldolase A, fructose-bisphosphate (1433604_x_at) | Aldoa | 0.496 |
|  | Adaptor protein complex AP-2, alpha 2 subunit (1432007_s_at) | Ap2a2 | −0.536 |
| Â | DEAD (Asp-Glu-Ala-Asp) box polypeptide 60 (1447789_x_at) | Ddx6 | 0.598 |
| Â | Eukaryotic translation initiation factor 2-alpha kinase 2 (1440866_at) | Eif2ak2 | 0.533 |
| Â | Enolase 2, gamma neuronal (1418829_a_at) | Eno2 | 0.673 |
|  | FUN14 domain containing 1 (1453369_a_at) | Fundc1 | −0.357 |
| Â | Fusion, derived from t(12;16) malignant liposarcoma (human) (1451285_at) | Fus | 0.397 |
| Â | Glyceraldehyde-3-phosphate dehydrogenase (1447999_x_at) | Gapdh | 0.506 |
| Â | Helicase, lymphoid specific (1417541_at) | Hells | 0.505 |
| Â | Heat shock protein 90, alpha (cytosolic), class A member 1 (1426645_at) | Hsp90aa1 | 0.543 |
|  | Potassium channel tetramerisation domain containing 12 (1434881_s_at) | Kctd12 | −0.419 |
| Â | Lactate dehydrogenase A (1419737_a_at) | Ldha | 0.558 |
|  | Microtubule-associated protein 1 light chain 3 beta (1415929_at) | Map1lc3b | −0.445 |
| Â | Minichromosome maintenance deficient 3 (S. cerevisiae) (1420028_s_at) | Mcm3 | 0.365 |
| Â | Macrophage migration inhibitory factor (1416335_at) | Mif | 0.731 |
|  | Asparaginyl-tRNA synthetase (1428666_at) | Nars | −0.384 |
| Â | N-myc downstream regulated gene 1 (1420760_s_at) | Ndrg1 | 0.545 |
|  | Nuclear factor of activated T cells 5 (1438999_a_at) | Nfat5 | −0.401 |
| Â | Phosphoglycerate kinase 1 (1417864_at) | Pgk1 | 0.730 |
| Â | Pyruvate kinase, muscle (1417308_at) | Pkm2 | 0.471 |
|  | Protein kinase, AMP-activated, gamma 2 non-catalytic subunit (1423831_at) | Prkag2 | −0.498 |
|  | Sorbitol dehydrogenase (1438183_x_at) | Sord | −0.385 |
| Â | Tripartite motif-containing 21 (1418077_at) | Trim21 | 0.400 |
| Â | Thioredoxin reductase 1 (1421529_a_at) | Txnrd1 | 0.448 |
|  | Zinc finger, CCHC domain containing 11 (1437395_at) | Zcchc11 | −0.477 |
Additional autophagy-related genes | |||
| Â | BCL2/adenovirus E1B interacting protein 3 (1422470_at) | Bnip3 | 0.765 |
|  | Cathepsin E (1418989_at) | Ctse | −0.852 |
| Â | DNA-damage regulated autophagy modulator 1 (1424524_at) | Dram1 | 0.445 |
| Â | Optineurin (1435679_at) | Optn | 0.355 |
|  | Syntaxin 5A (1449679_s_at) | Stx5a | −0.429 |
|  | Vacuolar protein sorting 41 (yeast) (1437901_a_at) | Vps41 | −0.423 |
Glycolysis (GO accession: GO:0006096) | |||
| Â | Fructose-bisphosphate aldolase A (1433604_x_at) | Aldoa | 0.496 |
| Â | Fructose-bisphosphate aldolase C (1451461_a_at) | Aldoc | 0.636 |
| Â | Enolase 2 (1418829_a_at) | Eno2 | 0.673 |
| Â | Glyceraldehyde-3-phosphate dehydrogenase (1447999_x_at) | Gapdh | 0.506 |
| Â | Lactate dehydrogenase A (1419737_a_at) | Ldha | 0.558 |
| Â | Phosphoglycerate kinase 1 (1417864_at) | Pgk1 | 0.730 |
| Â | Phosphoglycerate mutase 1 (1426554_a_at) | Pgam1 | 0.546 |
| Â | Pyruvate kinase, muscle (1417308_at) | Pkm2 | 0.471 |
|  | Protein kinase, AMP-activated, gamma 2 non-catalytic subunit (1423831_at) | Prkag2 | −0.498 |
| Â | Triosephosphate isomerase 1 (1415918_a_at) | Tpi1 | 0.670 |
Immune response (GO accession: GO:0006955) | |||
| Â | BCL2/adenovirus E1B interacting protein 3 (1422470_at) | Bnip3 | 0.765 |
| Â | Complement component 3 (1423954_at) | C3 | 1.294 |
|  | Cell adhesion molecule 1 (1431611_a_at) | Cadm1 | −0.424 |
| Â | Chemokine (C-C motif) ligand 12 (1419282_at) | Ccl12 | 0.515 |
| Â | Chemokine (C-C motif) ligand 2 (1420380_at) | Ccl2 | 0.738 |
|  | Chemokine (C-C motif) ligand 24 (1450488_at) | Ccl24 | −0.485 |
| Â | Chemokine (C-C motif) ligand 3 (1419561_at) | Ccl3 | 0.643 |
| Â | Chemokine (C-C motif) ligand 4 (1421578_at) | Ccl4 | 0.710 |
| Â | Chemokine (C-C motif) ligand 5 (1418126_at) | Ccl5 | 2.250 |
| Â | Chemokine (C-C motif) ligand 7 (1421228_at) | Ccl7 | 0.523 |
| Â | CD180 antigen (1421547_at) | Cd180 | 0.382 |
|  | CD28 antigen (1437025_at) | Cd28 | −0.482 |
|  | CD300A antigen (1445292_at) | Cd300a | −0.441 |
|  | Complement component factor h (1423153_x_at) | Cfh | −0.783 |
| Â | C-type lectin domain family 5, member a (1421366_at) | Clec5a | 0.804 |
|  | Chemokine (C-X3-C) receptor 1 (1450020_at) | Cx3cr1 | −0.379 |
| Â | Chemokine (C-X-C motif) ligand 1 (1419209_at) | Cxcl1 | 0.808 |
| Â | Chemokine (C-X-C motif) ligand 10 (1418930_at) | Cxcl10 | 2.023 |
| Â | Chemokine (C-X-C motif) ligand 11 (1419697_at) | Cxcl11 | 1.205 |
| Â | Chemokine (C-X-C motif) ligand 13 (1448859_at) | Cxcl13 | 0.360 |
| Â | Chemokine (C-X-C motif) ligand 9 (1418652_at) | Cxcl9 | 0.698 |
| Â | DEAD (Asp-Glu-Ala-Asp) box polypeptide 58 (1436562_at) | Ddx58 | 0.520 |
| Â | Guanylate binding protein 1 (1420549_at) | Gbp1 | 1.349 |
| Â | Guanylate binding protein 2 (1435906_x_at) | Gbp2 | 1.602 |
| Â | Guanylate binding protein 3 (1418392_a_at) | Gbp3 | 0.919 |
| Â | Guanylate binding protein 6 (1438676_at) | Gbp6 | 1.507 |
| Â | Guanylate binding protein 7 (1434380_at) | Gbp7 | 0.459 |
| Â | Histocompatibility 28 (1421596_s_at) | H28 | 0.777 |
| Â | Histocompatibility 2, T region locus 24 (1422160_at) | H2-T25 | 0.847 |
| Â | Intercellular adhesion molecule 1 (1424067_at) | Icam1 | 0.490 |
| Â | Interferon induced with helicase C domain 1 (1426276_at) | Ifih1 | 0.664 |
|  | Immunoglobulin heavy constant mu (1427351_s_at) | Ighm | −0.729 |
| Â | Interleukin 1 receptor antagonist (1425663_at) | Il1rn | 0.872 |
| Â | Immunity-related GTPase family M member 1 (1418825_at) | Irgm1 | 0.793 |
|  | Kelch-like 6 (Drosophila) (1437886_at) | Klhl6 | −0.637 |
| Â | Mucosa associated lymphoid tissue lymphoma translocation gene 1 (1456126_at) | Malt1 | 0.578 |
|  | Major facilitator superfamily domain containing 6 (1424463_at) | Mfsd6 | −0.602 |
| Â | Macrophage migration inhibitory factor (1416335_at) | Mif | 0.731 |
|  | Myeloid/lymphoid or mixed-lineage leukemia 5 (1434704_at) | Mll5 | −0.401 |
| Â | Myxovirus (influenza virus) resistance 1 (1451905_a_at) | Mx1 | 1.226 |
| Â | Myxovirus (influenza virus) resistance 2 (1419676_at) | Mx2 | 0.494 |
| Â | NA (1416016_at) | NA | 0.347 |
| Â | NA (1417314_at) | NA | 0.573 |
| Â | NA (1424775_at) | NA | 0.540 |
|  | NA (1439343_at) | NA | −0.416 |
| Â | NA (1447927_at) | NA | 1.137 |
| Â | NA (1449009_at) | NA | 1.397 |
|  | Neutrophil cytosolic factor 1 (1425609_at) | Ncf1 | −0.491 |
|  | 2′-5′ oligoadenylate synthetase 3 (1425374_at) | Oas3 | 0.545 |
|  | 2′-5′ oligoadenylate synthetase-like 2 (1453196_a_at) | Oasl2 | 0.762 |
|  | ORAI calcium release-activated calcium modulator 1 (1424990_at) | Orai1 | −0.362 |
| Â | Proteasome (prosome, macropain) subunit, beta type 8 (large multifunctional peptidase 7) (1422962_a_at) | Psmb8 | 0.424 |
|  | RAB27A, member RAS oncogene family (1429123_at) | Rab27a | −0.393 |
| Â | Radical S-adenosyl methionine domain containing 2 (1421009_at) | Rsad2 | 2.096 |
| Â | Serine (or cysteine) peptidase inhibitor, clade A, member 3G (1424923_at) | Serpina3g | 0.778 |
| Â | Tumor necrosis factor (1419607_at) | Tnf | 0.784 |
| Â | Tumor necrosis factor (ligand) superfamily, member 10 (1459913_at) | Tnfsf10 | 0.495 |
| Â | Tumor necrosis factor (ligand) superfamily, member 9 (1422924_at) | Tnfsf9 | 0.726 |
Chemokine signaling pathway (KEGG entry: mmu04062) | |||
|  | Adrenergic receptor kinase, beta 1 (1451992_at) | Adrbk1 | −0.420 |
|  | Arrestin, beta 2 (1451987_at) | Arrb2 | −0.443 |
| Â | Chemokine (C-C motif) ligand 12 (1419282_at) | Ccl12 | 0.515 |
| Â | Chemokine (C-C motif) ligand 2 (1420380_at) | Ccl2 | 0.738 |
|  | Chemokine (C-C motif) ligand 24 (1450488_at) | Ccl24 | −0.485 |
| Â | Chemokine (C-C motif) ligand 3 (1419561_at) | Ccl3 | 0.643 |
| Â | Chemokine (C-C motif) ligand 4 (1421578_at) | Ccl4 | 0.710 |
| Â | Chemokine (C-C motif) ligand 5 (1418126_at) | Ccl5 | 2.250 |
| Â | Chemokine (C-C motif) ligand 7 (1421228_at) | Ccl7 | 0.523 |
| Â | Chemokine (C-C motif) receptor 1 (1419609_at) | Ccr1 | 0.481 |
|  | C-src tyrosine kinase (1423518_at) | Csk | −0.387 |
|  | Chemokine (C-X3-C) receptor 1 (1450020_at) | Cx3cr1 | −0.379 |
| Â | Chemokine (C-X-C motif) ligand 1 (1419209_at) | Cxcl1 | 0.808 |
| Â | Chemokine (C-X-C motif) ligand 10 (1418930_at) | Cxcl10 | 2.023 |
| Â | Chemokine (C-X-C motif) ligand 11 (1419697_at) | Cxcl11 | 1.205 |
| Â | Chemokine (C-X-C motif) ligand 13 (1448859_at) | Cxcl13 | 0.360 |
| Â | Chemokine (C-X-C motif) ligand 9 (1418652_at) | Cxcl9 | 0.698 |
| Â | Gardner-Rasheed feline sarcoma viral (Fgr) oncogene homolog (1442804_at) | Fgr | 0.472 |
|  | Neutrophil cytosolic factor 1 (1425609_at) | Ncf1 | −0.491 |
| Â | Nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha (1448306_at) | Nfkbia | 0.500 |
|  | Protein kinase, cAMP dependent, catalytic, beta (1420611_at) | Prkacb | −0.434 |
| Â | Signal transducer and activator of transcription 1 (1450034_at) | Stat1 | 0.784 |
| Â | Signal transducer and activator of transcription 2 (1421911_at) | Stat2 | 0.413 |
|  | Signal transducer and activator of transcription 3 (1426587_a_at) | Stat3 | −0.371 |