Table 1.
Differential expression of mice genes.
| Acession number | Protein | Expression status | Log (Fold Change) | Adjusted p-value |
|---|---|---|---|---|
| UPs | ||||
| PRRs and other receptors | ||||
| Clec4n | C-type lectin domain family 6 member A | UP(D) | 2,078333 | 3,78E-05 |
| Clec7a | C-type lectin domain family 7 member A | UP(D) | 2,020814 | 3,01E-05 |
| Tlr2 | toll-like receptor 2 | UP(D) | 1,960263 | 2,92E-05 |
| Tlr13 | toll-like receptor 13 | UP(D) | 1,903147 | 3,03E-05 |
| Clec4d | C-type lectin domain family 4 member D | UP(D) | 1,868473 | 0,000104 |
| Ptx3 | Pentraxin-related protein PTX3 | UP(D) | 1,851374 | 2,55E-05 |
| Clec4e | C-type lectin domain family 4 member E | UP(D) | 1,715215 | 5,88E-05 |
| Cd68 | CD68 antigen | UP(D) | 1,338493 | 0,001332 |
| Cell adhesion, activation and differentiation | ||||
| Gpr15 | G protein-coupled receptor 15 | UP(D) | 2,086638 | 3,19E-05 |
| Trem3 | Triggering receptor expressed on myeloid cells 3 | UP(D) | 1,611529 | 8,33E-06 |
| Trem1 | triggering receptor expressed on myeloid cells 1 | UP(D) | 1,408704 | 0,002771 |
| Cd177 | CD177 antigen | UP(D) | 1,202699 | 0,000194 |
| Pro-inflammatory and complement system | ||||
| Nos2 | nitric-oxide synthase, inducible [EC:1.14.13.39] | UP(D) | 2,033614 | 3,01E-05 |
| C1qa | Complement C1q subcomponent subunit A | UP(D) | 2,025756 | 1,64E-05 |
| Cfb | complement factor B [EC:3.4.21.47] | UP(D) | 1,935486 | 2,77E-05 |
| Cybb | NADPH oxidase 2 [EC:1.-.-.-] | UP(D) | 1,775452 | 6,73E-05 |
| C1qc | complement C1q subcomponent subunit C | UP(D) | 1,729555 | 0,000174 |
| C3ar1 | C3a anaphylatoxin chemotactic receptor | UP(D) | 1,615371 | 8,47E-05 |
| C1qb | complement C1q subcomponent subunit B | UP(D) | 1,346731 | 0,000138 |
| Cd300ld | CMRF35-like molecule 5 | UP(8) | 1,049027 | 7,73E-07 |
| Cytokines and chemokines | ||||
| Cxcl9 | C-X-C motif chemokine 9 | UP(D) | 2,2741 | 1,45E-05 |
| Ccl20 | C-C motif chemokine 20 | UP(D) | 2,103374 | 4,42E-05 |
| Cxcl1 | C-X-C motif chemokine 1/2/3 | UP(D) | 2,073216 | 0,000421 |
| Ccl7 | C-C motif chemokine 7 | UP(D) | 2,057447 | 2,19E-05 |
| Cxcl10 | C-X-C motif chemokine 10 | UP(D) | 2,011544 | 8,14E-05 |
| Cxcl13 | C-X-C motif chemokine 13 | UP(D) | 1,95105 | 1,27E-05 |
| Tnf | tumor necrosis factor superfamily, member 2 | UP(D) | 1,930536 | 1,23E-05 |
| Il1b | interleukin 1 beta | UP(D) | 1,895732 | 7,86E-05 |
| Ccl8 | C-C motif chemokine 8 | UP(D) | 1,886362 | 2,85E-05 |
| Il1a | interleukin 1 alpha | UP(D) | 1,850909 | 7,78E-06 |
| Cxcl2 | C-X-C motif chemokine 1/2/3 | UP(D) | 1,208573 | 0,000461 |
| Ccl6 | C-C motif chemokine 6 | UP(D) | 1,161484 | 1,39E-05 |
| Cxcl5 | C-X-C motif chemokine 5/6 | UP(D) | 1,114359 | 2,2E-05 |
| Ifng | interferon gamma | UP(8) | 1,105272 | 0,001062 |
| Ccl4 | C-C motif chemokine 4 | UP(D) | 1,103517 | 3,92E-05 |
| Ccl9 | C-C motif chemokine 9 | UP(D) | 1,070775 | 0,002911 |
| Antigen processing and presentation | ||||
| H2-M2 | Histocompatibility 2, M region locus 2 | UP(D) | 1,964557 | 3,04E-05 |
| Antibody | ||||
| Ighv1-56 | Immunoglobulin heavy variable 1-56 | UP(D) | 2,417073 | 2,54E-05 |
| Igha | Immunoglobulin heavy constant alpha | UP(D) | 2,233271 | 2,44E-05 |
| Ighv1-22 | Immunoglobulin heavy variable 1-22 | UP(D) | 2,007573 | 1,24E-05 |
| Ighv1-21-1 | Immunoglobulin heavy variable 1-21-1 | UP(D) | 2,002292 | 5,28E-05 |
| Regulation and tissue repair | ||||
| Pdcd1 | programmed cell death protein 1 | UP(D) | 2,073949 | 4,75E-05 |
| Arg1 | Arginase-1 | UP(D) | 2,059942 | 4,73E-05 |
| Mmp12 | matrix metalloproteinase-12 (macrophage elastase) [EC:3.4.24.65] | UP(D) | 1,548912 | 8,8E-05 |
| Mmp13 | Collagenase 3 | UP(D) | 1,522556 | 2,12E-05 |
| Ctla4 | cytotoxic T-lymphocyte-associated protein 4 | UP(D) | 1,368578 | 0,000165 |
| Il1rn | interleukin 1 receptor antagonist | UP(D) | 1,244346 | 0,000409 |
| Gene/protein regulation | ||||
| Serpina3f | Serine protease inhibitor A3F | UP(D) | 2,06118 | 7,26E-05 |
| Cstb | cystatin-A/B | UP(D) | 1,830246 | 1,44E-05 |
| Cstdc4 | Cystatin domain-containing 4 | UP(D) | 1,791522 | 2,81E-05 |
| Serpina3g | Serine protease inhibitor A3G | UP(D) | 1,695611 | 0,001231 |
| Ctss | cathepsin S [EC:3.4.22.27] | UP(D) | 1,520351 | 3,51E-05 |
| Stfa2l1 | stefin A2 like 1 | UP(D) | 1,390768 | 0,000282 |
| Stfa2 | cystatin-A/B | UP(D) | 1,205505 | 4,08E-05 |
| Csta2 | cystatin-A/B | UP(D) | 1,088477 | 0,00027 |
| Serpina3h | Serine protease inhibitor A3H | UP(D) | 1,082125 | 0,000453 |
| Ctsk | cathepsin K [EC:3.4.22.38] | UP(D) | 1,064556 | 3,06E-05 |
| Energy and lipid metabolism | ||||
| Gla | Growth factor independent protein 1 | UP(D) | 1,303367 | 0,001139 |
| Pla1a | phosphatidylserine sn-1 acylhydrolase [EC:3.1.1.111] | UP(D) | 1,285157 | 1,13E-05 |
| Pla2g7 | platelet-activating factor acetylhydrolase [EC:3.1.1.47] | UP(D) | 2,167659 | 0,000343 |
| Cell cycle | ||||
| Bcl2a1d | hematopoietic Bcl-2-related protein A1 | UP(D) | 1,946559 | 1,99E-05 |
| Bcl2a1c | hematopoietic Bcl-2-related protein A1 | UP(D) | 1,878795 | 2,29E-05 |
| Bcl2a1a | hematopoietic Bcl-2-related protein A1 | UP(D) | 1,806497 | 1,6E-05 |
| Bcl2a1b | hematopoietic Bcl-2-related protein A1 | UP(D) | 1,722721 | 0,0003 |
| Iron retention | ||||
| Lcn2 | lipocalin 2 | UP(D) | 1,294766 | 0,000263 |
| DOWNs | ||||
| Muscle contraction and organization | ||||
| Tnnc1 | troponin C, slow skeletal and cardiac muscles | DOWN(D) | -1,77016 | 0,000138 |
| Myh4 | Myosin-4 | DOWN(8) | -1,7189 | 0,002297 |
| Myh13 | myosin heavy chain 1/2/3/4/8/13/7B/15 | DOWN(8) | -1,61232 | 0,00143 |
| Tnnt2 | troponin T, cardiac muscle | DOWN(D) | -1,45826 | 0,011979 |
| Tnni3 | troponin I, cardiac muscle | DOWN(D) | -1,22069 | 0,003786 |
| Myh3 | Myosin-3 | DOWN(8) | -1,18001 | 0,007459 |
| Myh6 | myosin heavy chain 6/7 | DOWN(D) | -1,17542 | 0,000529 |
| Myl1 | Myosin light chain 1/3, skeletal muscle isoform | DOWN(8) | -1,12704 | 0,006081 |
| Nervous system | ||||
| Kcna1 | potassium voltage-gated channel Shaker-related subfamily A member 1 | DOWN(D) | -1,43254 | 0,005246 |
| Slc17a7 | MFS transporter, ACS family, solute carrier family 17 (sodium-dependent inorganic phosphate cotransporter), member 6/7/8 | DOWN(8) | -1,32168 | 0,000511 |
| Kcnh2 | potassium voltage-gated channel Eag-related subfamily H member 2 | DOWN(D) | -1,3173 | 0,013463 |
| Shank3 | SH3 and multiple ankyrin repeat domains protein | DOWN(D) | -1,25195 | 0,005262 |
| Slc7a10 | solute carrier family 7 (D/L-type amino acid transporter), member 10 | DOWN(D) | -1,13547 | 0,00345 |
| Organogenesis | ||||
| Bmp6 | bone morphogenetic protein 6 | DOWN(D) | -1,4241 | 0,008604 |
| Sox11 | transcription factor SOX11/12 (SOX group C) | DOWN(D) | -1,13558 | 0,002878 |
| Lipid metabolism | ||||
| Cyp1a1 | cytochrome P450 family 1 subfamily A1 [EC:1.14.14.1] | DOWN(D) | -1,23017 | 0,001407 |
| Thrsp | thyroid hormone responsive | DOWN(D) | -1,14802 | 0,001858 |
| Plin1 | perilipin-1 | DOWN(D) | -1,13331 | 0,00144 |
| Energy metabolism | ||||
| Cox8b | cytochrome c oxidase subunit 8 | DOWN(D) | -1,3867 | 0,004553 |
| Cox7a1 | cytochrome c oxidase subunit 7a | DOWN(12) | -1,12561 | 0,008107 |
| Pro-inflammatory | ||||
| Cfd | complement factor D [EC:3.4.21.46] | DOWN(D) | -1,04996 | 0,001562 |
| Iron retention | ||||
| Hamp | hepcidin | DOWN(D) | -1,50399 | 0,002563 |
Granulomatous lesions were extracted from two to four mice from three independent infections at eight weeks and twelve weeks after being infected with 1x106 P. brasiliensis yeasts. Then, extraction of total RNA, removal of rRNA, and assembly of cDNA libraries were performed. The samples were sequenced and the fragments aligned with the reference genome for M. musculus using bowtie2. The FeatureCounts software was used to count the amount of each identified gene, which were normalized. Then, a differentially expressed gene was made using the limma and a functional analysis was carried out using GO, KEGG and Panther. The Table shows the differentially expressed genes with the values of Log (Fold change) and adjusted p-value. The expression status column represents the upregulated or downregulated genes for the eight-week infection group (8), the twelve-week infection group (12), and the genes that were differentially expressed in both infection groups were combined and reanalyzed, resulting in an expression status designation for the disease (D).