Table 1.
Differences in podocyte gene expression between young and old mice35
| Biologic Process | Genes Increased | Gene Decreased |
|---|---|---|
| Extracellular matrix proteins | Mmp13, Fn1 | Sema5a, Col4a1, Col4a5, Col4a4, Col18a1, Lamb2, Lamc1, Npnt, Dag1, Myh11 |
| Apoptosis | p53 pathway, TNF pathway, Faslg, Bim, Prf1erforin, Apaf1, Casp, Casp4. | Pou3f3, Fgfr2, Wt1, Erbb3, c-Met, Smad6 |
| Survival factors | Tgfb1, Tgfb3 | Pou3f3, Fgfr2, Wt1, Erbb3, c-Met, Egfr, Smo |
| Pyroptosis | Casp1, Nlrc4, Aim2, Gsdmd. | None |
| Cell cycle regulation | Tgfb1, Myc, Ccnd3, p21, Notch2, Schlafen-1Slfn1 | Fgfr2, Edn3, c-Met, Tbx3, Pkd2, Sox4, Meis2 |
| Hypertrophy | Akap13, Rgs2, P2rx4 | Lmcd1, Igfbp5 |
| Inflammasome and inflammation | Nlrp3LRP3, Casp1, Casp4, Nlrc4, Naip2, Naip5, and Naip6, Tnfa, multiple interferon genes, Il6, Il2, multiple complement component genes, Nfkb1, Nfkb2 | Nlrp6 |
| Senescence and SASPs | Irf5, Cebpb, and Jdp2, Ccl2, Ccl3, Ccl5, Cc8, Mmp12 Mmp13 | Igfbp5, Igfbp7 |
| Podocyte canonical and slit diaphragm genes | Nhsp1, Nhsp2, Lmx1B, Cdkn1c, Wt1, Podxl, Synpo,Vegfa, Cd2ap, Actn4, Ptpro, Trpc6 | |
| Tight junction genes | Vasp, Amica1 | Tjp1, Pard3, Pard6, Nedd4l, Pkci, multiple occludins, multiple claudins (including Cldn4, Cldn8), Cgn, Magi1, Magi2 |
| Transcription factors | Cebpa, Cebpb, Prdm1, Nr4a3, Tbx21, Bach1, Tcf7, Myc, Irf4, Runx3, Stat4, Nfkb2, Fosl2, Bcl6, Nfkb | Hnf1b, Grhl2, Ssim1, Lrx1, Creb3l1, Zbtbl6, Osr2, Foxo4, Pax8 and Tref1, Hsp27, Foxc2, Arf2, Itga3, Yap, Coro2b, Trpc6, Ptk2 |
| Actin and regulators, motility | Was, Wipf1, Flna, Evl, Myo9b, Myo5a | Kank1-Kank4, Dsp, Parva, Syne2, Myh10, Tpm1, Emp2, Myh14, Gja5, Vil1 |
| Crosstalk with other cells | Il1a/bIl1a, Il1b, C1qa, C1qb, Tgfb1, Mmp13, Cxcl16, Ccl4, Ccl5, Tnf, Vim, Ifng, Il18, Vcam1, Sema4d | Receptor ligand pairs: Vegf, Fgf, Wnt, Bmp, Egf, Erbb4, Slit2, Robo2 |
| Mitochondrial OXPHOS | Ncf1, Ncf2, Tlr2, Aif1, Nox2, P2rx7, Tnf, Prkcd Syk, Nrros | Complex I (Ndufa5, Ndufs2, Ndufs4 and Ndufb8), Complex II (Sdha, Sdhd, and Sdhc), Complex III (e.g., Uqcrb, Uqcrh, Uqcr11), Complex IV Cytochrome C oxidase components (e.g., Cox5b, Cox6c, Cox7b) |
| Glycolysis | Hk2, Hk3, Eno3 | Pfkm, Fbp1, Gpd1, Aldob |
| Lipids | Cd36, Apoe, Apobr, Soat1, Ptgs2, Fabp5, Ldlr, Cerk, Dgat1 | Elovl7, Elovl6, Scd2, Acadsb, Asah2, Ppargc1a, Mgll, Hadh, Acadm, Acad11, Acat1, Acsm, Acox1, Eci3, Ehhadh |
| Cell-cell junction | Cdh1, Chd2, Cdh3, Chd4, Rab25 along with Grhl2 | |
| Integrin-collagen interactions | Collagen chains (Col4a3, Col4a4, Col4a5) and Integrins (Itga3, Itgb6 Itbg8) | |
| DNA damage | Samhd1, Bach1, Eepd1, Hmga1, Uhrf1, Dna2, Dclre1c, Taok3, Topbp1, Uvrag, Rad9a | Spire2, Xpc, Tnks1bp1 |
SASP, senescence-associated secreted phenotype; OXPHOS, oxidative phosphorylation.