# Chromatin accessibility regulates age-dependent nuclear mechanotransduction

**Authors:** Yawen Liao, Luezhen Yuan, Trinadha Rao Sornapudi, Max Land, Rajshikhar Gupta, G. V. Shivashankar

PMC · DOI: 10.1073/pnas.2522217123 · Proceedings of the National Academy of Sciences of the United States of America · 2026-03-26

## TL;DR

Aging changes how cells respond to mechanical and biochemical signals by altering chromatin structure, with AP-1 playing a key role in this process.

## Contribution

The study reveals that chromatin accessibility regulates mechanochemical signaling during aging, with AP-1 as a master regulator.

## Key findings

- Aged fibroblasts lose synergistic responses to mechanical and TGF-β stimulation due to chromatin accessibility changes.
- AP-1 and related transcription factors are pivotal in remodeling chromatin and orchestrating mechanochemical responses during aging.
- Disrupting AP-1 activity inhibits fibroblast activation by preventing JUNB recruitment to the transcription machinery.

## Abstract

Although cells continuously integrate diverse environmental cues, the mechanisms by which aging reprograms mechanical and biochemical signaling remain poorly understood. We demonstrate that aged fibroblasts lose the capacity to mount synergistic responses to simultaneous mechanical and TGF-β stimulation, driven by age-dependent alterations in chromatin accessibility. These findings establish a paradigm in which 3D genome architecture functions as a critical regulator of mechanochemical information, and its age-related dysregulation reprograms cellular responsiveness. We further identify the AP-1 network as a master regulator of this process.

The integration of environmental cues into cellular programs is crucial for cell function. Yet, how this integration is modulated due to cellular aging remains unclear. We propose that the 3D chromatin organization filters these signals and investigated how age-related chromatin changes in human dermal fibroblasts affect responses to mechanical tension and TGF-β. Young fibroblasts exhibited synergistic gene expression enhancement in response to combined stimuli, a response that was markedly blunted or divergent in aged cells. These distinct outcomes correlated with significant age-related differences in chromatin accessibility. We identified the AP-1 complex and other transcription factors with age-specific activity as pivotal in remodeling chromatin and orchestrating these divergent mechanochemical responses during cellular aging. We validated that disrupting AP-1 activity inhibits fibroblast activation by preventing JUNB recruitment to the transcription machinery. Our findings establish chromatin as a key integrator of mechanochemical signals and characterize the age-related alterations to this integration that modify the cellular responsiveness of aged cells, highlighting AP-1 and its network as potential therapeutic targets against age-related decline.

## Linked entities

- **Genes:** JUNB (JunB proto-oncogene, AP-1 transcription factor subunit) [NCBI Gene 3726]
- **Proteins:** TGFB1 (transforming growth factor beta 1), FOS (Fos proto-oncogene, AP-1 transcription factor subunit), JUNB (JunB proto-oncogene, AP-1 transcription factor subunit)

## Full-text entities

- **Genes:** TP53 (tumor protein p53) [NCBI Gene 7157] {aka BCC7, BMFS5, LFS1, P53, TRP53}, CCN2 (cellular communication network factor 2) [NCBI Gene 1490] {aka CTGF, HCS24, IBP-8, IGFBP8, KMD, NOV2}, SKI (SKI proto-oncogene) [NCBI Gene 6497] {aka SGS, SKV}, MTG1 (mitochondrial ribosome associated GTPase 1) [NCBI Gene 92170] {aka GTP, GTPBP7}, JUNB (JunB proto-oncogene, AP-1 transcription factor subunit) [NCBI Gene 3726] {aka AP-1}, MMP14 (matrix metallopeptidase 14) [NCBI Gene 4323] {aka MMP-14, MMP-X1, MT-MMP, MT-MMP 1, MT1-MMP, MT1MMP}, RHO (rhodopsin) [NCBI Gene 6010] {aka CSNBAD1, OPN2, RP4}, LIMS1 (LIM zinc finger domain containing 1) [NCBI Gene 3987] {aka PINCH, PINCH-1, PINCH1}, LTBP3 (latent transforming growth factor beta binding protein 3) [NCBI Gene 4054] {aka DASS, GPHYSD3, LTBP-3, LTBP2, STHAG6, pp6425}, CELF2 (CUGBP Elav-like family member 2) [NCBI Gene 10659] {aka BRUNOL3, CELF-2, CUG-BP2, CUGBP2, DEE97, ETR-3}, JUN (Jun proto-oncogene, AP-1 transcription factor subunit) [NCBI Gene 3725] {aka AP-1, AP1, c-Jun, cJUN, p39}, BARD1 (BRCA1 associated RING domain 1) [NCBI Gene 580], MAPK14 (mitogen-activated protein kinase 14) [NCBI Gene 1432] {aka CSBP, CSBP1, CSBP2, CSPB1, EXIP, Mxi2}, MAPK1 (mitogen-activated protein kinase 1) [NCBI Gene 5594] {aka ERK, ERK-2, ERK2, ERT1, MAPK2, NS13}, TGFB1 (transforming growth factor beta 1) [NCBI Gene 7040] {aka CAEND1, CED, DPD1, IBDIMDE, LAP, TGF-beta1}, EGFR (epidermal growth factor receptor) [NCBI Gene 1956] {aka ERBB, ERBB1, ERRP, HER1, NISBD2, NNCIS}, SOX9 (SRY-box transcription factor 9) [NCBI Gene 6662] {aka CMD1, CMPD1, ENH13, SRA1, SRXX2, SRXY10}, COL9A2 (collagen type IX alpha 2 chain) [NCBI Gene 1298] {aka DJ39G22.4, EDM2, MED, STL5}, JUND (JunD proto-oncogene, AP-1 transcription factor subunit) [NCBI Gene 3727] {aka AP-1}, BACH1 (BTB domain and CNC homolog 1) [NCBI Gene 571] {aka BACH-1, BTBD24}, BMP1 (bone morphogenetic protein 1) [NCBI Gene 649] {aka OI13, PCOLC, PCP, TLD}, NPAS2 (neuronal PAS domain protein 2) [NCBI Gene 4862] {aka MOP4, PASD4, bHLHe9}, PARP3 (poly(ADP-ribose) polymerase family member 3) [NCBI Gene 10039] {aka ADPRT3, ADPRTL2, ADPRTL3, ARTD3, IRT1, PADPRT-3}, PITX1 (paired like homeodomain 1) [NCBI Gene 5307] {aka BFT, CCF, POTX, PTX1}, HOXB13 (homeobox B13) [NCBI Gene 10481] {aka HPC9, PSGD}, ELN (elastin) [NCBI Gene 2006] {aka ADCL1, SVAS, WBS, WS}, ACTA1 (actin alpha 1, skeletal muscle) [NCBI Gene 58] {aka ACTA, ASMA, CFTD, CFTD1, CFTDM, CMYO2A}, FOXA3 (forkhead box A3) [NCBI Gene 3171] {aka FKHH3, HNF3G, TCF3G}, ADAMTS2 (ADAM metallopeptidase with thrombospondin type 1 motif 2) [NCBI Gene 9509] {aka ADAM-TS2, ADAMTS-2, ADAMTS-3, EDSDERMS, NPI, PC I-NP}, TCF4 (transcription factor 4) [NCBI Gene 6925] {aka CDG2T, E2-2, FCD2, FECD3, ITF-2, ITF2}, COL16A1 (collagen type XVI alpha 1 chain) [NCBI Gene 1307] {aka 447AA, FP1572}, ZBTB9 (zinc finger and BTB domain containing 9) [NCBI Gene 221504] {aka ZNF919}, MMP2 (matrix metallopeptidase 2) [NCBI Gene 4313] {aka CLG4, CLG4A, MMP-2, MMP-II, MONA, TBE-1}, ADAM11 (ADAM metallopeptidase domain 11) [NCBI Gene 4185] {aka MDC}, LIMK2 (LIM domain kinase 2) [NCBI Gene 3985], SDC4 (syndecan 4) [NCBI Gene 6385] {aka SYND4}, FOSL2 (FOS like 2, AP-1 transcription factor subunit) [NCBI Gene 2355] {aka ACED, FRA2}, FOXO3 (forkhead box O3) [NCBI Gene 2309] {aka AF6q21, FKHRL1, FKHRL1P2, FOXO2, FOXO3A}, IL7 (interleukin 7) [NCBI Gene 3574] {aka IL-7, IMD130}, PRDM16 (PR/SET domain 16) [NCBI Gene 63976] {aka CMD1LL, KMT8F, LVNC8, MEL1, PFM13}, COL7A1 (collagen type VII alpha 1 chain) [NCBI Gene 1294] {aka EBD1, EBDCT, EBR1, NDNC8}, ADAM19 (ADAM metallopeptidase domain 19) [NCBI Gene 8728] {aka FKSG34, MADDAM, MLTNB}, SMAD4 (SMAD family member 4) [NCBI Gene 4089] {aka DPC4, JIP, MADH4, MYHRS}, KRT16 (keratin 16) [NCBI Gene 3868] {aka CK16, FNEPPK, K16, K1CP, KRT16A, NEPPK}, MAFK (MAF bZIP transcription factor K) [NCBI Gene 7975] {aka NFE2U, P18}, Col4a2 (collagen, type IV, alpha 2) [NCBI Gene 12827] {aka Col4a-2}, PITX2 (paired like homeodomain 2) [NCBI Gene 5308] {aka ARP1, ASGD4, Brx1, IDG2, IGDS, IGDS2}, Fn1 (fibronectin 1) [NCBI Gene 14268] {aka E330027I09, Fn, Fn-1}, SMYD3 (SET and MYND domain containing 3) [NCBI Gene 64754] {aka KMT3E, ZMYND1, ZNFN3A1, bA74P14.1}, Col1a2 (collagen, type I, alpha 2) [NCBI Gene 12843] {aka Col1a-2, Cola-2, Cola2, oim}, IL1RAP (interleukin 1 receptor accessory protein) [NCBI Gene 3556] {aka C3orf13, IL-1RAcP, IL1R3}, FOXJ2 (forkhead box J2) [NCBI Gene 55810] {aka FHX}, HELLS (helicase, lymphoid specific) [NCBI Gene 3070] {aka ICF4, LSH, Nbla10143, PASG, SALNR, SMARCA6}, PIK3CB (phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta) [NCBI Gene 5291] {aka P110BETA, PI3K, PI3KBETA, PIK3C1}, BACH2 (BACH transcriptional regulator 2) [NCBI Gene 60468] {aka BTBD25, IMD60}, ADAMTS1 (ADAM metallopeptidase with thrombospondin type 1 motif 1) [NCBI Gene 9510] {aka C3-C5, METH1}, ADAMTS4 (ADAM metallopeptidase with thrombospondin type 1 motif 4) [NCBI Gene 9507] {aka ADAMTS-2, ADAMTS-4, ADMP-1}, COL5A1 (collagen type V alpha 1 chain) [NCBI Gene 1289] {aka EDSC, EDSCL1, FMDMF}, ASPN (asporin) [NCBI Gene 54829] {aka OS3, PLAP-1, PLAP1, SLRR1C}, SMAD2 (SMAD family member 2) [NCBI Gene 4087] {aka CHTD8, JV18, JV18-1, LDS6, MADH2, MADR2}
- **Diseases:** tumor metastasis (MESH:D009362), inflammation (MESH:D007249), tumor (MESH:D009369)
- **Chemicals:** GlutaMAX (MESH:C054122), SB203580 (MESH:C093642), PD98059 (MESH:C093973), calcium (MESH:D002118), streptomycin (MESH:D013307), Ser (MESH:D012694), ORC (-), PNAS (MESH:D020135), SP600125 (MESH:C432165), T5224 (MESH:C568912), LY294002 (MESH:C085911), penicillin (MESH:D010406), DMSO (MESH:D004121), amino acids (MESH:D000596)
- **Species:** Homo sapiens (human, species) [taxon 9606]
- **Cell lines:** ORT — Homo sapiens (Human), Peritoneal malignant mesothelioma, Cancer cell line (CVCL_N815), fibroblasts — Mus musculus (Mouse), Spontaneously immortalized cell line (CVCL_0594)

## Full text

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## Figures

6 figures with captions in the complete paper: https://tomesphere.com/paper/PMC13037945/full.md

## References

58 references — full list in the complete paper: https://tomesphere.com/paper/PMC13037945/full.md

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Source: https://tomesphere.com/paper/PMC13037945