# The Thymus Regeneration Paradox: The Search for Stemness in an Involuting Organ

**Authors:** Roberta Ragazzini, Paola Bonfanti

PMC · DOI: 10.1111/imr.70110 · 2026-02-15

## TL;DR

This review explores how the thymus, an aging organ, can regenerate and the role of stem cells in its function and potential for medical applications.

## Contribution

The paper highlights the paradox of thymus regeneration and the evolving understanding of thymic stem cells and their regenerative potential.

## Key findings

- The thymus contains cells capable of expanding in culture and reconstituting organ function despite its involution.
- Epithelial progenitor/stem cell potency changes with age or injury, affecting thymus regeneration.
- Key questions remain about thymus regeneration in children and the components needed for T cell production outside the body.

## Abstract

The thymus is emerging as a model for studying organ regeneration and stem cell biology. While research has long focused on how antigen‐presenting cells shape the T cell repertoire, recent discoveries unveil a far richer cellular landscape that challenges long‐held views of thymus structure and function. This review traces the history of early thymic reconstitution assays, the paradigm of clonal stem cells and serial transplantation, assessing evidence for “stemness” within the thymus. A key focus is the paradox that an involuting thymus retains cells able to expand in culture and reconstitute organ function. We differentiate embryonic/fetal thymus development from postnatal homeostasis, emphasizing how the potency of epithelial progenitor/stem cells shifts with age or upon injury. The role of mesenchymal/interstitial cells and the extracellular milieu is considered alongside advances in organ reconstruction. We outline major unsolved questions in the field: thymus regeneration after childhood; the minimal components required to generate functional naïve T cells outside the body; and the potential of next‐generation humanized mouse models to interrogate immune tolerance and novel immunotherapies. We argue that thymus research is entering a new era, one in which understanding and harnessing thymus regenerative potential could yield transformative advances in both basic science and clinical applications.

## Full-text entities

- **Genes:** Timp1 (tissue inhibitor of metalloproteinase 1) [NCBI Gene 21857] {aka Clgi, EPA, TIMP-1, TPA-S1, Timp}, Thy1 (thymus cell antigen 1, theta) [NCBI Gene 21838] {aka CD90, T25, Thy-1, Thy-1.2, Thy1.1, Thy1.2}, Tnfsf11 (tumor necrosis factor (ligand) superfamily, member 11) [NCBI Gene 21943] {aka Ly109l, ODF, OPGL, RANKL, Trance}, H2 (histocompatibility-2, MHC) [NCBI Gene 111364] {aka H-2, MHC-II}, Atf3 (activating transcription factor 3) [NCBI Gene 11910] {aka LRG-21}, Ccl19 (C-C motif chemokine ligand 19) [NCBI Gene 24047] {aka CKb11, ELC, Gm2023, MIP3B, Scya19, exodus-3}, Foxn1 (forkhead box N1) [NCBI Gene 15218] {aka D11Bhm185e, Fkh19, HFH-11, Hfh11, Whn, nu}, Psmb11 (proteasome (prosome, macropain) subunit, beta type, 11) [NCBI Gene 73902] {aka 5830406J20Rik, beta5t}, Ascl1 (achaete-scute family bHLH transcription factor 1) [NCBI Gene 17172] {aka ASH1, Mash1, bHLHa46}, Aire (autoimmune regulator) [NCBI Gene 11634], Ly75 (lymphocyte antigen 75) [NCBI Gene 17076] {aka CD205, DEC-205, DEC205}, CD8A (CD8 subunit alpha) [NCBI Gene 925] {aka CD8, CD8alpha, IMD116, Leu2, p32}, Aurkb (aurora kinase B) [NCBI Gene 20877] {aka AIM-1, AIRK2, Aik2, Aim1, Ark2, AurB}, Upk1b (uroplakin 1B) [NCBI Gene 22268] {aka Tspan20, UPIb, Upk1}, Krt14 (keratin 14) [NCBI Gene 16664] {aka CK-14, K14, Krt-1.14, Krt1-14}, Anln (anillin, actin binding protein) [NCBI Gene 68743] {aka 1110037A17Rik, 2900037I21Rik, Scraps}, Ly6a (lymphocyte antigen 6 family member A) [NCBI Gene 110454] {aka Ly-6A.2, Ly-6A/E, Ly-6E.1, Sca-1, Sca1, TAP}, Krt13 (keratin 13) [NCBI Gene 16663] {aka CK13, K13, Krt-1.13, Krt1-13}, Sox15 (SRY (sex determining region Y)-box 15) [NCBI Gene 20670] {aka Sox16}, Syp (synaptophysin) [NCBI Gene 20977] {aka A230093K24Rik, Syn, p38}, Cldn3 (claudin 3) [NCBI Gene 12739] {aka Cpetr2, mRVP1}, Ifitm3 (interferon induced transmembrane protein 3) [NCBI Gene 66141] {aka 1110004C05Rik, Cd225, Cdw217, DSPA2b, Fgls, IP15}, Fgf7 (fibroblast growth factor 7) [NCBI Gene 14178] {aka Fgf5b, Kgf}, Cd3e (CD3 antigen, epsilon polypeptide) [NCBI Gene 12501] {aka CD3, CD3epsilon, T3e}, Plet1 (placenta expressed transcript 1) [NCBI Gene 76509] {aka 0610037B23Rik, 1600029D21Rik}, Cebpd (CCAAT/enhancer binding protein delta) [NCBI Gene 12609] {aka c/EBPdelta}, Krt8 (keratin 8) [NCBI Gene 16691] {aka Card2, EndoA, K8, Krt-2.8, Krt2-8, TROMA-1}, Clu (clusterin) [NCBI Gene 12759] {aka ApoJ, Cli, D14Ucla3, SP-40, Sgp-2, Sgp2}, Sox2 (SRY (sex determining region Y)-box 2) [NCBI Gene 20674] {aka Sox-2, lcc, ysb}, Krt19 (keratin 19) [NCBI Gene 16669] {aka CK-19, EndoC, K19, Krt-1.19, Krt1-19}, FN1 (fibronectin 1) [NCBI Gene 2335] {aka CIG, ED-B, FINC, FN, FNZ, GFND}, Sfrp1 (secreted frizzled-related protein 1) [NCBI Gene 20377] {aka 2210415K03Rik, sFRP-1}, Krt5 (keratin 5) [NCBI Gene 110308] {aka 3300001P10Rik, CK5, K5, Krt2-5, Tfip8}, Cd274 (CD274 antigen) [NCBI Gene 60533] {aka A530045L16Rik, B7h1, Pdcd1l1, Pdcd1lg1, Pdl1}, Ch25h (cholesterol 25-hydroxylase) [NCBI Gene 12642] {aka m25OH}, Itga6 (integrin alpha 6) [NCBI Gene 16403] {aka 5033401O05Rik, Cd49f, VLA-6}, HLA-A (major histocompatibility complex, class I, A) [NCBI Gene 3105] {aka HLAA}, Myog (myogenin) [NCBI Gene 17928] {aka MYF4, bHLHc3, myo}, Cd4 (CD4 antigen) [NCBI Gene 12504] {aka L3T4, Ly-4}, Tec (tec protein tyrosine kinase) [NCBI Gene 21682], Ccl25 (C-C motif chemokine ligand 25) [NCBI Gene 20300] {aka A130072A22Rik, CKb15, Scya25, TECK}, Krt10 (keratin 10) [NCBI Gene 16661] {aka D130054E02Rik, K10, K1C1, Krt-1.10, Krt1-10}, Ccn2 (cellular communication network factor 2) [NCBI Gene 14219] {aka Ctgf, Fisp12, Hcs24, fisp-12}, Kcnip3 (Kv channel interacting protein 3, calsenilin) [NCBI Gene 56461] {aka 4933407H12Rik, Csen, DREAM, KChIP3}, Col1a2 (collagen, type I, alpha 2) [NCBI Gene 12843] {aka Col1a-2, Cola-2, Cola2, oim}, Ccna2 (cyclin A2) [NCBI Gene 12428] {aka Ccn-1, Ccn1, Ccna, CycA2, Cyca}, Lifr (LIF receptor alpha) [NCBI Gene 16880] {aka A230075M04Rik, LIF}, Cldn4 (claudin 4) [NCBI Gene 12740] {aka Cep-r, Cpetr, Cpetr1}, Krt7 (keratin 7) [NCBI Gene 110310] {aka D15Wsu77e, K7, Krt2-7}, Mfap5 (microfibrillar associated protein 5) [NCBI Gene 50530] {aka MAGP-2, MFAP-5}, BCAM (basal cell adhesion molecule (Lutheran blood group)) [NCBI Gene 4059] {aka AU, B-CAM, CD239, F8/G253, LU, MSK19}, Fn1 (fibronectin 1) [NCBI Gene 14268] {aka E330027I09, Fn, Fn-1}, Lgr5 (leucine rich repeat containing G protein coupled receptor 5) [NCBI Gene 14160] {aka FEX, Gpr49}, Col1a1 (collagen, type I, alpha 1) [NCBI Gene 12842] {aka Col1a-1, Cola-1, Cola1, Mov-13, Mov13}, Enpep (glutamyl aminopeptidase) [NCBI Gene 13809] {aka 6030431M22Rik, APA, Bp-1/6C3, Ly-51, Ly51}, Ptprc (protein tyrosine phosphatase receptor type C) [NCBI Gene 19264] {aka B220, CD45R, Cd45, L-CA, Ly-5, Lyt-4}, Cd34 (CD34 antigen) [NCBI Gene 12490], Bcam (basal cell adhesion molecule) [NCBI Gene 57278] {aka 1200005K12Rik, B-CAM, Gplu, Lu}, CD4 (CD4 molecule) [NCBI Gene 920] {aka CD4mut, IMD79, Leu-3, OKT4D, T4}, Krt15 (keratin 15) [NCBI Gene 16665] {aka K15, Krt1-15}
- **Diseases:** atrophy (MESH:D001284), Cancer (MESH:D009369), infections (MESH:D007239), leukemia (MESH:D007938), immunodeficient (MESH:D007153), fatty (MESH:D008067), burns (MESH:D002056), radiation (MESH:D011832), congenital diseases (MESH:D030342), thymic hyperplasia (MESH:D013952), thymic atrophy (MESH:D013953)
- **Chemicals:** PEG (MESH:D011092), Hematoxylin (MESH:D006416), RA (MESH:D014212), H&amp;E (MESH:D006371), 20-deoxyguanosine (-), Rhodamine B (MESH:C029773), eosin (MESH:D004801)
- **Species:** Homo sapiens (human, species) [taxon 9606], Rodentia (rodent, order) [taxon 9989], Mus musculus (house mouse, species) [taxon 10090], Rattus norvegicus (brown rat, species) [taxon 10116]
- **Cell lines:** MEF — Mus musculus (Mouse), Finite cell line (CVCL_9115), NIH-3 T3 — Mus musculus (Mouse), Spontaneously immortalized cell line (CVCL_0594)

## Figures

7 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12907622/full.md

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Source: https://tomesphere.com/paper/PMC12907622