The transcription factor FoxN1 is essential for differentiation of thymic epithelial cell (TEC) progenitors during thymic organogenesis. However, limited information is available on the postnatal contribution of FoxN1 to thymic maintenance. To address this question, we generated a loxP-floxed FoxN1 (fx) mouse with three different promoter-driven inducible CreER T transgenes. Postnatal ubiquitous deletion of FoxN1 caused dramatic thymic atrophy in 5 days and more severe deterioration in medullary TECs (mTECs) than in cortical TECs (cTECs). Induction of FoxN1 deletion selectively in K5 promoter-driven somatic epithelial cells (mostly mTECs and possibly some adult epithelial stem cells) was sufficient to cause significant thymic atrophy, whereas FoxN1 deletion in K18 promoter-driven somatic epithelial cells (mostly cTECs) was not. Thymic atrophy resulted from increased apoptosis and was associated with activation of the p53 gene in mature mTECs. Although FoxN1 is required for the development of both mTECs and cTECs in thymic organogenesis, it is most important for the maintenance of mTECs in the postnatal thymus, which are in turn necessary to prevent thymic atrophy.The thymus gland is not only required for ontogenesis but is also indispensable for postnatal cellular immune system function (1) through replenishment of the naive T-cell pool and maintenance of diversity of the T-cell receptor repertoire, establishment of central immune tolerance by depleting selfreactive T-cell clones, and generation of natural regulatory T cells to maintain immune balance (2, 3). Many intrinsic and extrinsic factors can induce atrophy of the mature thymus and disrupt thymic functions (4, 5). Thymic atrophy is generally believed to result from deterioration of the interactions between lymphohematopoietic progenitor cells and nonhematopoietic thymic stromal cells (TSCs), 3 primarily thymic epithelial cells (TECs) in the thymus (6, 7). Therefore, changes in expression of genes and transcription factors, related to lymphohematopoietic progenitor cell and/or TEC functions may regulate thymic involution.FoxN1 is an epithelial cell-autonomous gene that encodes a forkhead-box transcription factor related to the immune system (8) and skin epithelial cells (9). FOXN1 in humans and FoxN1 in rodents are highly conserved in their sequence and function. A mutation in FoxN1 generates alymphoid cystic thymic dysgenesis due to defective TECs (10, 11), causing primary T-cell immunodeficiency (12-15), and leads to a hairless "nude" phenotype (9). TECs have two major subsets, medullary and cortical TECs (mTEC and cTEC), based on anatomic regions, expressed molecules, and function. mTECs mediate negative selection of T cells and control the maturation of T cells prior to leaving the thymus, whereas cTECs foster the development of CD4 Ϫ 8 Ϫ T-cell progenitors and regulate positive selection of T cells. Both mTECs and cTECs are FoxN1-dependent (16) during fetal thymic organogenesis, as demonstrated in mouse models (11,17,18). However, it is unclear whethe...