Cortical thymic epithelial cells (cTECs) and medullary thymic epithelial cells (mTECs),The shaping of T-cell repertoire that is immunocompetent (i.e. useful for self-defense) and self-tolerant (i.e. harmless to the body) is crucial for the development and maintenance of the immune system. Thymic epithelial cells (TECs), which are the major component of the thymic microenvironments, are essential for the generation and repertoire formation of T cells. The thymic cortex, which induces early T-cell development and the positive selection of functionally competent T cells, is characterized by a subset of TECs termed cortical thymic epithelial cells (cTECs), whereas the thymic medulla, which establishes self-tolerance in T cells by the negative selection of self-reactive T cells and the generation of regulatory T cells, is formed by another subset of TECs termed medullary thymic epithelial cells (mTECs). TECs are derived from the endodermal epithelium of the third pharyngeal pouch, and the transcription factor Foxn1 is required Correspondence: Prof. Yousuke Takahama e-mail: takahama@genome.tokushima-u.ac.jp for their generation [1]. The early TECs generated during embryogenesis contain bipotent progenitor thymic epithelial cells (pTECs) that are capable of generating both cTECs and mTECs [2,3]. It is acknowledged that thymocyte development differentially affects cTEC development [4][5][6] and mTEC development [7,8]. However, how pTECs branch into cTECs and mTECs and what regulates their developmental pathways are not fully understood.Several molecular markers that characterize cTECs and mTECs have been identified. For example, cTECs predominantly express keratin 8 (K8), CD205 (DEC205), and CD249 (Ly51), whereas mTECs highly express keratin 5 (K5), CD80, and molecules that bind to the lectin Ulex europaeus agglutinin 1 (UEA1) [9][10][11]. In addition, mTECs, including immature mTECs, strongly express the tight junction molecules claudin-3 and claudin-4 [12]. Molecules that define pTECs are less well known, although it was suggested that pTECs express Plet1 (MTS24) and doubly express K5 and K8 [9,13]. cTECs and mTECs have further been characterized by their expression of functional molecules. DLL4 and IL-7, whichwww.eji-journal.eu Eur. J. Immunol. 2014. 44: 2872-2875 HIGHLIGHTS 2873are important for the induction of early T-cell development, as well as the thymoproteasome subunit β5t and the serine proteasome Prss16, which are critical for the positive selection of developing thymocytes, are highly expressed by cTECs rather than mTECs [10,11]. The cytokine receptor RANK and the nuclear protein Aire, which are pivotal for mTEC development and function in establishing self-tolerance in T cells, are predominantly detectable in mTECs rather than cTECs [10,11]. Chemokines, which essentially regulate the migration of developing thymocytes, are also unequally expressed between cTECs and mTECs; CCL25 and CXCL12 are more abundant in cTECs than mTECs, whereas CCL19, CCL21, and XCL1 are more highly detectable in mTECs than cTECs [...