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Wnt signaling is required for lineage commitment of glandular stem cells (SCs) during tracheal submucosal gland (SMG) morphogenesis from the surface airway epithelium (SAE). Whether similar Wnt‐dependent processes coordinate SC expansion in adult SMGs following airway injury remains unknown. We found that two Wnt‐reporters in mice (BAT‐gal and TCF/Lef:H2B‐GFP) are coexpressed in actively cycling SCs of primordial glandular placodes and in a small subset of adult SMG progenitor cells that enter the cell cycle 24 hours following airway injury. At homeostasis, these Wnt reporters showed nonoverlapping cellular patterns of expression in the SAE and SMGs. Following tracheal injury, proliferation was accompanied by dynamic changes in Wnt‐reporter activity and the analysis of 56 Wnt‐related signaling genes revealed unique temporal changes in expression within proximal (gland‐containing) and distal (gland‐free) portions of the trachea. Wnt stimulation in vivo and in vitro promoted epithelial proliferation in both SMGs and the SAE. Interestingly, slowly cycling nucleotide label‐retaining cells (LRCs) of SMGs were spatially positioned near clusters of BAT‐gal positive serous tubules. Isolation and culture of tet‐inducible H2B‐GFP LRCs demonstrated that SMG LRCs were more proliferative than SAE LRCs and culture expanded SMG‐derived progenitor cells outcompeted SAE‐derived progenitors in regeneration of tracheal xenograft epithelium using a clonal analysis competition assay. SMG‐derived progenitors were also multipotent for cell types in the SAE and formed gland‐like structures in xenografts. These studies demonstrate the importance of Wnt signals in modulating SC phenotypes within tracheal niches and provide new insight into phenotypic differences of SMG and SAE SCs. S tem  C ells   2016;34:2758–2771

Wnt Signaling Regulates Airway Epithelial Stem Cells in Adult Murine Submucosal Glands