Mapping the Dialogue: Decoding Alveolar Stem-Niche Interactions [II]

We present an alveolosphere screening platform for investigating interactions between lung epithelial stem cells and their fibroblast niche. We assessed the role of 201 candidate genes in stem cells via imaging, then used RNAseq analysis for a transcriptome-wide understanding of cell-autonomous effects on stem cells and non-cell-autonomous effects on the niche.

This phenome-transcriptome map uncovered new cellular states and pathways regulating stem cell growth, metabolism, and immune signaling. Notably, stem cells influenced scar-forming and immune programs in fibroblasts. This injury response was dependent on stem cell identity; loss of Nkx2.1, the transcription factor conferring lung epithelial identity, disrupted stem cell-niche interactions and had a greater non-cell-autonomous effect than eliminating the cancer genes Trp53, Egfr, or Cdkn2b.