An organoid CRISPRi screen revealed that SOX9 primes human fetal lung tip progenitors to receive WNT and RTK signals

• Published in: bioRxiv
• Main Authors: Sun, Dawei, Oriol Llora Batlle, Jelle Van Den Ameele, Thomas, John Christopher, He, Peng, Lim, Kyungtae, Tang, Walfred, Xu, Chufan, Meyer, Kerstin B, Teichmann, Sarah A, Marioni, John, Jackson, Stephen P, Brand, Andrea H, Rawlins, Emma L
• Format: Paper
• Language: English
• Published: Cold Spring Harbor Cold Spring Harbor Laboratory Press 27.01.2022; Cold Spring Harbor Laboratory
• Edition: 1.1
• Subjects: Cell self-renewal; Developmental Biology; Fetuses; Gene regulation; Lungs; Organoids; Progenitor cells; Sox9 protein; Stem cells; Transcription factors; Wnt protein
• ISSN: 2692-8205; 2692-8205
• DOI: 10.1101/2022.01.27.478034

The balance between self-renewal and differentiation in human fetal lung epithelial progenitors controls the size and function of the adult organ. Moreover, progenitor cell gene regulation networks are employed by both regenerating and malignant lung cells, where modulators of their effects could potentially be of therapeutic value. Details of the molecular networks controlling human lung progenitor self-renewal remain unknown. We performed the first CRISPRi screen in primary human lung organoids to identify transcription factors controlling progenitor self-renewal. We show that SOX9 promotes proliferation of lung progenitors and inhibits precocious airway differentiation. Moreover, by identifying direct transcriptional targets using Targeted DamID we place SOX9 at the centre of a transcriptional network which amplifies WNT and RTK signalling to stabilise the progenitor cell state. In addition, the proof-of-principle CRISPRi screen and Targeted DamID tools establish a new approach for using primary human organoids to elucidate detailed functional mechanisms underlying normal development and disease. Competing Interest Statement The authors have declared no competing interest.