1. Lu, H., Stratton, C. W. & Tang, Y. W. Outbreak of pneumonia of unknown etiology in Wuhan, China: the mystery and the miracle. J. Med. Virol. 92, 401 (2020).
2. Whitworth, J. COVID-19: a fast evolving pandemic. Trans. R. Soc. Tropical Med. Hyg. 114, 241 (2020).
3. Hoffmann, M. et al. SARS-CoV-2 cell entry depends on ACE2 and TMPRSS2 and is blocked by a clinically proven protease inhibitor. Cell 181, 271–280. e278 (2020).
4. Takayama, K. In vitro and animal models for SARS-CoV-2 research. Trends Pharmacol. Sci. 41, 513–517 (2020).
5. Chen, K. G., Park, K., Spence, J. R. Studying SARS-CoV-2 infectivity and therapeutic responses with complex organoids. Nat. Cell Biol. 23, 822–833 (2021).
6. Han, Y. et al. Identification of SARS-CoV-2 inhibitors using lung and colonic organoids. Nature 589, 270–275 (2021).
7. Lamers, M. M. et al. An organoid‐derived bronchioalveolar model for SARS‐ CoV‐2 infection of human alveolar type II‐like cells. EMBO J. 40, e105912 (2021).
8. Van Der Vaart, J. & Clevers, H. Airway organoids as models of human disease. J. Intern. Med. 289, 604–613 (2021).
9. Deguchi, S., Serrano-Aroca, Á., Tambuwala, M. M., Uhal, B. D., Brufsky, A. M. & Takayama, K. SARS-CoV-2 research using human pluripotent stem cells and organoids. Stem Cells Transl. Med. 10, 1491–1499 (2021).
10. Menter, T. et al. Postmortem examination of COVID‐19 patients reveals diffuse alveolar damage with severe capillary congestion and variegated findings in lungs and other organs suggesting vascular dysfunction. Histopathology 77, 198–209 (2020).
11. Rock, J. R., Randell, S. H. & Hogan, B. L. Airway basal stem cells: a perspective on their roles in epithelial homeostasis and remodeling. Dis. Models Mechanisms 3, 545–556 (2010).
12. Morrisey, E. E. Basal cells in lung development and repair. Dev. Cell 44, 653–654 (2018).
13. Yang, Y. et al. Spatial-temporal lineage restrictions of embryonic p63+ progenitors establish distinct stem cell pools in adult airways. Dev. Cell 44, 752–761. e754 (2018).
14. Balasooriya, G. I., Goschorska, M., Piddini, E. & Rawlins, E. L. FGFR2 is required for airway basal cell self-renewal and terminal differentiation. Development 144, 1600–1606 (2017).
15. Yuan, T., Volckaert, T., Chanda, D., Thannickal, V. J. & De Langhe, S. P. Fgf10 signaling in lung development, homeostasis, disease, and repair after injury. Front. Genet. 9, 418 (2018).
16. Beigel, J. H. et al. Remdesivir for the treatment of Covid-19. N. Engl. J. Med. 383, 1813–1826 (2020).
17. Cox, R. M., Wolf, J. D. & Plemper, R. K. Therapeutically administered ribonucleoside analogue MK-4482/EIDD-2801 blocks SARS-CoV-2 transmission in ferrets. Nat. Microbiol. 6, 11–18 (2021).
18. Huh, D., Matthews, B. D., Mammoto, A., Montoya-Zavala, M., Hsin, H. Y. & Ingber, D. E. Reconstituting organ-level lung functions on a chip. Science 328, 1662–1668 (2010).
19. Zhang, M. et al. Biomimetic human disease model of SARS‐CoV‐2‐induced lung injury and immune responses on organ chip system. Adv. Sci. 8, 2002928 (2021).
20. Si, L. et al. A human-airway-on-a-chip for the rapid identification of candidate antiviral therapeutics and prophylactics. Nat. Biomed. Eng. 5, 815–829 (2021). Sun, S.-H. et al. A mouse model of SARS-CoV-2 infection and pathogenesis. Cell Host Microbe 28, 124–133. e124 (2020).
21. Pandey, K., Acharya, A., Mohan, M., Ng, C. L., Reid, S. P. & Byrareddy, S. N. Animal models for SARS‐CoV‐2 research: a comprehensive literature review. Transbound. Emerg. Dis. 68, 1868–1885 (2021).
22. Itoh, N. & Ornitz, D. M. Evolution of the Fgf and Fgfr gene families. TRENDS Genet. 20, 563–569 (2004).
23. Chen, F. & Fine, A. Stem cells in lung injury and repair. Am. J. Pathol. 186, 2544–2550 (2016).
24. Co, J. Y. et al. Controlling epithelial polarity: a human enteroid model for host-pathogen interactions. Cell Rep. 26, 2509–2520. e2504 (2019).
25. Matsuyama, S. et al. Enhanced isolation of SARS-CoV-2 by TMPRSS2- expressing cells. Proc. Natl Acad. Sci. USA 117, 7001–7003 (2020).
26. Ge, S. X., Son, E. W. & Yao, R. iDEP: an integrated web application for differential expression and pathway analysis of RNA-Seq data. BMC Bioinforma. 19, 534 (2018).