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Single-cell RNA sequencing identifies TGF-β as a key regenerative cue following LPS-induced lung injury
Kent A. Riemondy, Nicole L. Jansing, Peng Jiang, Elizabeth F. Redente, Austin E. Gillen, Rui Fu, Alyssa J. Miller, Jason R. Spence, Anthony N. Gerber, Jay R. Hesselberth, Rachel L. Zemans
Kent A. Riemondy, Nicole L. Jansing, Peng Jiang, Elizabeth F. Redente, Austin E. Gillen, Rui Fu, Alyssa J. Miller, Jason R. Spence, Anthony N. Gerber, Jay R. Hesselberth, Rachel L. Zemans
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Research Article Pulmonology

Single-cell RNA sequencing identifies TGF-β as a key regenerative cue following LPS-induced lung injury

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Abstract

Many lung diseases result from a failure of efficient regeneration of damaged alveolar epithelial cells (AECs) after lung injury. During regeneration, AEC2s proliferate to replace lost cells, after which proliferation halts and some AEC2s transdifferentiate into AEC1s to restore normal alveolar structure and function. Although the mechanisms underlying AEC2 proliferation have been studied, the mechanisms responsible for halting proliferation and inducing transdifferentiation are poorly understood. To identify candidate signaling pathways responsible for halting proliferation and inducing transdifferentiation, we performed single-cell RNA sequencing on AEC2s during regeneration in a murine model of lung injury induced by intratracheal LPS. Unsupervised clustering revealed distinct subpopulations of regenerating AEC2s: proliferating, cell cycle arrest, and transdifferentiating. Gene expression analysis of these transitional subpopulations revealed that TGF-β signaling was highly upregulated in the cell cycle arrest subpopulation and relatively downregulated in transdifferentiating cells. In cultured AEC2s, TGF-β was necessary for cell cycle arrest but impeded transdifferentiation. We conclude that during regeneration after LPS-induced lung injury, TGF-β is a critical signal halting AEC2 proliferation but must be inactivated to allow transdifferentiation. This study provides insight into the molecular mechanisms regulating alveolar regeneration and the pathogenesis of diseases resulting from a failure of regeneration.

Authors

Kent A. Riemondy, Nicole L. Jansing, Peng Jiang, Elizabeth F. Redente, Austin E. Gillen, Rui Fu, Alyssa J. Miller, Jason R. Spence, Anthony N. Gerber, Jay R. Hesselberth, Rachel L. Zemans

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Figure 7

TGF-β inhibits AEC2-to-AEC1 transdifferentiation in cultured AEC2s.

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TGF-β inhibits AEC2-to-AEC1 transdifferentiation in cultured AEC2s.
(A–E...
(A–E) Primary rat AEC2s were cultured in the presence or absence of the TGFβRI inhibitor LY364947 (LY) or the TGF-β–neutralizing antibody 1D11 for the indicated time periods. (A, C, and D) Quantitative PCR (qPCR) for AEC1 markers. (B and E) Western blotting for AEC1 markers with densitometry. Vertical white lines indicate that the lanes were run on the same gel but were noncontiguous. Data are shown as fold change compared with day 0 (A–C) or fold change compared with IgG or DMSO controls (D and E). (F and G) AEC2s were isolated from Tgfbr2fl/fl mice, transduced with AdGFP or AdCre, and cultured for 3 days. qPCR (F) and Western blotting with densitometry (G) shown as fold change in AdCre samples compared with AdGFP samples. Each experiment was performed at least 3 times, except the 1D11 experiments with 2 technical replicates each. Two-tailed t test or 1- or 2-way ANOVA with post hoc analysis for multiple comparisons was performed and corrected for repeated measures. Mean ± SEM is shown. *P < 0.05, **P < 0.01, ***P < 0.001, †P = 0.07 calculated for fold change relative to day 0 (A–C) or DMSO vs. LY or IgG1 vs. 1D11 (D and E) or AdGFP vs. AdCre (F and G).

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