An atlas of the aging lung mapped by single cell transcriptomics and deep tissue proteomics

Ilias Angelidis, Lukas M. Simon, Isis E. Fernandez, Maximilian Strunz, Christoph H. Mayr, Flavia R. Greiffo, George Tsitsiridis, Meshal Ansari, Elisabeth Graf, Tim-Matthias Strom, Monica Nagendran, Tushar Desai, Oliver Eickelberg, Matthias Mann, Fabian J. Theis () and Herbert B. Schiller ()
Additional contact information
Ilias Angelidis: Member of the German Center for Lung Research (DZL)
Lukas M. Simon: Institute of Computational Biology
Isis E. Fernandez: Member of the German Center for Lung Research (DZL)
Maximilian Strunz: Member of the German Center for Lung Research (DZL)
Christoph H. Mayr: Member of the German Center for Lung Research (DZL)
Flavia R. Greiffo: Member of the German Center for Lung Research (DZL)
George Tsitsiridis: Institute of Computational Biology
Meshal Ansari: Member of the German Center for Lung Research (DZL)
Elisabeth Graf: Institute of Human Genetics
Tim-Matthias Strom: Institute of Human Genetics
Monica Nagendran: Stanford University School of Medicine
Tushar Desai: Stanford University School of Medicine
Oliver Eickelberg: University of Colorado
Matthias Mann: Max Planck Institute of Biochemistry
Fabian J. Theis: Institute of Computational Biology
Herbert B. Schiller: Member of the German Center for Lung Research (DZL)

Nature Communications, 2019, vol. 10, issue 1, 1-17

Abstract: Abstract Aging promotes lung function decline and susceptibility to chronic lung diseases, which are the third leading cause of death worldwide. Here, we use single cell transcriptomics and mass spectrometry-based proteomics to quantify changes in cellular activity states across 30 cell types and chart the lung proteome of young and old mice. We show that aging leads to increased transcriptional noise, indicating deregulated epigenetic control. We observe cell type-specific effects of aging, uncovering increased cholesterol biosynthesis in type-2 pneumocytes and lipofibroblasts and altered relative frequency of airway epithelial cells as hallmarks of lung aging. Proteomic profiling reveals extracellular matrix remodeling in old mice, including increased collagen IV and XVI and decreased Fraser syndrome complex proteins and collagen XIV. Computational integration of the aging proteome with the single cell transcriptomes predicts the cellular source of regulated proteins and creates an unbiased reference map of the aging lung.

Date: 2019
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DOI: 10.1038/s41467-019-08831-9

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