Single-cell connectomic analysis of adult mammalian lungs

Sci Adv. 2019 Dec 4;5(12):eaaw3851. doi: 10.1126/sciadv.aaw3851. eCollection 2019 Dec.


Efforts to decipher chronic lung disease and to reconstitute functional lung tissue through regenerative medicine have been hampered by an incomplete understanding of cell-cell interactions governing tissue homeostasis. Because the structure of mammalian lungs is highly conserved at the histologic level, we hypothesized that there are evolutionarily conserved homeostatic mechanisms that keep the fine architecture of the lung in balance. We have leveraged single-cell RNA sequencing techniques to identify conserved patterns of cell-cell cross-talk in adult mammalian lungs, analyzing mouse, rat, pig, and human pulmonary tissues. Specific stereotyped functional roles for each cell type in the distal lung are observed, with alveolar type I cells having a major role in the regulation of tissue homeostasis. This paper provides a systems-level portrait of signaling between alveolar cell populations. These methods may be applicable to other organs, providing a roadmap for identifying key pathways governing pathophysiology and informing regenerative efforts.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Cell Line
  • Connectome*
  • Extracellular Space / metabolism
  • Genes
  • Homeostasis
  • Humans
  • Ligands
  • Lung / cytology*
  • Mammals / metabolism*
  • Pulmonary Alveoli / metabolism
  • Receptors, Cell Surface / metabolism
  • Semaphorins / metabolism
  • Signal Transduction
  • Single-Cell Analysis*
  • Species Specificity
  • Vascular Endothelial Growth Factor A / metabolism


  • Ligands
  • Receptors, Cell Surface
  • Semaphorins
  • Vascular Endothelial Growth Factor A