Single-cell proteomics reveals changes in expression during hair-cell development

Ying Zhu, Mirko Scheibinger, Daniel Christian Ellwanger, Jocelyn F. Krey, Dongseok Choi, Ryan T. Kelly, Stefan Heller, Peter G. Barr-Gillespie

Research output: Contribution to journalArticle

Abstract

Hearing and balance rely on small sensory hair cells that reside in the inner ear. To explore dynamic changes in the abundant proteins present in differentiating hair cells, we used nanoliter-scale shotgun mass spectrometry of single cells, each ~1 picoliter, from utricles of embryonic day 15 chickens. We identified unique constellations of proteins or protein groups from presumptive hair cells and from progenitor cells. The single-cell proteomes enabled the de novo reconstruction of a developmental trajectory using protein expression levels, revealing proteins that greatly increased in expression during differentiation of hair cells (e.g., OCM, CRABP1, GPX2, AK1, GSTO1) and those that decreased during differentiation (e.g., TMSB4X, AGR3). Complementary single-cell transcriptome profiling showed corresponding changes in mRNA during maturation of hair cells. Single-cell proteomics data thus can be mined to reveal features of cellular development that may be missed with transcriptomics.

Original languageEnglish (US)
JournaleLife
Volume8
DOIs
StatePublished - Nov 4 2019

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Proteomics
Cells
Proteins
Audition
Proteome
Mass spectrometry
Saccule and Utricle
Trajectories
Firearms
Gene Expression Profiling
Inner Ear
Messenger RNA
Hearing
Cell Differentiation
Chickens
Mass Spectrometry
Stem Cells

Keywords

  • actin
  • cell biology
  • chicken
  • development
  • developmental biology
  • hair cells
  • mass spectrometry
  • RNA sequencing
  • single cells

ASJC Scopus subject areas

  • Neuroscience(all)
  • Immunology and Microbiology(all)
  • Biochemistry, Genetics and Molecular Biology(all)

Cite this

Zhu, Y., Scheibinger, M., Ellwanger, D. C., Krey, J. F., Choi, D., Kelly, R. T., ... Barr-Gillespie, P. G. (2019). Single-cell proteomics reveals changes in expression during hair-cell development. eLife, 8. https://doi.org/10.7554/eLife.50777

Single-cell proteomics reveals changes in expression during hair-cell development. / Zhu, Ying; Scheibinger, Mirko; Ellwanger, Daniel Christian; Krey, Jocelyn F.; Choi, Dongseok; Kelly, Ryan T.; Heller, Stefan; Barr-Gillespie, Peter G.

In: eLife, Vol. 8, 04.11.2019.

Research output: Contribution to journalArticle

Zhu, Y, Scheibinger, M, Ellwanger, DC, Krey, JF, Choi, D, Kelly, RT, Heller, S & Barr-Gillespie, PG 2019, 'Single-cell proteomics reveals changes in expression during hair-cell development', eLife, vol. 8. https://doi.org/10.7554/eLife.50777
Zhu, Ying ; Scheibinger, Mirko ; Ellwanger, Daniel Christian ; Krey, Jocelyn F. ; Choi, Dongseok ; Kelly, Ryan T. ; Heller, Stefan ; Barr-Gillespie, Peter G. / Single-cell proteomics reveals changes in expression during hair-cell development. In: eLife. 2019 ; Vol. 8.
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