Integrative proteomic analysis reveals reprograming tumor necrosis factor signaling in epithelial mesenchymal transition

Yingxin Zhao, Bing Tian, Rovshan Sadygov, Yueqing Zhang, Allan R. Brasier

Research output: Contribution to journalArticle

13 Citations (Scopus)

Abstract

The airway epithelium is a semi-impermeable barrier whose disruption by growth factor reprogramming is associated with chronic airway diseases of humans. Transforming growth factor beta (TGFβ)-induced epithelial mesenchymal transition (EMT) plays important roles in airway remodeling characteristic of idiopathic lung fibrosis, asthma and chronic obstructive pulmonary disease (COPD). Inflammation of the airways leads to airway injury and tumor necrosis factor alpha (TNFα) plays an important pro-inflammatory role. Little systematic information about the effects of EMT on TNFα signaling is available. Using an in vitro model of TGFβ-induced EMT in primary human small airway epithelial cells (hSAECs), we applied quantitative proteomics and phosphoprotein profiling to understand the molecular mechanism of EMT and the impact of EMT on innate inflammatory responses. We quantified 7925 proteins and 1348 phosphorylation sites by stable isotope labeling with iTRAQ technology. We found that cellular response to TNFα is cell state dependent and the relative TNFα response in mesenchymal state is highly compressed. Combined bioinformatics analyses of proteome and phosphoproteome indicate that the EMT state is associated with reprogramming of kinome, signaling cascade of upstream transcription regulators, phosphor-networks, and NF-κB dependent cell signaling. Biological significance Epithelial mesenchymal transition and inflammation have important implications for clinical and physiologic manifestations of chronic airway diseases such as severe asthma, COPD, and lung fibrosis. Little systematic information on the interplay between EMT and innate inflammation is available. This study combined quantitative proteomics and phosphorproteomics approach to obtain systems-level insight into the upstream transcription regulators involved in the TGFβ-induced EMT in primary human small airway epithelial cells and to elucidate how EMT impacts on the TNFα signaling pathways. The proteomics and phosphoproteomics analysis indicates that many signaling pathways involved in TGFβ-induced EMT and EMT has profound reprogramming effects on innate inflammation response.

Original languageEnglish (US)
Pages (from-to)126-138
Number of pages13
JournalJournal of Proteomics
Volume148
DOIs
StatePublished - Oct 4 2016

Fingerprint

Epithelial-Mesenchymal Transition
Proteomics
Tumor Necrosis Factor-alpha
Transforming Growth Factor beta
Pulmonary diseases
Transcription
Inflammation
Cell signaling
Chronic Obstructive Pulmonary Disease
Phosphorylation
Phosphoproteins
Fibrosis
Chronic Disease
Proteome
Bioinformatics
Asthma
Epithelial Cells
Isotopes
Phosphors
Labeling

Keywords

  • Epithelial mesenchymal transition
  • Innate immune response
  • Mass spectrometry
  • Phosphoproteomics
  • Proteomics

ASJC Scopus subject areas

  • Biochemistry
  • Biophysics

Cite this

Integrative proteomic analysis reveals reprograming tumor necrosis factor signaling in epithelial mesenchymal transition. / Zhao, Yingxin; Tian, Bing; Sadygov, Rovshan; Zhang, Yueqing; Brasier, Allan R.

In: Journal of Proteomics, Vol. 148, 04.10.2016, p. 126-138.

Research output: Contribution to journalArticle

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abstract = "The airway epithelium is a semi-impermeable barrier whose disruption by growth factor reprogramming is associated with chronic airway diseases of humans. Transforming growth factor beta (TGFβ)-induced epithelial mesenchymal transition (EMT) plays important roles in airway remodeling characteristic of idiopathic lung fibrosis, asthma and chronic obstructive pulmonary disease (COPD). Inflammation of the airways leads to airway injury and tumor necrosis factor alpha (TNFα) plays an important pro-inflammatory role. Little systematic information about the effects of EMT on TNFα signaling is available. Using an in vitro model of TGFβ-induced EMT in primary human small airway epithelial cells (hSAECs), we applied quantitative proteomics and phosphoprotein profiling to understand the molecular mechanism of EMT and the impact of EMT on innate inflammatory responses. We quantified 7925 proteins and 1348 phosphorylation sites by stable isotope labeling with iTRAQ technology. We found that cellular response to TNFα is cell state dependent and the relative TNFα response in mesenchymal state is highly compressed. Combined bioinformatics analyses of proteome and phosphoproteome indicate that the EMT state is associated with reprogramming of kinome, signaling cascade of upstream transcription regulators, phosphor-networks, and NF-κB dependent cell signaling. Biological significance Epithelial mesenchymal transition and inflammation have important implications for clinical and physiologic manifestations of chronic airway diseases such as severe asthma, COPD, and lung fibrosis. Little systematic information on the interplay between EMT and innate inflammation is available. This study combined quantitative proteomics and phosphorproteomics approach to obtain systems-level insight into the upstream transcription regulators involved in the TGFβ-induced EMT in primary human small airway epithelial cells and to elucidate how EMT impacts on the TNFα signaling pathways. The proteomics and phosphoproteomics analysis indicates that many signaling pathways involved in TGFβ-induced EMT and EMT has profound reprogramming effects on innate inflammation response.",
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