Strong correlation between air-liquid interface cultures and in vivo transcriptomics of nasal brush biopsy

Baishakhi Ghosh, Bongsoo Park, Debarshi Bhowmik, Kristine Nishida, Molly Lauver, Nirupama Putcha, Peisong Gao, Murugappan Ramanathan, Nadia Hansel, Shyam Biswal, Venkataramana K. Sidhaye

Research output: Contribution to journalArticle

Abstract

Air-liquid interface (ALI) cultures are ex vivo models that are used extensively to study the epithelium of patients with chronic respiratory diseases. However, the in vitro conditions impose a milieu different from that encountered in the patient in vivo, and the degree to which this alters gene expression remains unclear. In this study we employed RNA sequencing to compare the transcriptome of fresh brushings of nasal epithelial cells with that of ALI-cultured epithelial cells from the same patients. We observed a strong correlation between cells cultured at the ALI and cells obtained from the brushed nasal epithelia: 96% of expressed genes showed similar expression profiles, although there was greater similarity between the brushed samples. We observed that while the ALI model provides an excellent representation of the in vivo airway epithelial transcriptome for mechanistic studies, several pathways are affected by the change in milieu.

Original languageEnglish (US)
Pages (from-to)L1056-L1062
JournalAmerican journal of physiology. Lung cellular and molecular physiology
Volume318
Issue number5
DOIs
StatePublished - May 1 2020

Keywords

  • air-liquid interface
  • cell culture
  • nasal brushing
  • nasal epithelia
  • transcriptome

ASJC Scopus subject areas

  • Physiology
  • Pulmonary and Respiratory Medicine
  • Physiology (medical)
  • Cell Biology

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