Niche-Specific Reprogramming of Epigenetic Landscapes Drives Myeloid Cell Diversity in Nonalcoholic Steatohepatitis

Jason S. Seidman, Ty D. Troutman, Mashito Sakai, Anita Gola, Nathanael J. Spann, Hunter Bennett, Cassi M. Bruni, Zhengyu Ouyang, Rick Z. Li, Xiaoli Sun, Bao Chau T. Vu, Martina P. Pasillas, Kaori M. Ego, David Gosselin, Verena M. Link, Ling Wa Chong, Ronald M. Evans, Bonne M. Thompson, Jeffrey G. McDonald, Mojgan HosseiniJoseph L. Witztum, Ronald N. Germain, Christopher K. Glass

Research output: Contribution to journalArticle

Abstract

Tissue-resident and recruited macrophages contribute to both host defense and pathology. Multiple macrophage phenotypes are represented in diseased tissues, but we lack deep understanding of mechanisms controlling diversification. Here, we investigate origins and epigenetic trajectories of hepatic macrophages during diet-induced non-alcoholic steatohepatitis (NASH). The NASH diet induced significant changes in Kupffer cell enhancers and gene expression, resulting in partial loss of Kupffer cell identity, induction of Trem2 and Cd9 expression, and cell death. Kupffer cell loss was compensated by gain of adjacent monocyte-derived macrophages that exhibited convergent epigenomes, transcriptomes, and functions. NASH-induced changes in Kupffer cell enhancers were driven by AP-1 and EGR that reprogrammed LXR functions required for Kupffer cell identity and survival to instead drive a scar-associated macrophage phenotype. These findings reveal mechanisms by which disease-associated environmental signals instruct resident and recruited macrophages to acquire distinct gene expression programs and corresponding functions.

Original languageEnglish (US)
JournalImmunity
DOIs
StateAccepted/In press - Jan 1 2020

Keywords

  • ATF3
  • ChIP-seq
  • epigenetics
  • genomics
  • Kupffer cell
  • LXR
  • nonalcoholic steatohepatitis
  • scRNA-seq
  • tissue macrophage
  • TREM2

ASJC Scopus subject areas

  • Immunology and Allergy
  • Immunology
  • Infectious Diseases

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  • Cite this

    Seidman, J. S., Troutman, T. D., Sakai, M., Gola, A., Spann, N. J., Bennett, H., Bruni, C. M., Ouyang, Z., Li, R. Z., Sun, X., Vu, B. C. T., Pasillas, M. P., Ego, K. M., Gosselin, D., Link, V. M., Chong, L. W., Evans, R. M., Thompson, B. M., McDonald, J. G., ... Glass, C. K. (Accepted/In press). Niche-Specific Reprogramming of Epigenetic Landscapes Drives Myeloid Cell Diversity in Nonalcoholic Steatohepatitis. Immunity. https://doi.org/10.1016/j.immuni.2020.04.001