title: Integrating murine gene expression studies to understand obstructive lung disease due to chronic inhaled endotoxin.
abstract: BACKGROUND
  Endotoxin is a near ubiquitous environmental exposure that that has been associated with both asthma and chronic obstructive pulmonary disease (COPD). These obstructive lung diseases have a complex pathophysiology, making them difficult to study comprehensively in the context of endotoxin. Genome-wide gene expression studies have been used to identify a molecular snapshot of the response to environmental exposures. Identification of differentially expressed genes shared across all published murine models of chronic inhaled endotoxin will provide insight into the biology underlying endotoxin-associated lung disease.
  
  
  METHODS
  We identified three published murine models with gene expression profiling after repeated low-dose inhaled endotoxin. All array data from these experiments were re-analyzed, annotated consistently, and tested for shared genes found to be differentially expressed. Additional functional comparison was conducted by testing for significant enrichment of differentially expressed genes in known pathways. The importance of this gene signature in smoking-related lung disease was assessed using hierarchical clustering in an independent experiment where mice were exposed to endotoxin, smoke, and endotoxin plus smoke.
  
  
  RESULTS
  A 101-gene signature was detected in three murine models, more than expected by chance. The three model systems exhibit additional similarity beyond shared genes when compared at the pathway level, with increasing enrichment of inflammatory pathways associated with longer duration of endotoxin exposure. Genes and pathways important in both asthma and COPD were shared across all endotoxin models. Mice exposed to endotoxin, smoke, and smoke plus endotoxin were accurately classified with the endotoxin gene signature.
  
  
  CONCLUSIONS
  Despite the differences in laboratory, duration of exposure, and strain of mouse used in three experimental models of chronic inhaled endotoxin, surprising similarities in gene expression were observed. The endotoxin component of tobacco smoke may play an important role in disease development.
authors.affiliation: Massachusetts General Hospital, Boston, Massachusetts, United States of America. plai@partners.org
authors.forename: Peggy S
authors.initials: PS
authors.lastname: Lai
authors.forename: Oliver
authors.initials: O
authors.lastname: Hofmann
authors.forename: Rebecca M
authors.initials: RM
authors.lastname: Baron
authors.forename: Manuela
authors.initials: M
authors.lastname: Cernadas
authors.forename: Quanxin Ryan
authors.initials: QR
authors.lastname: Meng
authors.forename: Herbert S
authors.initials: HS
authors.lastname: Bresler
authors.forename: David M
authors.initials: DM
authors.lastname: Brass
authors.forename: Ivana V
authors.initials: IV
authors.lastname: Yang
authors.forename: David A
authors.initials: DA
authors.lastname: Schwartz
authors.forename: David C
authors.initials: DC
authors.lastname: Christiani
authors.forename: Winston
authors.initials: W
authors.lastname: Hide
mesh_terms: D000280:Administration, Inhalation; D000465:Algorithms; D000818:Animals; D001249:Asthma / Q000139:chemically induced / Q000235:genetics* / Q000503:physiopathology; D004731:Endotoxins / Q000494:pharmacology*; D015870:Gene Expression; D020869:Gene Expression Profiling; D008168:Lung / Q000378:metabolism* / Q000503:physiopathology; D051379:Mice; D005810:Multigene Family; D029424:Pulmonary Disease, Chronic Obstructive / Q000139:chemically induced / Q000235:genetics* / Q000503:physiopathology; D012907:Smoking; D059467:Transcriptome; D014026:Nicotiana
chemical_list: D004731:Endotoxins