Inflammatory gene regulatory networks in amnion cells following cytokine stimulation: Translational systems approach to modeling human parturition

Ruth Li, William E. Ackerman, Taryn L. Summerfield, Lianbo Yu, Parul Gulati, Jie Zhang, Kun Huang, Roberto Romero, Douglas A. Kniss

Research output: Contribution to journalArticle

12 Citations (Scopus)

Abstract

A majority of the studies examining the molecular regulation of human labor have been conducted using single gene approaches. While the technology to produce multi-dimensional datasets is readily available, the means for facile analysis of such data are limited. The objective of this study was to develop a systems approach to infer regulatory mechanisms governing global gene expression in cytokine-challenged cells in vitro, and to apply these methods to predict gene regulatory networks (GRNs) in intrauterine tissues during term parturition. To this end, microarray analysis was applied to human amnion mesenchymal cells (AMCs) stimulated with interleukin-1β, and differentially expressed transcripts were subjected to hierarchical clustering, temporal expression profiling, and motif enrichment analysis, from which a GRN was constructed. These methods were then applied to fetal membrane specimens collected in the absence or presence of spontaneous term labor. Analysis of cytokine-responsive genes in AMCs revealed a sterile immune response signature, with promoters enriched in response elements for several inflammation-associated transcription factors. In comparison to the fetal membrane dataset, there were 34 genes commonly upregulated, many of which were part of an acute inflammation gene expression signature. Binding motifs for nuclear factor-κB were prominent in the gene interaction and regulatory networks for both datasets; however, we found little evidence to support the utilization of pathogen-associated molecular pattern (PAMP) signaling. The tissue specimens were also enriched for transcripts governed by hypoxia-inducible factor. The approach presented here provides an uncomplicated means to infer global relationships among gene clusters involved in cellular responses to labor-associated signals.

Original languageEnglish (US)
Article numbere20560
JournalPLoS One
Volume6
Issue number6
DOIs
StatePublished - Jun 9 2011
Externally publishedYes

Fingerprint

amnion
Amnion
Gene Regulatory Networks
Systems Analysis
Extraembryonic Membranes
extraembryonic membranes
labor
cytokines
Genes
Parturition
parturition
Cytokines
inflammation
Inflammation
gene expression
gene interaction
genes
response elements
interleukin-1
Response Elements

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

Inflammatory gene regulatory networks in amnion cells following cytokine stimulation : Translational systems approach to modeling human parturition. / Li, Ruth; Ackerman, William E.; Summerfield, Taryn L.; Yu, Lianbo; Gulati, Parul; Zhang, Jie; Huang, Kun; Romero, Roberto; Kniss, Douglas A.

In: PLoS One, Vol. 6, No. 6, e20560, 09.06.2011.

Research output: Contribution to journalArticle

Li, Ruth ; Ackerman, William E. ; Summerfield, Taryn L. ; Yu, Lianbo ; Gulati, Parul ; Zhang, Jie ; Huang, Kun ; Romero, Roberto ; Kniss, Douglas A. / Inflammatory gene regulatory networks in amnion cells following cytokine stimulation : Translational systems approach to modeling human parturition. In: PLoS One. 2011 ; Vol. 6, No. 6.
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