1. Promoter Usage and Dynamics in Vascular Smooth Muscle Cells Exposed to Fibroblast Growth Factor-2 or Interleukin-1β
- Author
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Carsten O. Daub, Levon M. Khachigian, Michiel J. L. de Hoon, Piero Carninci, Yoshihide Hayashizaki, Margaret Patrikakis, Ahmad M. N. Alhendi, Erik Arner, Masayoshi Itoh, and Hideya Kawaji
- Subjects
0301 basic medicine ,Vascular smooth muscle ,medicine.medical_treatment ,Interleukin-1beta ,Myocytes, Smooth Muscle ,Primary Cell Culture ,lcsh:Medicine ,Fibroblast growth factor ,Article ,Culture Media, Serum-Free ,03 medical and health sciences ,Cell Movement ,Gene expression ,medicine ,Humans ,Nucleotide Motifs ,Promoter Regions, Genetic ,lcsh:Science ,Transcription factor ,Genes, Immediate-Early ,Cell Proliferation ,Early Growth Response Protein 1 ,Multidisciplinary ,Chemistry ,Growth factor ,Gene Expression Profiling ,lcsh:R ,Promoter ,Cell biology ,030104 developmental biology ,Gene Expression Regulation ,Fibroblast Growth Factor 2 ,lcsh:Q ,Signal transduction ,Proto-Oncogene Proteins c-fos ,FOSB ,Protein Binding ,Signal Transduction - Abstract
Smooth muscle cells (SMC) in blood vessels are normally growth quiescent and transcriptionally inactive. Our objective was to understand promoter usage and dynamics in SMC acutely exposed to a prototypic growth factor or pro-inflammatory cytokine. Using cap analysis gene expression (FANTOM5 project) we report differences in promoter dynamics for immediate-early genes (IEG) and other genes when SMC are exposed to fibroblast growth factor-2 or interleukin-1β. Of the 1871 promoters responding to FGF2 or IL-1β considerably more responded to FGF2 (68.4%) than IL-1β (18.5%) and 13.2% responded to both. Expression clustering reveals sets of genes induced, repressed or unchanged. Among IEG responding rapidly to FGF2 or IL-1β were FOS, FOSB and EGR-1, which mediates human SMC migration. Motif activity response analysis (MARA) indicates most transcription factor binding motifs in response to FGF2 were associated with a sharp induction at 1 h, whereas in response to IL-1β, most motifs were associated with a biphasic change peaking generally later. MARA revealed motifs for FOS_FOS{B,L1}_JUN{B,D} and EGR-1..3 in the cluster peaking 1 h after FGF2 exposure whereas these motifs were in clusters peaking 1 h or later in response to IL-1β. Our findings interrogating CAGE data demonstrate important differences in promoter usage and dynamics in SMC exposed to FGF2 or IL-1β.
- Published
- 2018
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