[HTML][HTML] Genome-wide mapping of Myc binding and gene regulation in serum-stimulated fibroblasts

D Perna, G Faga, A Verrecchia, MM Gorski, I Barozzi… - Oncogene, 2012 - nature.com
D Perna, G Faga, A Verrecchia, MM Gorski, I Barozzi, V Narang, J Khng, KC Lim, WK Sung
Oncogene, 2012nature.com
The transition from quiescence to proliferation is a key regulatory step that can be induced
by serum stimulation in cultured fibroblasts. The transcription factor Myc is directly induced
by serum mitogens and drives a secondary gene expression program that remains largely
unknown. Using mRNA profiling, we identify close to 300 Myc-dependent serum response
(MDSR) genes, which are induced by serum in a Myc-dependent manner in mouse
fibroblasts. Mapping of genomic Myc-binding sites by ChIP-seq technology revealed that …
Abstract
The transition from quiescence to proliferation is a key regulatory step that can be induced by serum stimulation in cultured fibroblasts. The transcription factor Myc is directly induced by serum mitogens and drives a secondary gene expression program that remains largely unknown. Using mRNA profiling, we identify close to 300 Myc-dependent serum response (MDSR) genes, which are induced by serum in a Myc-dependent manner in mouse fibroblasts. Mapping of genomic Myc-binding sites by ChIP-seq technology revealed that most MDSR genes were directly targeted by Myc, but represented a minor fraction (5.5%) of all Myc-bound promoters (which were 22.4% of all promoters). Other target loci were either induced by serum in a Myc-independent manner, were not significantly regulated or were negatively regulated. MDSR gene products were involved in a variety of processes, including nucleotide biosynthesis, ribosome biogenesis, DNA replication and RNA control. Of the 29 MDSR genes targeted by RNA interference, three showed a requirement for cell-cycle entry upon serum stimulation and 11 for long-term proliferation and/or survival. Hence, proper coordination of key regulatory and biosynthetic pathways following mitogenic stimulation relies upon the concerted regulation of multiple Myc-dependent genes.
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