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PLoS Genet. 2015 Jan 8;11(1):e1004831. doi: 10.1371/journal.pgen.1004831. eCollection 2015 Jan.

The global regulatory architecture of transcription during the Caulobacter cell cycle.

Author information

1
Department of Developmental Biology, Stanford University School of Medicine, Stanford, California, United States of America.
2
Department of Computer Science, Stanford University, Stanford, California, United States of America.
3
Department of Electrical Engineering, Stanford University, Stanford, California, United States of America.

Abstract

Each Caulobacter cell cycle involves differentiation and an asymmetric cell division driven by a cyclical regulatory circuit comprised of four transcription factors (TFs) and a DNA methyltransferase. Using a modified global 5' RACE protocol, we globally mapped transcription start sites (TSSs) at base-pair resolution, measured their transcription levels at multiple times in the cell cycle, and identified their transcription factor binding sites. Out of 2726 TSSs, 586 were shown to be cell cycle-regulated and we identified 529 binding sites for the cell cycle master regulators. Twenty-three percent of the cell cycle-regulated promoters were found to be under the combinatorial control of two or more of the global regulators. Previously unknown features of the core cell cycle circuit were identified, including 107 antisense TSSs which exhibit cell cycle-control, and 241 genes with multiple TSSs whose transcription levels often exhibited different cell cycle timing. Cumulatively, this study uncovered novel new layers of transcriptional regulation mediating the bacterial cell cycle.

PMID:
25569173
PMCID:
PMC4287350
DOI:
10.1371/journal.pgen.1004831
[Indexed for MEDLINE]
Free PMC Article

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