Chromatin-Specific Regulation of Mammalian rDNA Transcription by Clustered TTF-I Binding Sites

Sarah D. Diermeier, Attila Németh, Michael Rehli, Ingrid Grummt, Gernot Längst

Research output: Contribution to journalArticle

16 Citations (Scopus)

Abstract

Enhancers and promoters often contain multiple binding sites for the same transcription factor, suggesting that homotypic clustering of binding sites may serve a role in transcription regulation. Here we show that clustering of binding sites for the transcription termination factor TTF-I downstream of the pre-rRNA coding region specifies transcription termination, increases the efficiency of transcription initiation and affects the three-dimensional structure of rRNA genes. On chromatin templates, but not on free rDNA, clustered binding sites promote cooperative binding of TTF-I, loading TTF-I to the downstream terminators before it binds to the rDNA promoter. Interaction of TTF-I with target sites upstream and downstream of the rDNA transcription unit connects these distal DNA elements by forming a chromatin loop between the rDNA promoter and the terminators. The results imply that clustered binding sites increase the binding affinity of transcription factors in chromatin, thus influencing the timing and strength of DNA-dependent processes.

Original languageEnglish (US)
Article numbere1003786
JournalPLoS genetics
Volume9
Issue number9
DOIs
StatePublished - Sep 1 2013

Fingerprint

Ribosomal DNA
Chromatin
chromatin
binding sites
transcription (genetics)
Binding Sites
DNA
Transcription Factors
transcription factors
promoter regions
Cluster Analysis
ribosomal RNA
gene
RNA Precursors
rRNA Genes
cooperatives
regulation
genes

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Molecular Biology
  • Genetics
  • Genetics(clinical)
  • Cancer Research

Cite this

Chromatin-Specific Regulation of Mammalian rDNA Transcription by Clustered TTF-I Binding Sites. / Diermeier, Sarah D.; Németh, Attila; Rehli, Michael; Grummt, Ingrid; Längst, Gernot.

In: PLoS genetics, Vol. 9, No. 9, e1003786, 01.09.2013.

Research output: Contribution to journalArticle

Diermeier, Sarah D. ; Németh, Attila ; Rehli, Michael ; Grummt, Ingrid ; Längst, Gernot. / Chromatin-Specific Regulation of Mammalian rDNA Transcription by Clustered TTF-I Binding Sites. In: PLoS genetics. 2013 ; Vol. 9, No. 9.
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