Transcription initiation platforms and GTF recruitment at tissue-specific enhancers and promoters

Frederic Koch, Romain Fenouil, Marta Gut, Pierre Cauchy, Thomas K. Albert, Joaquin Zacarias-Cabeza, Salvatore Spicuglia, Albane Lamy De La Chapelle, Martin Heidemann, Corinna Hintermair, Dirk Eick, Ivo Gut, Pierre Ferrier, Jean Christophe Andrau

Research output: Contribution to journalArticlepeer-review

253 Scopus citations

Abstract

Recent work has shown that RNA polymerase (Pol) II can be recruited to and transcribe distal regulatory regions. Here we analyzed transcription initiation and elongation through genome-wide localization of Pol II, general transcription factors (GTFs) and active chromatin in developing T cells. We show that Pol II and GTFs are recruited to known T cell-specific enhancers. We extend this observation to many new putative enhancers, a majority of which can be transcribed with or without polyadenylation. Importantly, we also identify genomic features called transcriptional initiation platforms (TIPs) that are characterized by large areas of Pol II and GTF recruitment at promoters, intergenic and intragenic regions. TIPs show variable widths (0.4-10 kb) and correlate with high CpG content and increased tissue specificity at promoters. Finally, we also report differential recruitment of TFIID and other GTFs at promoters and enhancers. Overall, we propose that TIPs represent important new regulatory hallmarks of the genome.

Original languageEnglish
Pages (from-to)956-963
Number of pages8
JournalNature Structural and Molecular Biology
Volume18
Issue number8
DOIs
StatePublished - Aug 2011
Externally publishedYes

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