Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells

Stefan Schoenfelder, Tom Sexton, Lyubomira Chakalova, Nathan F. Cope, Alice Horton, Simon Andrews, Sreenivasulu Kurukuti, Jennifer A. Mitchell, David Umlauf, Daniela S. Dimitrova, Christopher H. Eskiw, Yanquan Luo, Chia Lin Wei, Yijun Ruan, James J. Bieker, Peter Fraser

Research output: Contribution to journalArticlepeer-review

564 Scopus citations

Abstract

The discovery of interchromosomal interactions in higher eukaryotes points to a functional interplay between genome architecture and gene expression, challenging the view of transcription as a one-dimensional process. However, the extent of interchromosomal interactions and the underlying mechanisms are unknown. Here we present the first genome-wide analysis of transcriptional interactions using the mouse globin genes in erythroid tissues. Our results show that the active globin genes associate with hundreds of other transcribed genes, revealing extensive and preferential intra-and interchromosomal transcription interactomes. We show that the transcription factor Klf1 mediates preferential co-associations of Klf1-regulated genes at a limited number of specialized transcription factories. Our results establish a new gene expression paradigm, implying that active co-regulated genes and their regulatory factors cooperate to create specialized nuclear hot spots optimized for efficient and coordinated transcriptional control.

Original languageEnglish
Pages (from-to)53-61
Number of pages9
JournalNature Genetics
Volume42
Issue number1
DOIs
StatePublished - Jan 2010

Fingerprint

Dive into the research topics of 'Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells'. Together they form a unique fingerprint.

Cite this