TY - JOUR
T1 - Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells
AU - Schoenfelder, Stefan
AU - Sexton, Tom
AU - Chakalova, Lyubomira
AU - Cope, Nathan F.
AU - Horton, Alice
AU - Andrews, Simon
AU - Kurukuti, Sreenivasulu
AU - Mitchell, Jennifer A.
AU - Umlauf, David
AU - Dimitrova, Daniela S.
AU - Eskiw, Christopher H.
AU - Luo, Yanquan
AU - Wei, Chia Lin
AU - Ruan, Yijun
AU - Bieker, James J.
AU - Fraser, Peter
N1 - Funding Information:
We thank all members of the Laboratory of Chromatin and Gene Expression for their help and advice, and also thank C. Osborne and P. Schoenfelder for critical reading of the manuscript, A. Segonds-Pichon for help with the statistical analyses, and L. Mercer and M. Anderton for handling mouse strains. We are indebted to J. Cunningham, T. Abramova and V. Jansen for providing tissue from Klf1−/− mice. D.U. is recipient of an European Molecular Biology Organisation long-term fellowship. P.F. is a Senior Fellow of the Medical Research Council. This work was supported by the Medical Research Council and the Biotechnology and Biological Sciences Research Council, UK.
PY - 2010/1
Y1 - 2010/1
N2 - 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.
AB - 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.
UR - https://www.scopus.com/pages/publications/73349090560
U2 - 10.1038/ng.496
DO - 10.1038/ng.496
M3 - Article
C2 - 20010836
AN - SCOPUS:73349090560
SN - 1061-4036
VL - 42
SP - 53
EP - 61
JO - Nature Genetics
JF - Nature Genetics
IS - 1
ER -