Abstract
The positioning of nucleosomes with respect to DNA plays an important role in regulating transcription. However, nucleosome mapping has been performed for only limited genomic regions in humans. We have generated genome-wide maps of nucleosome positions in both resting and activated human CD4+ T cells by direct sequencing of nucleosome ends using the Solexa high-throughput sequencing technique. We find that nucleosome phasing relative to the transcription start sites is directly correlated to RNA polymerase II (Pol II) binding. Furthermore, the first nucleosome downstream of a start site exhibits differential positioning in active and silent genes. TCR signaling induces extensive nucleosome reorganization in promoters and enhancers to allow transcriptional activation or repression. Our results suggest that H2A.Z-containing and modified nucleosomes are preferentially lost from the -1 nucleosome position. Our data provide a comprehensive view of the nucleosome landscape and its dynamic regulation in the human genome.
Original language | English |
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Pages (from-to) | 887-898 |
Number of pages | 12 |
Journal | Cell |
Volume | 132 |
Issue number | 5 |
DOIs | |
State | Published - 7 Mar 2008 |
Bibliographical note
Funding Information:The gene expression analysis using the Affymetrix microarrays was performed by the Gene Expression Core Facility of NHLBI. This work was supported by the Intramural Research Program of the NIH, National Heart, Lung and Blood Institute. We thank Weiqun Peng, Chongzhi Zang, and Raja Jothi for helpful comments and discussions.
Keywords
- DNA
- SIGNALING