Human Molecular Genetics Advance Access originally published online on August 28, 2009
Human Molecular Genetics 2009 18(23):4501-4512; doi:10.1093/hmg/ddp410
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Common fragile sites are characterized by histone hypoacetylation
1 Committee on Cancer Biology, 2 Department of Medicine, Section of Hematology/Oncology, 3 Department of Health Studies, The University of Chicago, Chicago, IL 60637, USA and 4 Department of Ecology and Evolution, Stony Brook University, Stony Brook, NY 11794, USA
* To whom correspondence should be addressed. 5841 S. Maryland Ave., MC 2115, Chicago, IL 60637, USA. Tel: +1 7737020795; Fax: +1 7737029311; Email: mlebeau{at}bsd.uchicago.edu
Received May 28, 2009; Accepted August 21, 2009
Common fragile sites (CFSs) represent large, highly unstable regions of the human genome. CFS sequences are sensitive to perturbation of replication; however, the molecular basis for the instability at CFSs is poorly understood. We hypothesized that a unique epigenetic pattern may underlie the unusual sensitivity of CFSs to replication interference. To examine this hypothesis, we analyzed chromatin modification patterns within the six human CFSs with the highest levels of breakage, and their surrounding non-fragile regions (NCFSs). Chromatin at most of the CFSs analyzed has significantly less histone acetylation than that of their surrounding NCFSs. Trichostatin A and/or 5-azadeoxycytidine treatment reduced chromosome breakage at CFSs. Furthermore, chromatin at the most commonly expressed CFS, the FRA3B, is more resistant to micrococcal nuclease than that of the flanking non-fragile sequences. These results demonstrate that histone hypoacetylation is a characteristic epigenetic pattern of CFSs, and chromatin within CFSs might be relatively more compact than that of the NCFSs, indicating a role for chromatin conformation in genomic instability at CFSs. Moreover, lack of histone acetylation at CFSs may contribute to the defective response to replication stress characteristic of CFSs, leading to the genetic instability characteristic of this regions.