Department of Biochemistry and Molecular Pharmacology
DNA-Binding Proteins; Saccharomyces cerevisiae Proteins; Histones
Biochemistry, Biophysics, and Structural Biology | Genetics and Genomics
Chd proteins are ATP-dependent chromatin remodeling enzymes implicated in biological functions from transcriptional elongation to control of pluripotency. Previous studies of the Chd1 subclass of these proteins have implicated them in diverse roles in gene expression including functions during initiation, elongation, and termination. Furthermore, some evidence has suggested a role for Chd1 in replication-independent histone exchange or assembly. Here, we examine roles of Chd1 in replication-independent dynamics of histone H3 in both Drosophila and yeast. We find evidence of a role for Chd1 in H3 dynamics in both organisms. Using genome-wide ChIP-on-chip analysis, we find that Chd1 influences histone turnover at the 5' and 3' ends of genes, accelerating H3 replacement at the 5' ends of genes while protecting the 3' ends of genes from excessive H3 turnover. Although consistent with a direct role for Chd1 in exchange, these results may indicate that Chd1 stabilizes nucleosomes perturbed by transcription. Curiously, we observe a strong effect of gene length on Chd1's effects on H3 turnover. Finally, we show that Chd1 also affects histone modification patterns over genes, likely as a consequence of its effects on histone replacement. Taken together, our results emphasize a role for Chd1 in histone replacement in both budding yeast and Drosophila melanogaster, and surprisingly they show that the major effects of Chd1 on turnover occur at the 3' ends of genes.
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Copyright: © 2012 Radman-Livaja et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
DOI of Published Version
Radman-Livaja M, Quan TK, Valenzuela L, Armstrong JA, van Welsem T, et al. (2012) A Key Role for Chd1 in Histone H3 Dynamics at the 3′ Ends of Long Genes in Yeast. PLoS Genet 8(7): e1002811. doi:10.1371/journal.pgen.1002811. Link to article on publisher's site
Radman-Livaja, Marta; Quan, Tiffani K.; Valenzuela, Lourdes; Armstrong, Jennifer A.; van Welsem, Tibor; Kim, Tae Soo; Lee, Laura J.; Buratowski, Stephen; van Leeuwen, Fred; Rando, Oliver J.; and Hartzog, Grant A., "A key role for chd1 in histone h3 dynamics at the 3' ends of long genes in yeast" (2012). Open Access Articles. 2331.