title: Evidence for gene-specific rather than transcription rate-dependent histone H3 exchange in yeast coding regions.
abstract: In eukaryotic organisms, histones are dynamically exchanged independently of DNA replication. Recent reports show that different coding regions differ in their amount of replication-independent histone H3 exchange. The current paradigm is that this histone exchange variability among coding regions is a consequence of transcription rate. Here we put forward the idea that this variability might be also modulated in a gene-specific manner independently of transcription rate. To that end, we study transcription rate-independent replication-independent coding region histone H3 exchange. We term such events relative exchange. Our genome-wide analysis shows conclusively that in yeast, relative exchange is a novel consistent feature of coding regions. Outside of replication, each coding region has a characteristic pattern of histone H3 exchange that is either higher or lower than what was expected by its RNAPII transcription rate alone. Histone H3 exchange in coding regions might be a way to add or remove certain histone modifications that are important for transcription elongation. Therefore, our results that gene-specific coding region histone H3 exchange is decoupled from transcription rate might hint at a new epigenetic mechanism of transcription regulation.
authors.affiliation: Computational Molecular Biology Department, Max Planck Institute for Molecular Genetics, Berlin, Germany. gat-viks@molgen.mpg.de
authors.forename: Irit
authors.initials: I
authors.lastname: Gat-Viks
authors.forename: Martin
authors.initials: M
authors.lastname: Vingron
mesh_terms: D018797:Cell Cycle Proteins; D042002:Chromatin Assembly and Disassembly / Q000235:genetics*; D004260:DNA Repair / Q000502:physiology; D004261:DNA Replication / Q000502:physiology; D044127:Epigenesis, Genetic / Q000502:physiology; D016681:Genome, Fungal; D006657:Histones / Q000235:genetics / Q000378:metabolism*; D018832:Molecular Chaperones; D016366:Open Reading Frames; D011499:Protein Processing, Post-Translational / Q000235:genetics; D012441:Saccharomyces cerevisiae / Q000235:genetics* / Q000378:metabolism*; D029701:Saccharomyces cerevisiae Proteins; D014158:Transcription, Genetic
chemical_list: C109731:ASF1 protein, S cerevisiae; D018797:Cell Cycle Proteins; D006657:Histones; D018832:Molecular Chaperones; D029701:Saccharomyces cerevisiae Proteins