Nucleosome retention by histone chaperones and remodelers occludes pervasive DNA-protein binding

Felix Jonas, Matan Vidavski, Eli Benuck, Naama Barkai, Gilad Yaakov

Research output: Contribution to journalArticlepeer-review


DNA packaging within chromatin depends on histone chaperones and remodelers that form and position nucleosomes. Cells express multiple such chromatin regulators with overlapping in-vitro activities. Defining specific in-vivo activities requires monitoring histone dynamics during regulator depletion, which has been technically challenging. We have recently generated histone-exchange sensors in Saccharomyces cerevisiae, which we now use to define the contributions of 15 regulators to histone dynamics genome-wide. While replication-independent exchange in unperturbed cells maps to promoters, regulator depletions primarily affected gene bodies. Depletion of Spt6, Spt16 or Chd1 sharply increased nucleosome replacement sequentially at the beginning, middle or end of highly expressed gene bodies. They further triggered re-localization of chaperones to affected gene body regions, which compensated for nucleosome loss during transcription complex passage, but concurred with extensive TF binding in gene bodies. We provide a unified quantitative screen highlighting regulator roles in retaining nucleosome binding during transcription and preserving genomic packaging.
Original languageEnglish
Pages (from-to)8496-8513
Number of pages18
JournalNucleic acids research
Issue number16
Early online date26 Jul 2023
StatePublished - 8 Sep 2023


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