Re-evaluating the Localization of Sperm-Retained Histones Revealed the Modification-Dependent Accumulation in Specific Genome Regions | Zendy

Kosuke Yamaguchi | Zendy; Masashi Hada | Zendy; Yuko Fukuda | Zendy; Erina Inoue | Zendy; Yoshinori Makino | Zendy; Yuki Katou | Zendy; Katsuhiko Shirahige | Zendy; Yuki Okada | Zendy

Open Access

Re-evaluating the Localization of Sperm-Retained Histones Revealed the Modification-Dependent Accumulation in Specific Genome Regions

Author(s) -

Kosuke Yamaguchi,

Masashi Hada,

Yuko Fukuda,

Erina Inoue,

Yoshinori Makino,

Yuki Katou,

Katsuhiko Shirahige,

Yuki Okada

Publication year - 2018

Publication title -

cell reports

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 6.264

H-Index - 154

eISSN - 2639-1856

pISSN - 2211-1247

DOI - 10.1016/j.celrep.2018.05.094

Subject(s) - micrococcal nuclease , chromatin , histone , chromatin immunoprecipitation , sperm , h3k4me3 , protamine , biology , histone modifying enzymes , epigenomics , genetics , gene , microbiology and biotechnology , nucleosome , promoter , dna methylation , gene expression , biochemistry , heparin

The question of whether retained histones in the sperm genome localize to gene-coding regions or gene deserts has been debated for years. Previous contradictory observations are likely caused by the non-uniform sensitivity of sperm chromatin to micrococcal nuclease (MNase) digestion. Sperm chromatin has a highly condensed but heterogeneous structure and is composed of 90%∼99% protamines and 1%∼10% histones. In this study, we utilized nucleoplasmin (NPM) to improve the solubility of sperm chromatin by removing protamines in vitro. NPM treatment efficiently solubilized histones while maintaining quality and quantity. Chromatin immunoprecipitation sequencing (ChIP-seq) analyses using NPM-treated sperm demonstrated the predominant localization of H4 to distal intergenic regions, whereas modified histones exhibited a modification-dependent preferential enrichment in specific genomic elements, such as H3K4me3 at CpG-rich promoters and H3K9me3 in satellite repeats, respectively, implying the existence of machinery protecting modified histones from eviction.

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