Genome-wide localization of histone variants in Toxoplasma gondii implicates variant exchange in stage-specific gene expression.


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Authors
Nardelli, Sheila C 
Silmon de Monerri, Natalie C 
Vanagas, Laura 
Wang, Xiaonan 
Tampaki, Zoi 
Abstract

BACKGROUND: Toxoplasma gondii is a protozoan parasite that differentiates from acute tachyzoite stages to latent bradyzoite forms in response to environmental cues that modify the epigenome. We studied the distribution of the histone variants CenH3, H3.3, H2A.X, H2A.Z and H2B.Z, by genome-wide chromatin immunoprecipitation to understand the role of variant histones in developmental transitions of T. gondii parasites. RESULTS: H3.3 and H2A.X were detected in telomere and telomere associated sequences, whereas H3.3, H2A.X and CenH3 were enriched in centromeres. Histones H2A.Z and H2B.Z colocalize with the transcriptional activation mark H3K4me3 in promoter regions surrounding the nucleosome-free region upstream of the transcription start site. The H2B.Z/H2A.Z histone pair also localizes to the gene bodies of genes that are silent but poised for activation, including bradyzoite stage-specific genes. The majority of H2A.X and H2A.Z/H2B.Z loci do not overlap, consistent with variant histones demarcating specific functional regions of chromatin. The extent of enrichment of H2A.Z/H2B.Z (and H3.3 and H2A.X) within the entire gene (5'UTR and gene body) reflects the timing of gene expression during the cell cycle, suggesting that dynamic turnover of H2B.Z/H2A.Z occurs during the tachyzoite cell cycle. Thus, the distribution of the variant histone H2A.Z/H2B.Z dimer defines active and developmentally silenced regions of the T. gondii epigenome including genes that are poised for expression. CONCLUSIONS: Histone variants mark functional regions of parasite genomes with the dynamic placement of the H2A.Z/H2B.Z dimer implicated as an evolutionarily conserved regulator of parasite and eukaryotic differentiation.

Description
Keywords
Research Article, Histones, Parasites, Toxoplasma, ChIP-seq, Apicomplexa, Epigenetic, Transcriptional regulation
Journal Title
BMC Genomics
Conference Name
Journal ISSN
1471-2164
1471-2164
Volume Title
23
Publisher
Springer Science and Business Media LLC
Sponsorship
National Institutes of Health (R01AI129807, R01AI116496)
MINCyT (PICT 2015 1288, PICT 2018 2434)