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Series GSE39702 Query DataSets for GSE39702
Status Public on Mar 05, 2013
Title Histone variant, H2B.Z demarcates the AT-rich promoter regions of the Plasmodium falciparum genome
Organism Plasmodium falciparum 3D7
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Histone variants are key components of the epigenetic code and evolved to perform specific functions in transcriptional regulation, DNA repair, chromosome segregation and other fundamental processes. H2B.Z is a rare, apicomplexan-specific variant of histone H2B. Here we show that in Plasmodium falciparum H2B.Z localises to euchromatic intergenic regions throughout intraerythrocytic development and together with H2A.Z forms a double-variant nucleosomes subtype. These nucleosomes are enriched in promoters over 3’ intergenic regions and their occupancy generally correlates with the strength of the promoter, but not with its temporal activity. Remarkably, H2B.Z occupancy levels exhibit a clear correlation with the base-composition of the underlying DNA, raising the intriguing possibility that the extreme AT-content of the intergenic regions within the Plasmodium genome might be instructive for histone variant deposition. In summary, our data shows that the H2A.Z/H2B.Z double-variant nucleosome demarcates putative regulatory regions of the P. falciparum epigenome and likely provides a scaffold for dynamic regulation of gene expression in this deadly human pathogen.
Overall design Genome-wide localization of H2B.Z has been studied at three stages of intraerythrocytic development by Illumina sequencing of chromatin-immunoprecipitated and input DNA.
Contributor(s) Hoeijmakers WA, Salcedo-Amaya AM, Smits AH, Françoijs K, Treeck M, Gilberger T, Stunnenberg HG, Bartfai R
Citation(s) 23320541
Submission date Jul 27, 2012
Last update date May 15, 2019
Contact name H.G. Stunnenberg
Phone +31-24-3610520
Organization name Radboud University
Department Department of Molecular Biology (274)
Street address Geert Grooteplein 28
City Nijmegen
ZIP/Postal code 6525 GA
Country USA
Platforms (1)
GPL15857 Illumina Genome Analyzer IIx (Plasmodium falciparum 3D7)
Samples (6)
GSM977951 Ring H2B.Z ChIP-seq
GSM977952 Trophozoite H2B.Z ChIP-seq
GSM977953 Schizont H2B.Z ChIP-seq
BioProject PRJNA171532
SRA SRP014595

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Supplementary file Size Download File type/resource
GSE39702_RAW.tar 80.1 Mb (http)(custom) TAR (of GFF)
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Raw data are available in SRA
Processed data provided as supplementary file

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