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| Status |
Public on Jun 24, 2020 |
| Title |
Actin-related protein Arp4 regulates euchromatic gene expression and development by H2A.Z deposition in blood-stage Plasmodium falciparum [H2A.Z ChIP-seq] |
| Organism |
Plasmodium falciparum |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Chromatin structure is a basal epigenetic mechanism that determines cellular fate by organizing the dynamic gene expression during the cell development and proliferation. The nuclear members of the evolutionarily conserved actin-related protein (ARPs) superfamily are major components of nucleosome remodelingcomplexes in the nucleus. In the human malaria parasites, Plasmodium falciparum, comparative genome analysis reveals that two canonical actins and three orthologues of ARPs including PfArp1, PfArp4, and PfArp6 are encoded in the genome of this parasite. However, little is known about the biological functions of the two nuclear PfArp4 and PfArp6 proteins. Here, by Pfarp4 gene knockdown and comparative transcriptome analysis, we uncovered that PfArp4 correlated positively with the dynamic expression of eukaryotic genes. Genome-wide distribution analysis by ChIP-seq revealed that PfArp4 protein colocalized with the histone 2A variant H2A.Z and euchromatic marker H3K9ac in the intergenic regions. Inducible downregulation of PfArp4 resulted in the depletion of H2A.Z and lower H3K9ac level at the upstream regions of eukaryotic genes, thereby repressing the transcriptional abundances. Moreover, we found a significant enrichment of PfArp4 at the flanking sites of centromeres, which likely shapes the H2A.Z-enriched centromeric chromatin microenvironment as a boundary marker. PfArp4 depletion triggered loss of H2A.Z at the entire centromere regions, and arrested the blood-stage development probably through interference with the schizogony process. Finally, PfArp6 was detected as an interactor of PfArp4 in the nucleus. Taken together, our finding indicates that the nuclear PfArp4/6regulates the cell cycles through controlling H2A.Z deposition and centromere biology, which will contribute to understanding the complex epigenetic regulation of gene expression and development of the malaria parasites.
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| Overall design |
Genome-wide location analysis (ChIP-Seq) of H2A.Z in the P. falciparum for wt ,wt_GlcN+,PfArp4 and PfArp4_GlcN+ parasites
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| Contributor(s) |
Liu H, Cui X |
| Citation(s) |
32552779 |
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| Submission date |
Jan 17, 2020 |
| Last update date |
Jun 24, 2020 |
| Contact name |
Xinyu Cui |
| E-mail(s) |
1810992@tongji.edu.cn
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| Phone |
19921890601
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| Organization name |
Tongji University
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| Street address |
Siping road
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| City |
Shanghai |
| ZIP/Postal code |
200082 |
| Country |
China |
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| Platforms (1) |
| GPL26835 |
HiSeq X Ten (Plasmodium falciparum) |
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| Samples (4)
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| This SubSeries is part of SuperSeries: |
| GSE143902 |
Actin-related protein Arp4 regulates euchromatic gene expression and development by H2A.Z deposition in blood-stage Plasmodium falciparum |
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| Relations |
| BioProject |
PRJNA602005 |
| SRA |
SRP242643 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE143899_RAW.tar |
22.9 Mb |
(http)(custom) |
TAR (of BW) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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