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| Status |
Public on Jun 06, 2023 |
| Title |
Histone post translation modification differences during the Plasmodium schizont-to-ring transition [ChIP-seq] |
| Organisms |
Plasmodium berghei; Plasmodium falciparum |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Gene expression in malaria parasites is subject to various layers of regulation, including histone post-translational modifications (PTMs). Gene regulatory mechanisms have been extensively studied during the main developmental stages of Plasmodium parasites inside erythrocytes, from the ring stage following invasion to the schizont stage leading up to egress. However, gene regulation in merozoites that mediate the transition from one host cell to the next is an understudied area of parasite biology. Here, we sought to characterize gene expression and the corresponding histone PTM landscape during this stage of the parasite lifecycle through RNA-seq and ChIP-seq on P. falciparum blood stage schizonts, merozoites, and rings, as well as P. berghei liver stage merozoites. In both hepatic and erythrocytic merozoites, we identified a subset of genes with a unique histone PTM profile characterized by depletion of H3K4me3 in their promoter regions. These genes were upregulated in merozoites and rings, had roles in protein export, translation, and host cell remodeling, and shared a DNA motif. These results indicate that similar regulatory mechanisms may underlie merozoite formation in the liver and blood stages. We also observed that H3K4me2 was deposited in gene bodies of gene families encoding variant surface antigens in erythrocytic merozoites, which may facilitate switching of gene expression between different members of these families. Finally, H3K18me and H2K27me were uncoupled from gene expression and were enriched around the centromeres in erythrocytic merozoites, suggesting roles in the maintenance of chromosomal organization during schizogony. Together, our results demonstrate that extensive changes in gene expression and histone landscape occur during the schizont-to-ring transition to facilitate productive erythrocyte infection. The dynamic remodeling of the transcriptional program in hepatic and erythrocytic merozoites makes this stage attractive as a target for novel anti-malarial approaches that may have activity against both the liver and blood stages.
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| Overall design |
Chromatin immunoprecipitation DNA-sequencing (ChIP-seq) for histone PTMs in Plasmodium falciparum schizonts, merozoites, and rings, and Plasmodium berghei hepatic merozoites.
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| Contributor(s) |
Reers AB, Bunnik E |
| Citation(s) |
37322481 |
| |
| Submission date |
Oct 13, 2022 |
| Last update date |
Jun 20, 2023 |
| Contact name |
Evelien M Bunnik |
| Organization name |
University of Texas Health Science Center at San Antonio
|
| Department |
Microbiology, Immunology, and Molecular Genetics
|
| Street address |
7703 Floyd Curl Dr.
|
| City |
San Antonio |
| State/province |
TX |
| ZIP/Postal code |
78229 |
| Country |
USA |
| |
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| Platforms (3) |
| GPL21298 |
Illumina NextSeq 500 (Plasmodium falciparum) |
| GPL23133 |
Illumina NextSeq 500 (Plasmodium berghei) |
| GPL32744 |
Illumina HiSeq 3000 (Plasmodium falciparum) |
|
| Samples (28)
|
| GSM6636901 |
ChIP-seq of Plasmodium blood stages: SZ H3K27ac |
| GSM6636902 |
ChIP-seq of Plasmodium blood stages: MZ H3K27ac |
| GSM6636903 |
ChIP-seq of Plasmodium blood stages: R H3K27ac |
| GSM6636904 |
ChIP-seq of Plasmodium blood stages: SZ H3K9ac |
| GSM6636905 |
ChIP-seq of Plasmodium blood stages: MZ H3K9ac |
| GSM6636906 |
ChIP-seq of Plasmodium blood stages: R H3K9ac |
| GSM6636907 |
ChIP-seq of Plasmodium blood stages: SZ H3K4me3 |
| GSM6636908 |
ChIP-seq of Plasmodium blood stages: MZ H3K4me3 rep1 |
| GSM6636909 |
ChIP-seq of Plasmodium blood stages: MZ H3K4me3 rep2 |
| GSM6636910 |
ChIP-seq of Plasmodium blood stages: R H3K4me3 |
| GSM6636911 |
ChIP-seq of Plasmodium blood stages: SZ H3K4me2 |
| GSM6636912 |
ChIP-seq of Plasmodium blood stages: MZ H3K4me2 |
| GSM6636913 |
ChIP-seq of Plasmodium blood stages: R H3K4me2 |
| GSM6636914 |
ChIP-seq of Plasmodium blood stages: SZ H3K4me |
| GSM6636915 |
ChIP-seq of Plasmodium blood stages: MZ H3K4me |
| GSM6636916 |
ChIP-seq of Plasmodium blood stages: R H3K4me |
| GSM6636917 |
ChIP-seq of Plasmodium blood stages: SZ H3K18me |
| GSM6636918 |
ChIP-seq of Plasmodium blood stages: MZ H3K18me |
| GSM6636919 |
ChIP-seq of Plasmodium blood stages: SZ H3K27me |
| GSM6636920 |
ChIP-seq of Plasmodium blood stages: MZ H3K27me |
| GSM6636921 |
ChIP-seq of Plasmodium blood stages: SZ input |
| GSM6636922 |
ChIP-seq of Plasmodium blood stages: MZ input |
| GSM6636923 |
ChIP-seq of Plasmodium blood stages: R input |
| GSM6636924 |
ChIP-seq of Plasmodium blood stages: SZ no antibody control |
| GSM6636925 |
ChIP-seq of Plasmodium blood stages: MZ no antibody control |
| GSM6636926 |
ChIP-seq of Plasmodium berghei hepatic merozoites: H3K4me3 |
| GSM6636927 |
ChIP-seq of Plasmodium berghei hepatic merozoites: H3K9ac |
| GSM6636928 |
ChIP-seq of Plasmodium berghei hepatic merozoites: input |
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| This SubSeries is part of SuperSeries: |
| GSE215429 |
Histone post translation modification and Transcriptional differences during the Plasmodium schizont-to-ring transition |
|
| Relations |
| BioProject |
PRJNA890256 |
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