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of Regensburg"],"full_dataset_link":["https://www.ebi.ac.uk/ena/browser/view/PRJNA952236"],"scientific_name":["Plasmodium falciparum"],"tag":["pathogen:protozoan","pathogen"],"long_description":["The complex life cycle of the malaria parasite Plasmodium falciparum (Pf) and the accompanying transcriptional variation is only explained in part by stage-specific transcription factors like the ApiAP2 family, as these factors are strongly under-represented in Pf. Global and local changes in chromatin structure during life cycle progression suggest the contribution of epigenetic mechanisms as a critical mechanism for fine-tuning gene regulation during malaria parasite development. Pf chromatin is largely unexplored and is distinct from other eukaryotes in many respects. This is likely to accommodate the highly A/T-rich genome which averages over 90% in non-coding regions, the highest of any known eukaryote. We characterized PF3D7_1104200 (PfSnf2L), an ATPase-containing protein that is related to ISWI-type chromatin remodeling enzymes (CREs). Using a conditional knockout (KO) system, we demonstrate that PfSnf2L is essential for parasite development, globally controls just-in-time transcription regulation, and specifically represses gametocyte-specific gene expression. Characterization of the enzymatic activity in vitro, combined with mapping chromatin organization in vivo revealed that PfSnf2L shapes the promotor architecture of stage-specific genes through its nucleosome remodeling activity, thereby influencing gene activation and repression. The unique properties of the Plasmodium Snf2L allowed screening and identification of a specific inhibitor that specifically kills the parasite, phenocopies the loss of correct gene expression timing, and inhibits the formation of gametocytes. Overall design: Comparative time-resolved gene expression profiling analysis RNA-seq data of 3D7 parasites with PfSnf2L-KO induced vs. non induced, for two different induction timepoints. Comparative time-resolved gene expression profiling analysis of RNA-seq data of 3D7 parasites treated with a PfSnf2L-inhibitor vs. untreated."],"classification":["protozoa"],"repository":["ENA"],"description_synonyms":["single-organism biosynthetic process, Epigenetic, Effects, Longterm, Long Term Effects, Longterm Effect, Whole Transcriptome Shotgun Sequencing, Long-Term Effect, RNA-seq., Epigenetics, Long-Term, regulator, Effect, Long-Term Effects, Epigenomic, Long Term, Longterm Effects, multicellular organismal biosynthetic process"],"name_synonyms":["single-organism biosynthetic process, Epigenetic, Effects, Longterm, Long Term Effects, Longterm Effect, Whole Transcriptome Shotgun Sequencing, Long-Term Effect, RNA-seq., Epigenetics, Long-Term, regulator, Effect, Long-Term Effects, Epigenomic, Long Term, Longterm Effects, multicellular organismal biosynthetic process"],"additional_accession":[]},"is_claimable":false,"name":"PfSnf2L - an epigenetic regulator of just-in-time expression and gametocyte formation [RNA-seq]","description":"PfSnf2L - an epigenetic regulator of just-in-time expression and gametocyte formation [RNA-seq]","dates":{"last_updated":"2025-09-24","first_public":"2024-10-19"},"accession":"PRJNA952236","cross_references":{"GEO":["GSE228948"],"taxon":["5833"]}}