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Two paralogous PHD finger proteins participate in Paramecium tetraurelia's natural genome editing

ABSTRACT: The unicellular eukaryote Paramecium tetraurelia contains functionally distinct nuclei: germline micronuclei (MICs) and a somatic macronucleus (MAC). During sexual reproduction, the MIC genome is reorganized into a new MAC genome and the old MAC is lost. Almost 45,000 unique Internal Eliminated Sequences (IESs) located throughout the genome require precise excision to guarantee a functional new MAC genome. Here, we characterize a pair of paralogous PHD finger proteins involved in DNA elimination. DevPF1, the early-expressed paralog, is present in only some of the gametic and post-zygotic nuclei during meiosis. Both DevPF1 and DevPF2 localize in the new developing MACs, where IESs excision occurs. In DevPF2 knockdown (KD), long IESs are preferentially retained and late-expressed small RNAs decrease; no length preference for retained IESs was observed in DevPF1-KD and development-specific small RNAs were abolished. The expression of at least two genes from the new MAC seems to be influenced by DevPF1- and DevPF2-KD. Thus, both PHD fingers are crucial for new MAC genome development, with distinct functionalities, potentially via regulation of non-coding and coding transcription in the MICs and new MACs.

INSTRUMENT(S): Orbitrap Fusion Lumos

ORGANISM(S): Paramecium Tetraurelia

SUBMITTER: Lilia Häußermann

LAB HEAD: Estienne Swart

PROVIDER: PXD046704 | Pride | 2024-08-30

REPOSITORIES: Pride

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			Action	DRS
	P2854_TMT16plex_5prc_ion.tsv	Tabular
	P2854_TMT16plex_5prc_peptide.tsv	Tabular
	P2854_TMT16plex_5prc_protein.tsv	Tabular
	P2854_TMT16plex_5prc_psm.tsv	Tabular
	P2854_TMT16plex_FragPipe_workflow.workflow	Other

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