<i>C. elegans</i>nuclear RNAi factor SET-32 deposits the transgenerational heritable histone modification, H3K23me3

Schwartz-Orbach, Lianna; Zhang, Chenzhen; Amin, Richa; Kaur, Diljeet; Zhebrun, Anna; Ni, Julie Zhouli; Gu, Sam Guoping

doi:10.1101/2020.02.19.956656

Cited by 2 publications

(3 citation statements)

References 52 publications

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“…We speculate that the decrease reflects a reduction in transcription initiation at the locus. The nuclear RNAi machinery deposits chromatin marks at the locus predicted to decrease transcription (Burkhart et al, 2011;Burton et al, 2011;Gu et al, 2012;Mao et al, 2015;Schwartz-Orbach et al, 2020). We note, however, that despite the apparent decrease in transcriptional output, we continued to observe transcripts in perinuclear nuage even in F1 animals, indicating that a baseline level of transcription and export is maintained at the silenced locus.…”

Section: Pathway 1: Rde-1 and Mut-16 Dependent Amplification Of Secondary Srnas Induces Rna Degradation In The Cytoplasmmentioning

confidence: 57%

Two parallel sRNA amplification cycles contribute to RNAi inheritance in C. elegans

Ouyang

Zhang

Seydoux

2021

Preprint

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RNA-mediated interference (RNAi) is a conserved mechanism that uses small RNAs (sRNAs) to tune gene expression. In C. elegans, exposure to dsRNA induces the production of gene-specific sRNAs that are propagated to progeny not exposed to the dsRNA trigger. We present evidence that RNAi inheritance is mediated by two parallel sRNA amplification loops. The first loop, dependent on the nuclear Argonaute HRDE-1, targets nascent transcripts, and reduces but does not eliminate productive transcription at the locus. The second loop, dependent on the conserved helicase ZNFX-1, targets mature transcripts and concentrates them in perinuclear condensates (nuage). Each amplification loop generates a distinct class of sRNAs, with the ZNFX-1 loop responsible for the bulk of sRNA production on the region targeted by the trigger. By independently targeting nascent and mature transcripts, the HRDE-1 and ZNFX-1 loops ensure maximum silencing in progeny not exposed to the trigger.

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Section: Pathway 1: Rde-1 and Mut-16 Dependent Amplification Of Secondary Srnas Induces Rna Degradation In The Cytoplasmmentioning

confidence: 57%

Two parallel sRNA amplification cycles contribute to RNAi inheritance in C. elegans

Ouyang

Zhang

Seydoux

2021

Preprint

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“…• H3K9me3 data from IGN samples refer to GSE232141 [45], whereas data from glp-1 young adult mutants refer to GSM3141347 [46];…”

Section: Datasets and Genome Versionsmentioning

confidence: 99%

“…The genomic portion of the chromosome, and the annotated genes, are visualized. H) Transcript abundance of tissue-specific genes [46] in somatic data.…”

Section: Supplemental Figure 3 Chromatin States Of Classes Of Germlin...mentioning

confidence: 99%

Distribution and dynamics of chromatin states in theC. elegansgerm line

Mazzetto

Gonzalez

Sánchez

et al. 2023

Preprint

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Chromatin organization in the C. elegans germ line is tightly regulated and critical for germ cell differentiation. While certain germline epigenetic regulatory mechanisms have been identified, how they influence chromatin structure and ultimately gene expression remain unclear, in part because most genomic studies have focused on data collected from whole worms. We therefore analyzed publicly available histone modification and chromatin accessibility data from isolated undifferentiated germ nuclei to define chromatin states. We then correlated these states with overall transcript abundance, spatio-temporal expression patterns, and the function of small RNA pathways. Because the essential role of the germ line is to transmit genetic information to the next generation and establish gene expression in the early embryo, we compared epigenetic and transcriptomic profiles from undifferentiated germ cells, oocytes, and embryos to define the epigenetic changes during this developmental transition. The active histone modification H3K4me3 exhibits particularly dynamic remodeling as germ cells differentiate into oocytes. Our results highlight the dynamism of the chromatin landscape in germ cells, and provide a resource for future investigation into epigenetic regulatory mechanisms.

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C. elegansnuclear RNAi factor SET-32 deposits the transgenerational heritable histone modification, H3K23me3

Cited by 2 publications

References 52 publications

Two parallel sRNA amplification cycles contribute to RNAi inheritance in C. elegans

Two parallel sRNA amplification cycles contribute to RNAi inheritance in C. elegans

Distribution and dynamics of chromatin states in theC. elegansgerm line

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