ArticleProceedings of the National Academy of Sciences of the United States of America2015
The frequency natural antisense transcript first promotes, then represses, frequency gene expression via facultative heterochromatin.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed, 45 citations in OpenAlex.
- Human testis-specific TTRP regulates circadian clock as an evolutionarily young natural antisense transcript of PER2.Nature communications · 2026Article
- Trends in circadian rhythms research in fungi since the millenium.Npj biological timing and sleep · 2026Review
- Identification and Functions of lncRNAs in Fungi.Non-coding RNA · 2025Review
- Paf1C regulates the Neurospora circadian clock by promoting the transcription elongation of frequency.PLoS genetics · 2025Article
- Impacts of the feedback loop between sense-antisense RNAs in regulating circadian rhythms.NPJ systems biology and applications · 2024Article
- Antisense Transcription of theJournal of biological rhythms · 2023Article
- New insights into genome annotation in Podospora anserina through re-exploiting multiple RNA-seq data.BMC genomics · 2022Article
- Timing without coding: How do long non-coding RNAs regulate circadian rhythms?Seminars in cell & developmental biology · 2022Review
- lncRsp1, a long noncoding RNA, influences Fgsp1 expression and sexual reproduction in Fusarium graminearum.Molecular plant pathology · 2022Article
- Histone H3 lysine 4 methyltransferase is required for facultative heterochromatin at specific loci.BMC genomics · 2019Article
- BMAL1 associates with chromosome ends to control rhythms in TERRA and telomeric heterochromatin.PloS one · 2019Article
- Long non-coding RNAs have age-dependent diurnal expression that coincides with age-related changes in genome-wide facultative heterochromatin.BMC genomics · 2018Article
- Article
- Review
- The coding and noncoding transcriptome of Neurospora crassa.BMC genomics · 2017Article
- Natural antisense transcripts drive a regulatory cascade controlling c-MYC transcription.RNA biology · 2017Article
- Transcriptome analysis of smut fungi reveals widespread intergenic transcription and conserved antisense transcript expression.BMC genomics · 2017Article
- Making Time: Conservation of Biological Clocks from Fungi to Animals.Microbiology spectrum · 2017Review
- Transcriptional repression of frequency by the IEC-1-INO80 complex is required for normal Neurospora circadian clock function.PLoS genetics · 2017Article
- Natural Variation of the Circadian Clock in Neurospora.Advances in genetics · 2017Review
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5 authors at 1 institution in 1 country.
Funding
Abstract
The circadian clock is controlled by a network of interconnected feedback loops that require histone modifications and chromatin remodeling. Long noncoding natural antisense transcripts (NATs) originate from Period in mammals and frequency (frq) in Neurospora. To understand the role of NATs in the clock, we put the frq antisense transcript qrf (frq spelled backwards) under the control of an inducible promoter. Replacing the endogenous qrf promoter altered heterochromatin formation and DNA methylation at frq. In addition, constitutive, low-level induction of qrf caused a dramatic effect on the endogenous rhythm and elevated circadian output. Surprisingly, even though qrf is needed for heterochromatic silencing, induction of qrf initially promoted frq gene expression by creating a more permissible local chromatin environment. The observation that antisense expression can initially promote sense gene expression before silencing via heterochromatin formation at convergent loci is also found when a NAT to hygromycin resistance gene is driven off the endogenous vivid (vvd) promoter in the Δvvd strain. Facultative heterochromatin silencing at frq functions in a parallel pathway to previously characterized VVD-dependent silencing and is needed to establish the appropriate circadian phase. Thus, repression via dicer-independent siRNA-mediated facultative heterochromatin is largely independent of, and occurs alongside, other feedback processes.
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