ArticleCell systems2017
Cell-Size-Dependent Transcription of FLC and Its Antisense Long Non-coding RNA COOLAIR Explain Cell-to-Cell Expression Variation.
Article in Cell systems, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers, 1 of them a synthesis that pooled it.
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Who cites it
42 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Antisense Transcription in Plants: A Systematic Review and an Update on cis-NATs of Sugarcane.International journal of molecular sciences · 2022Pooled it
- Cell Growth and Division Shape mRNA-Protein Correlations.bioRxiv : the preprint server for biology · 2026Article
- Co-transcriptional gene regulation in plants.aBIOTECH · 2026Review
- Co-transcriptional splicing changes combine with reduced productive transcription initiation for cold-induced repression of FLC.Nucleic acids research · 2026Article
- Ribosome stalling-induced NIP5;1 mRNA decay triggers ARGONAUTE1-dependent transcription downregulation.Nucleic acids research · 2025Article
- Detection and Automated Quantification of Nucleocytoplasmic RNA Fractions in Arabidopsis Using smFISH.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Eukaryotic cell size regulation and its implications for cellular function and dysfunction.Physiological reviews · 2024Review
- Genome-wide quantification of RNA flow across subcellular compartments reveals determinants of the mammalian transcript life cycle.Molecular cell · 2024Article
- AraLeTA: An Arabidopsis leaf expression atlas across diurnal and developmental scales.Plant physiology · 2024Article
- A kinetic dichotomy between mitochondrial and nuclear gene expression processes.Molecular cell · 2024Article
- Functional consequences of somatic polyploidy in development.Development (Cambridge, England) · 2024Review
- Article
- Role of methylation in vernalization and photoperiod pathway: a potential flowering regulator?Horticulture research · 2023Article
- A kinetic dichotomy between mitochondrial and nuclear gene expression drives OXPHOS biogenesis.bioRxiv : the preprint server for biology · 2023Article
- The σB alternative sigma factor circuit modulates noise to generate different types of pulsing dynamics.PLoS computational biology · 2023Article
- Article
- Whole-mount smFISH allows combining RNA and protein quantification at cellular and subcellular resolution.Nature plants · 2023Article
- Article
- Modelling capture efficiency of single-cell RNA-sequencing data improves inference of transcriptome-wide burst kinetics.Bioinformatics (Oxford, England) · 2023Article
- Reference genes for quantitative Arabidopsis single molecule RNA fluorescence in situ hybridization.Journal of experimental botany · 2023Article
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Authors and funding
5 authors.
Funding
Abstract
Single-cell quantification of transcription kinetics and variability promotes a mechanistic understanding of gene regulation. Here, using single-molecule RNA fluorescence in situ hybridization and mathematical modeling, we dissect cellular RNA dynamics for Arabidopsis FLOWERING LOCUS C (FLC). FLC expression quantitatively determines flowering time and is regulated by antisense (COOLAIR) transcription. In cells without observable COOLAIR expression, we quantify FLC transcription initiation, elongation, intron processing, and lariat degradation, as well as mRNA release from the locus and degradation. In these heterogeneously sized cells, FLC mRNA number increases linearly with cell size, resulting in a large cell-to-cell variability in transcript level. This variation is accounted for by cell-size-dependent, Poissonian FLC mRNA production, but not by large transcriptional bursts. In COOLAIR-expressing cells, however, antisense transcription increases with cell size and contributes to FLC transcription decreasing with cell size. Our analysis therefore reveals an unexpected role for antisense transcription in modulating the scaling of transcription with cell size.
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