ArticleHeredity2019
Single-cell expression noise and gene-body methylation in Arabidopsis thaliana.
Article in Heredity, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- A VIM2/4 deletion, and premature truncations of CMT2 and FBX5, drive DNA methylation changes after colonization of a novel habitat.Nature plants · 2026Article
- Gene body methylation buffers noise in gene expression in plants.Nucleic acids research · 2026Article
- Coordinated single-nucleus responses for quantitative disease resistance involve a calcium-associated switch in transcriptional noise.Genome biology · 2025Article
- Accelerated growth increases the somatic epimutation rate in trees.Nature communications · 2025Article
- Gene body methylation regulates gene expression and mediates phenotypic diversity in natural Arabidopsis populations.Nature plants · 2025Article
- Selection on genome-wide gene expression plasticity of rice in wet and dry field environments.Molecular ecology · 2025Article
- Genetic and Epigenetic Changes inLife (Basel, Switzerland) · 2025Article
- Epigenetic Regulation of Anthocyanin Biosynthesis inInternational journal of molecular sciences · 2024Article
- The evolutionary consequences of interactions between the epigenome, the genome and the environment.Evolutionary applications · 2024Review
- DNA methylation: an emerging paradigm of gene regulation under drought stress in plants.Molecular biology reports · 2024Review
- Comparative studies of genomic and epigenetic factors influencing transcriptional variation in two insect species.G3 (Bethesda, Md.) · 2022Article
- Gene Body Methylation in Plants: Mechanisms, Functions, and Important Implications for Understanding Evolutionary Processes.Genome biology and evolution · 2022Review
- Molecular properties of epimutation hotspots.Nature plants · 2022Article
- The Underlying Nature of Epigenetic Variation: Origin, Establishment, and Regulatory Function of Plant Epialleles.International journal of molecular sciences · 2021Review
- DNA Methylation-An Epigenetic Mark in Mutagen-TreatedPlants (Basel, Switzerland) · 2021Article
- Article
- Ectopic targeting of CG DNA methylation in Arabidopsis with the bacterial SssI methyltransferase.Nature communications · 2021Article
- Gene Body Methylation Confers Transcription Robustness in Mangroves During Long-Term Stress Adaptation.Frontiers in plant science · 2021Article
- Enhancing Our Understanding of Plant Cell-to-Cell Interactions Using Single-Cell Omics.Frontiers in plant science · 2021Article
- Single-Cell Transcriptome Analysis in Melanoma Using Network Embedding.Frontiers in genetics · 2021Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Gene-body methylation (gbM) refers to an increased level of methylated cytosines specifically in a CG sequence context within genes. gbM is found in plant genes with intermediate expression level, which evolve slowly, and is often broadly conserved across millions of years of evolution. Intriguingly however, some plants lack gbM, and thus it remains unclear whether gbM has a function. In animals, there is support for a role of gbM in reducing erroneous transcription and transcription noise, but so far most studies in plants have tested for an effect of gbM on expression level, not noise. Here, we therefore tested whether gbM was associated with reduced expression noise in Arabidopsis thaliana, using single-cell transcriptome sequencing data from root quiescent centre cells. We find that gbM genes have lower expression noise levels than unmethylated genes. However, an analysis of covariance revealed that, if other genomic features are taken into account, this association disappears. Nonetheless, gbM genes were more consistently expressed across single-cell samples, supporting previous inference that gbM genes are constitutively expressed. Finally, we observed that fewer RNAseq reads map to introns of gbM genes than to introns of unmethylated genes, which indicates that gbM might be involved in reducing erroneous transcription by reducing intron retention.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.