ArticleBMC genomics2022
Multi-omics data integration reveals link between epigenetic modifications and gene expression in sugar beet (Beta vulgaris subsp. vulgaris) in response to cold.
Article in BMC genomics, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed, 27 citations in OpenAlex.
- Epigenetic orchestration of sugar signaling in plant development and stress adaptation.Horticulture research · 2026Article
- Integrated Methylome and Transcriptome Analyses Reveal Methylation-Associated Cadmium Stress Responses inPlants (Basel, Switzerland) · 2026Article
- Epigenetic modifications in plant abiotic stress adaptation: towards climate-resilient and sustainable crop improvement.Frontiers in plant science · 2026Review
- Integrated transcriptomic and metabolomic analyses reveal the molecular mechanisms of sugar accumulation and yield trade-off in sugar beet.Frontiers in plant science · 2026Article
- Advances in Beet (Plants (Basel, Switzerland) · 2025Review
- Review
- Accurate cross-species 5mC detection for Oxford Nanopore sequencing in plants with DeepPlant.Nature communications · 2025Article
- Unravelling the Epigenetic Code: DNA Methylation in Plants and Its Role in Stress Response.Epigenomes · 2024Review
- A Review of Potato Salt Tolerance.International journal of molecular sciences · 2023Review
- Article
- DNA Methylation Variation Is a Possible Mechanism in the Response ofInternational journal of molecular sciences · 2022Article
- DNA Methylation in Plant Responses and Adaption to Abiotic Stresses.International journal of molecular sciences · 2022Review
- Gene expression and DNA methylation altering lead to the high oil content in wild allotetraploid peanut (Frontiers in plant science · 2022Article
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Authors and funding
15 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundDNA methylation is thought to influence the expression of genes, especially in response to changing environmental conditions and developmental changes. Sugar beet (Beta vulgaris ssp. vulgaris), and other biennial or perennial plants are inevitably exposed to fluctuating temperatures throughout their lifecycle and might even require such stimulus to acquire floral competence. Therefore, plants such as beets, need to fine-tune their epigenetic makeup to ensure phenotypic plasticity towards changing environmental conditions while at the same time steering essential developmental processes. Different crop species may show opposing reactions towards the same abiotic stress, or, vice versa, identical species may respond differently depending on the specific kind of stress.
resultsIn this study, we investigated common effects of cold treatment on genome-wide DNA methylation and gene expression of two Beta vulgaris accessions via multi-omics data analysis. Cold exposure resulted in a pronounced reduction of DNA methylation levels, which particularly affected methylation in CHH context (and to a lesser extent CHG) and was accompanied by transcriptional downregulation of the chromomethyltransferase CMT2 and strong upregulation of several genes mediating active DNA demethylation.
conclusionIntegration of methylomic and transcriptomic data revealed that, rather than methylation having directly influenced expression, epigenetic modifications correlated with changes in expression of known players involved in DNA (de)methylation. In particular, cold triggered upregulation of genes putatively contributing to DNA demethylation via the ROS1 pathway. Our observations suggest that these transcriptional responses precede the cold-induced global DNA-hypomethylation in non-CpG, preparing beets for additional transcriptional alterations necessary for adapting to upcoming environmental changes.
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