Plant DNA Methylation: An Epigenetic Mark in Development, Environmental Interactions, and Evolution

Lucibelli, Francesca; Valoroso, Maria Carmen; Aceto, Serena

doi:10.3390/ijms23158299

Cited by 59 publications

(35 citation statements)

References 154 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…On the other hand, environmental stresses, such as cold and drought, can also affect the methylase and/or demethylase activity (Lucibelli et al ., 2022) explaining the interaction with the demethylation agent 5-Azacytidine. For example, heat stress induced downregulation of demethylases in Triticum aestivum (Gahlaut et al ., 2022) but were significantly upregulated in Camellia sinensis under cold and drought (Zhu et al ., 2020).…”

Section: Discussionmentioning

confidence: 99%

Long-term methylome changes after experimental seed demethylation and their interaction with recurrent water stress inErodium cicutarium(Geraniaceae)

Balao

Medrano

Bazaga

et al. 2023

Preprint

View full text Add to dashboard Cite

The frequency and length of drought periods are increasing in subtropical and temperate regions worldwide. Epigenetic responses to water stress could be key for plant resilience to this largely unpredictable challenge. Experimental DNA demethylation together with application of a stress factor stands as a suitable strategy to uncover the contribution of epigenetics to plant responses to stress. We analysed leaf cytosine methylation changes in adult plants of the Mediterranean weed, Erodium cicutarium, after seed demethylation with 5-Azacytidine and/or recurrent water stress in a greenhouse. We used bisulfite RADseq (BsRADseq) and a newly reported reference genome for E. cicutarium to characterize methylation changes in a 2x2 factorial design, controlling for plant relatedness. In the long-term, 5-Azacytidine treatment alone caused both hypo and hyper-methylation at individual cytosines, with increased hypomethylation in CG contexts. In control conditions, drought resulted in a decrease in methylation level in all but CHH contexts. In contrast, the genome of plants that experienced recurrent water stress and had been treated with 5-Azacytidine increased DNA methylation level by ca. 5%. The two study factors exhibited a highly significant interaction between demethylation and recurrent drought stress, with both agents stimulating a general instability of DNA methylation, including around genic regions.

show abstract

Section: Discussionmentioning

confidence: 99%

Long-term methylome changes after experimental seed demethylation and their interaction with recurrent water stress inErodium cicutarium(Geraniaceae)

Balao

Medrano

Bazaga

et al. 2023

Preprint

View full text Add to dashboard Cite

show abstract

“…For instance, DNA methylation can be erased in male gametes but maintained in female gametes. This differential erasure is called genomic imprinting and can result in distinct epigenetic inheritance patterns across paternal and maternal lineages [ 156 ]. Following transmission to the next generation, epigenetic marks are interpreted and translated into changes in gene expression and chromatin structure.…”

Section: Transgenerational Memory Effects In Plantsmentioning

confidence: 99%

“…Epigenetic marks have varying capacities for long-term inheritance, with DNA methylation being more stably transmitted than other regulators [ 156 ]. While histone modifications are more likely to be reset during meiosis, they can work together with other regulators to ensure transgenerational effects.…”

Section: Transgenerational Memory Effects In Plantsmentioning

confidence: 99%

Stress Management in Plants: Examining Provisional and Unique Dose-Dependent Responses

Georgieva

Vassileva

2023

IJMS

View full text Add to dashboard Cite

The purpose of this review is to critically evaluate the effects of different stress factors on higher plants, with particular attention given to the typical and unique dose-dependent responses that are essential for plant growth and development. Specifically, this review highlights the impact of stress on genome instability, including DNA damage and the molecular, physiological, and biochemical mechanisms that generate these effects. We provide an overview of the current understanding of predictable and unique dose-dependent trends in plant survival when exposed to low or high doses of stress. Understanding both the negative and positive impacts of stress responses, including genome instability, can provide insights into how plants react to different levels of stress, yielding more accurate predictions of their behavior in the natural environment. Applying the acquired knowledge can lead to improved crop productivity and potential development of more resilient plant varieties, ensuring a sustainable food source for the rapidly growing global population.

show abstract

“…Chromatin remodeling could be largely influenced by DNA methylation through promoting transcription activation to methylated cytosine [ 16 ]. DNA methylation is a critically important genetic mechanism without changing the DNA sequences, in which the methyl group can covalently bind to the cytosine of genome DNA, conferring the abilities of regulating plant growth and development [ 17 , 18 ]. Plant DNA methylation is defined in CG, CHG, and CHH types (H represents A, C or T) according to the sequence context.…”

Section: Introductionmentioning

confidence: 99%

The Chromatin Remodeling Factor BrCHR39 Targets DNA Methylation to Positively Regulate Apical Dominance in Brassica rapa

Zhu

Xie

Chu

et al. 2023

Plants

View full text Add to dashboard Cite

The SHPRH (SNF2, histone linker, PHD, RING, helicase) subfamily belonging to ATP-dependent chromatin remodeling factor is the effective tumor-suppressor, which can polyubiquitinate PCNA (proliferating cell nuclear antigen) and participate in post-replication repair in human. However, little is known about the functions of SHPRH proteins in plants. In this study, we identified a novel SHPRH member BrCHR39 and obtained BrCHR39-silenced transgenic Brassica rapa. In contrast to wild-type plants, transgenic Brassica plants exhibited a released apical dominance phenotype with semi-dwarfism and multiple lateral branches. Furthermore, a global alteration of DNA methylation in the main stem and bud appeared after silencing of BrCHR39. Based on the GO (gene ontology) functional annotation and KEGG (Kyoto encyclopedia of genes and genomes) pathway analysis, the plant hormone signal transduction pathway was clearly enriched. In particular, we found a significant increase in the methylation level of auxin-related genes in the stem, whereas auxin- and cytokinin-related genes were hypomethylated in the bud of transgenic plants. In addition, further qRT-PCR (quantitative real-time PCR) analysis revealed that DNA methylation level always had an opposite trend with gene expression level. Considered together, our findings indicated that suppression of BrCHR39 expression triggered the methylation divergence of hormone-related genes and subsequently affected transcription levels to regulate the apical dominance in Brassica rapa.

show abstract

Plant DNA Methylation: An Epigenetic Mark in Development, Environmental Interactions, and Evolution

Cited by 59 publications

References 154 publications

Long-term methylome changes after experimental seed demethylation and their interaction with recurrent water stress inErodium cicutarium(Geraniaceae)

Long-term methylome changes after experimental seed demethylation and their interaction with recurrent water stress inErodium cicutarium(Geraniaceae)

Stress Management in Plants: Examining Provisional and Unique Dose-Dependent Responses

The Chromatin Remodeling Factor BrCHR39 Targets DNA Methylation to Positively Regulate Apical Dominance in Brassica rapa

Contact Info

Product

Resources

About