Dynamic regulation of DNA methylation and histone modifications in response to abiotic stresses in plants

Liu, Yutong; Wang, Jie; B, Liu; Xu, Zheng‐Yi

doi:10.1111/jipb.13368

Cited by 34 publications

(15 citation statements)

References 261 publications

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“…In response to epigenetic regulation under stress, we will highlight recent studies published within the last 5–10 years that have significantly contributed to our understanding of plant epigenetic regulation under stress. Based on reports from [ 34 , 78 , 138 , 139 ], DM and histone acetylation are utilized to control chromatin structure, which can cause long-term alterations in DNA structure, which can either activate or suppress the expression of genes. DNA methyltransferases target two types of cytosines: CpNpG and CpG.…”

Section: Recent Discoveries Of Plant Epigenetic Regulation In Respons...mentioning

confidence: 99%

Mechanisms of Plant Epigenetic Regulation in Response to Plant Stress: Recent Discoveries and Implications

Abdulraheem,

Xiong,

Moshood

et al. 2024

Plants

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Plant stress is a significant challenge that affects the development, growth, and productivity of plants and causes an adverse environmental condition that disrupts normal physiological processes and hampers plant survival. Epigenetic regulation is a crucial mechanism for plants to respond and adapt to stress. Several studies have investigated the role of DNA methylation (DM), non-coding RNAs, and histone modifications in plant stress responses. However, there are various limitations or challenges in translating the research findings into practical applications. Hence, this review delves into the recent recovery, implications, and applications of epigenetic regulation in response to plant stress. To better understand plant epigenetic regulation under stress, we reviewed recent studies published in the last 5–10 years that made significant contributions, and we analyzed the novel techniques and technologies that have advanced the field, such as next-generation sequencing and genome-wide profiling of epigenetic modifications. We emphasized the breakthrough findings that have uncovered specific genes or pathways and the potential implications of understanding plant epigenetic regulation in response to stress for agriculture, crop improvement, and environmental sustainability. Finally, we concluded that plant epigenetic regulation in response to stress holds immense significance in agriculture, and understanding its mechanisms in stress tolerance can revolutionize crop breeding and genetic engineering strategies, leading to the evolution of stress-tolerant crops and ensuring sustainable food production in the face of climate change and other environmental challenges. Future research in this field will continue to unveil the intricacies of epigenetic regulation and its potential applications in crop improvement.

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Section: Recent Discoveries Of Plant Epigenetic Regulation In Respons...mentioning

confidence: 99%

Mechanisms of Plant Epigenetic Regulation in Response to Plant Stress: Recent Discoveries and Implications

Abdulraheem,

Xiong,

Moshood

et al. 2024

Plants

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“…Abiotic stress response and adaptation Many reviews describe the roles of DNA methylation or epigenetic regulation in plant responses to abiotic stress (Crisp et al, 2016;Chang et al, 2020;Oberkofler et al, 2021;Arora et al, 2022;Liu et al, 2022), including drought (Sadhukhan et al, 2022), high salinity (Singroha et al, 2022), high temperature (Liu et al, 2015a;Perrella et al, 2022), low temperature (Luo and He, 2020;Hereme et al, 2021), and nutrient deficiency (Secco et al, 2017;Fan et al, 2022). Here, we briefly review changes in DNA methylation associated with abiotic stress responses with a focus on the possible roles of active DNA demethylation in these processes.…”

Section: Active Dna Demethylation In Response To External Stimulimentioning

confidence: 99%

Active DNA demethylation in plants: 20 years of discovery and beyond

Zhang

Gong

Zhu

2022

JIPB

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Maintaining proper DNA methylation levels in the genome requires active demethylation of DNA. However, removing the methyl group from a modified cytosine is chemically difficult and therefore, the underlying mechanism of demethylation had remained unclear for many years. The discovery of the first eukaryotic DNA demethylase, Arabidopsis thaliana REPRESSOR OF SILENCING 1 (ROS1), led to elucidation of the 5‐methylcytosine base excision repair mechanism of active DNA demethylation. In the 20 years since ROS1 was discovered, our understanding of this active DNA demethylation pathway, as well as its regulation and biological functions in plants, has greatly expanded. These exciting developments have laid the groundwork for further dissecting the regulatory mechanisms of active DNA demethylation, with potential applications in epigenome editing to facilitate crop breeding and gene therapy.

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“…Histone modifications (HMs) are essential for modulating gene expression through modifying chromatin structure and stability, thereby influencing diverse biological processes in plants [ 1 , 2 , 3 ]. These processes include not only biological growth and development, but also the response to stress.…”

Section: Introductionmentioning

confidence: 99%

“…The functions of HM genes have been delineated, revealing their involvement in various plant processes [ 20 , 21 ]. These processes encompass growth and development, and stress responses, including photomorphogenesis [ 22 ], embryo development [ 23 ], seed germination and dormancy [ 2 ], flowering processes [ 8 ], fruit development [ 15 , 16 , 18 ], stress and defensive responses [ 3 , 16 , 17 , 18 ] and signaling responses to hormones [ 17 ]. In particular, HM genes play a pivotal role in crucial physiological processes associated with plant flowering, including flower induction, petal senescence and regulation of the flowering period.…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Identification of Osmanthus fragrans Histone Modification Genes and Analysis of Their Expression during the Flowering Process and under Azacytidine and Ethylene Treatments

Xia,

Zhang,

Chen

et al. 2024

Plants

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Histone acetylation and methylation, governed by various histone modification (HM) gene families, are vital for plant biological processes. However, there are limited studies that have explored HMs in ornamental horticultural trees, including sweet osmanthus (Osmanthus fragrans). We performed genome-wide search and identified 208 OfHMs, encompassing 81 histone methyltransferases (OfHMTs), 51 histone demethylases (OfHDMs), 49 histone acetyltransferases (OfHATs) and 27 histone deacetylases (HDACs). Our comprehensive analysis covered chromosome locations, gene structures, conserved domains, cis-acting elements, phylogenetic comparisons, protein interaction networks and functional enrichment pathways for these gene families. Additionally, tandem and fragment replications were unveiled as contributors to the expansion of OfHMs, with some genes exhibiting positive selection. Furthermore, we examined OfHM expression profiles across various tissues and flowering stages, and under 5′-azacytidine (Aza) and ethylene treatments. Most OfHMs displayed heightened expression in leaves, and were downregulated during the flower opening and senescence stages, including OfPRMTs, OfHDTs, OfHDAs, OfSRTs, OfJMJs and OfHAGs; 75.86% and 80.77% of the differentially expressed OfHMs were upregulated after Aza and ethylene treatments, including OfHAGs, OfHDAs and OfSDGs. This study offers a comprehensive analysis of the OfHM gene family, which indicated their potential involvement in ethylene and Aza responses, and in the flowering process. These findings provide valuable insights into the role of OfHMs in flowering and stress responses.

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Dynamic regulation of DNA methylation and histone modifications in response to abiotic stresses in plants

Cited by 34 publications

References 261 publications

Mechanisms of Plant Epigenetic Regulation in Response to Plant Stress: Recent Discoveries and Implications

Mechanisms of Plant Epigenetic Regulation in Response to Plant Stress: Recent Discoveries and Implications

Active DNA demethylation in plants: 20 years of discovery and beyond

Genome-Wide Identification of Osmanthus fragrans Histone Modification Genes and Analysis of Their Expression during the Flowering Process and under Azacytidine and Ethylene Treatments

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