Methyl-CpG binding proteins (MBD) family evolution and conservation in plants

Coelho, Fernanda S.; Sangi, Sara; Moraes, Juliana Lopes de; Santos, Walaci da Silva; Gamosa, Eduardo Alves; Fernandes, Kátia Valevski Sales; Grativol, Clícia

doi:10.1016/j.gene.2022.146404

Cited by 9 publications

(7 citation statements)

References 65 publications

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“…Merr. [ 41 ] verified that most MBDs were differentiated during early evolution, which was also consistent. MBD proteins can specifically bind to methylated cytosines, thus causing DNA methylation silencing in methylated genes [ 9 ].…”

Section: Discussionsupporting

confidence: 59%

Genome-wide identification of MBD gene family members in Eleutherococcus senticosus with their expression motifs under drought stress and DNA demethylation

et al. 2023

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Background Methyl-binding domain (MBD) is a class of methyl-CpG-binding domain proteins that affects the regulation of gene expression through epigenetic modifications. MBD genes are not only inseparable from DNA methylation but have also been identified and validated in various plants. Although MBD is involved in a group of physiological processes and stress regulation in these plants, MBD genes in Eleutherococcus senticosus remain largely unknown. Results Twenty EsMBD genes were identified in E. senticosus. Among the 24 chromosomes of E. senticosus, EsMBD genes were unevenly distributed on 12 chromosomes, and only one tandem repeat gene existed. Collinearity analysis showed that the fragment duplication was the main motif for EsMBD gene expansion. As the species of Araliaceae evolved, MBD genes also evolved and gradually exhibited different functional differentiation. Furthermore, cis-acting element analysis showed that there were numerous cis-acting elements in the EsMBD promoter region, among which light response elements and anaerobic induction elements were dominant. The expression motif analysis revealed that 60% of the EsMBDs were up-regulated in the 30% water content group. Conclusions By comparing the transcriptome data of different saponin contents of E. senticosus and integrating them with the outcomes of molecular docking analysis, we hypothesized that EsMBD2 and EsMBD5 jointly affect the secondary metabolic processes of E. senticosus saponins by binding to methylated CpG under conditions of drought stress. The results of this study laid the foundation for subsequent research on the E. senticosus and MBD genes.

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Section: Discussionsupporting

confidence: 59%

Genome-wide identification of MBD gene family members in Eleutherococcus senticosus with their expression motifs under drought stress and DNA demethylation

et al. 2023

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“…Among these MBD proteins, MBD3 does not bind to methylated DNA, while other MBD proteins bind to methylated DNA. In plants, these MBD proteins have also been identified in various pant species, such as Arabidopsis, soybean, watermelon, and Brassica napus [107]. Remarkably, recent reports have presented evidence that plant SU(VAR)3-9 homologs were among the methylated-DNA reader candidates.…”

Section: Writers Erasers and Readers Of Dna Methylationmentioning

confidence: 99%

Recent Advances in DNA Methylation and Their Potential Breeding Applications in Plants

Shaikh

Chachar

et al. 2022

Horticulturae

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Traditional plant breeding encompasses repetitive crossing and selection based on morphological traits, while phenotypic selection has been complemented by molecular methods in recent decades. Genome editing with techniques like the CRISPR-Cas9 system is still a novel approach that is being used to make direct modifications to nucleotide sequences of crops. In addition to these genetic alterations, an improved understanding of epigenetic variations such as DNA methylation on the phenotype of plants has led to increased opportunities to accelerate crop improvement. DNA methylation is the most widely studied epigenetic mark in plants and other eukaryotes. These epigenetic marks are highly conserved and involved in altering the activities and functions of developmental signals by catalyzing changes in the chromatin structure through methylation and demethylation. Cytosine methylation (5mC) is the most prevalent modification found in DNA. However, recent identification of N6-methyladenosine (6mA) in plants starts to reveal their critical role in plant development. Epigenetic modifications are actively involved in creating the phenotype by controlling essential biological mechanisms. Epigenetic modifications could be heritable and metastable causing variation in epigenetic status between or within species. However, both genetic and heritable epigenetic variation has the potential to drive natural variation. Hence, epigenome editing might help overcome some of the shortcomings of genome editing (such as gene knockout), which can have significant off-target effects and only enables the loss of a gene’s function. In this review, we have discussed the mechanism underlying DNA methylation and demethylation in plants. Methyltransferases and demethylases are involved in catalyzing specific types of modification. We also discuss the potential role of DNA modifications in crop improvement for meeting the requirements of sustainable and green agriculture.

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“…Amongst members in the MBP family, the MBD proteins were the first to be identified and characterized due to their relation to various cancers and brain disorders [ 70 ]. There are seven members in the MBD family: MeCP2, MBD1, MBD2, MBD3, MBD4, MBD5, and MBD6 [ 71 ]. As previously mentioned, MeCP2 is known for its critical contribution to the formation, function, and development of the brain.…”

Section: An Overview Of Dna Methylationmentioning

confidence: 99%

MeCP2 Is an Epigenetic Factor That Links DNA Methylation with Brain Metabolism

Vuu

Roberts

Rastegar

2023

IJMS

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DNA methylation, one of the most well-studied epigenetic modifications, is involved in a wide spectrum of biological processes. Epigenetic mechanisms control cellular morphology and function. Such regulatory mechanisms involve histone modifications, chromatin remodeling, DNA methylation, non-coding regulatory RNA molecules, and RNA modifications. One of the most well-studied epigenetic modifications is DNA methylation that plays key roles in development, health, and disease. Our brain is probably the most complex part of our body, with a high level of DNA methylation. A key protein that binds to different types of methylated DNA in the brain is the methyl-CpG binding protein 2 (MeCP2). MeCP2 acts in a dose-dependent manner and its abnormally high or low expression level, deregulation, and/or genetic mutations lead to neurodevelopmental disorders and aberrant brain function. Recently, some of MeCP2-associated neurodevelopmental disorders have emerged as neurometabolic disorders, suggesting a role for MeCP2 in brain metabolism. Of note, MECP2 loss-of-function mutation in Rett Syndrome is reported to cause impairment of glucose and cholesterol metabolism in human patients and/or mouse models of disease. The purpose of this review is to outline the metabolic abnormalities in MeCP2-associated neurodevelopmental disorders that currently have no available cure. We aim to provide an updated overview into the role of metabolic defects associated with MeCP2-mediated cellular function for consideration of future therapeutic strategies.

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Methyl-CpG binding proteins (MBD) family evolution and conservation in plants

Cited by 9 publications

References 65 publications

Genome-wide identification of MBD gene family members in Eleutherococcus senticosus with their expression motifs under drought stress and DNA demethylation

Genome-wide identification of MBD gene family members in Eleutherococcus senticosus with their expression motifs under drought stress and DNA demethylation

Recent Advances in DNA Methylation and Their Potential Breeding Applications in Plants

MeCP2 Is an Epigenetic Factor That Links DNA Methylation with Brain Metabolism

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