Concerto on Chromatin: Interplays of Different Epigenetic Mechanisms in Plant Development and Environmental Adaptation

Liu, Jiao; Chang, Cheng

doi:10.3390/plants10122766

Cited by 7 publications

(6 citation statements)

References 96 publications

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“…N-terminal histone tails stretching out of the nucleosome core could be subject to various modifications such as acetylation and methylation (Imhof and Wolffe, 1998;Tessarz and Kouzarides, 2014;Liu and Chang, 2021;Peng et al, 2021). Histone acetylation catalyzed by histone acetyltransferase (HAT) usually facilitates gene transcription, whereas histone deacetylation mediated by histone deacetylase (HDAC) could repress gene expression.…”

Section: Epigenetic Mechanisms Of Plant Defense Primingmentioning

confidence: 99%

Priming seeds for the future: Plant immune memory and application in crop protection

2022

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Plants have evolved adaptive strategies to cope with pathogen infections that seriously threaten plant viability and crop productivity. Upon the perception of invading pathogens, the plant immune system is primed, establishing an immune memory that allows primed plants to respond more efficiently to the upcoming pathogen attacks. Physiological, transcriptional, metabolic, and epigenetic changes are induced during defense priming, which is essential to the establishment and maintenance of plant immune memory. As an environmental-friendly technique in crop protection, seed priming could effectively induce plant immune memory. In this review, we highlighted the recent advances in the establishment and maintenance mechanisms of plant defense priming and the immune memory associated, and discussed strategies and challenges in exploiting seed priming on crops to enhance disease resistance.

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Section: Epigenetic Mechanisms Of Plant Defense Primingmentioning

confidence: 99%

Priming seeds for the future: Plant immune memory and application in crop protection

2022

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“…The expression of low-temperature-stress-related genes can be regulated by the antagonistic relationship between H3K27ac and H3K27me3 in rice [ 39 ]. Epigenetic marks usually regulate gene expression synergistically rather than independently, and some DNA methylases can directly interact with histone-modifying enzymes [ 40 ]. Nearly all DEGs were identified to be methylated in the present study, and more than half of these genes had more than two epigenetic modifications.…”

Section: Discussionmentioning

confidence: 99%

Epigenetic Regulation of Subgenomic Gene Expression in Allotetraploid Brassica napus

Wang

2023

Plants

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The allotetraploid Brasscia napus has now been extensively utilized to reveal the genetic processes involved in hybridization and polyploidization. Here, transcriptome, WGBS, and Chip-Seq sequencing data were obtained to explore the regulatory consequences of DNA methylation and histone modifications on gene expression in B. napus. When compared with diploid parents, the expression levels of 14,266 (about 32%) and 17,054 (about 30%) genes were altered in the An and Cn subgenomes, respectively, and a total of 4982 DEGs were identified in B. napus. Genes with high or no expression in diploid parents often shifted to medium or low expression in B. napus. The number of genes with elevated methylation levels in gene promoters and gene body regions has increased in An and Cn subgenomes. The peak number of H3K4me3 modification increased, while the peak number of H3K27ac and H3K27me3 decreased in An and Cn subgenomes, and more genes that maintained parental histone modifications were identified in Cn subgenome. The differential multiples of DEGs in B. napus were positively correlated with DNA methylation levels in promoters and the gene body, and the differential multiples of these DEGs were also affected by the degree of variation in DNA methylation levels. Further analysis revealed that about 99% of DEGs were of DNA methylation, and about 68% of DEGs were modified by at least two types of DNA methylation and H3K4me3, H3K27ac, and H3K27me3 histone modifications. These results demonstrate that DNA methylation is crucial for gene expression regulation, and different epigenetic modifications have an essential function in regulating the differential expression of genes in B. napus.

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“…Upon perception of internal and external cues, plants often initiate a complicated and fine-tuned transcriptional reprogramming network to modify the expression of specific sets of genes that are involved in growth, development, and stress response [ 1 , 2 ]. This transcriptional reprogramming of gene expression in plants requires the concerted action of epigenetic mechanisms (e.g., DNA methylation and histone modifications) and cooperative functions of diverse transcription factors (TFs) belonging to different families in both temporal and spatial manners [ 2 , 3 , 4 ]. Among the TF families, Nuclear Factor Y (NF-Y) TFs, also known as heme activator proteins (HAPs) or CCAAT-binding factors (CBFs), play critical regulatory roles in almost all aspects of plant growth, development, and stress response through transcriptionally modulating the expression of different sets of genes via binding to the CCAAT cis -element in the promoters of target genes [ 5 , 6 , 7 ].…”

Section: Introductionmentioning

confidence: 99%

The NF-Y Transcription Factor Family in Watermelon: Re-Characterization, Assembly of ClNF-Y Complexes, Hormone- and Pathogen-Inducible Expression and Putative Functions in Disease Resistance

Jiang

Wang

Wen

et al. 2022

IJMS

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Nuclear factor Y (NF-Y) is a heterotrimeric transcription factor that binds to the CCAAT cis-element in the promoters of target genes and plays critical roles in plant growth, development, and stress responses. In the present study, we aimed to re-characterize the ClNF-Y family in watermelon, examine the assembly of ClNF-Y complexes, and explore their possible involvement in disease resistance. A total of 25 ClNF-Y genes (7 ClNF-YAs, 10 ClNF-YBs, and 8 ClNF-YCs) were identified in the watermelon genome. The ClNF-Y family was comprehensively characterized in terms of gene and protein structures, phylogenetic relationships, and evolution events. Different types of cis-elements responsible for plant growth and development, phytohormones, and/or stress responses were identified in the promoters of the ClNF-Y genes. ClNF-YAs and ClNF-YCs were mainly localized in the nucleus, while most of the ClNF-YBs were localized in the cytoplasm of cells. ClNF-YB5, -YB6, -YB7, -YB8, -YB9, and -YB10 interacted with ClNF-YC2, -YC3, -YC4, -YC5, -YC6, -YC7, and -YC8, while ClNF-YB1 and -YB3 interacted with ClNF-YC1. A total of 37 putative ClNF-Y complexes were identified, e.g., ClNF-YA1, -YA2, -YA3, and -YA7 assembled into 13, 8, 8, and 8 ClNF-Y complexes with different ClNF-YB/-YC heterodimers. Most of the ClNF-Y genes responded with distinct expression patterns to defense hormones such as salicylic acid, methyl jasmonate, abscisic acid, and ethylene precursor 1-aminocyclopropane-1-carboxylate, and to infection by the vascular infecting fungus Fusarium oxysporum f. sp. niveum. Overexpression of ClNF-YB1, -YB8, -YB9, ClNF-YC2, and -YC7 in transgenic Arabidopsis resulted in an earlier flowering phenotype. Overexpression of ClNF-YB8 in Arabidopsis led to enhanced resistance while overexpression of ClNF-YA2 and -YC2 resulted in decreased resistance against Botrytis cinerea. Similarly, overexpression of ClNF-YA3, -YB1, and -YC4 strengthened resistance while overexpression of ClNF-YA2 and -YB8 attenuated resistance against Pseudomonas syringae pv. tomato DC3000. The re-characterization of the ClNF-Y family provides a basis from which to investigate the biological functions of ClNF-Y genes in respect of growth, development, and stress response in watermelon, and the identification of the functions of some ClNF-Y genes in disease resistance enables further exploration of the molecular mechanism of ClNF-Ys in the regulation of watermelon immunity against diverse pathogens.

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Concerto on Chromatin: Interplays of Different Epigenetic Mechanisms in Plant Development and Environmental Adaptation

Cited by 7 publications

References 96 publications

Priming seeds for the future: Plant immune memory and application in crop protection

Priming seeds for the future: Plant immune memory and application in crop protection

Epigenetic Regulation of Subgenomic Gene Expression in Allotetraploid Brassica napus

The NF-Y Transcription Factor Family in Watermelon: Re-Characterization, Assembly of ClNF-Y Complexes, Hormone- and Pathogen-Inducible Expression and Putative Functions in Disease Resistance

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