Histone acetyltransferases in rice (Oryza sativaL.): phylogenetic analysis, subcellular localization and expression

Liu, Xia; Luo, Ming; Zhang, Wei; Jian-Gao, Zhao; Zhang, Jianxia; Wu, Keqiang; Tian, Lining; Duan, Jun

doi:10.1186/1471-2229-12-145

Cited by 104 publications

(106 citation statements)

References 81 publications

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“…Histone acetylation has been demonstrated to function in different plant hormones (23,(26)(27)(28)(29), and several histone deacetylases are known to be involved in the regulation of gene expression (30)(31)(32)(33)(34)(35)(36)(37). The data presented here showed that the C-terminal domain of EIN2 (EIN2-C) is the key factor that drives alterations in histone acetylation during the ethylene response.…”

Section: Discussionmentioning

confidence: 65%

EIN2 mediates direct regulation of histone acetylation in the ethylene response

Zhang

Wang

et al. 2017

Proc. Natl. Acad. Sci. U.S.A.

132

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Ethylene gas is essential for developmental processes and stress responses in plants. Although the membrane-bound protein EIN2 is critical for ethylene signaling, the mechanism by which the ethylene signal is transduced remains largely unknown. Here we show the levels of H3K14Ac and H3K23Ac are correlated with the levels of EIN2 protein and demonstrate EIN2 C terminus (EIN2-C) is sufficient to rescue the levels of H3K14/23Ac of ein2-5 at the target loci, using CRISPR/dCas9-EIN2-C. Chromatin immunoprecipitation followed by deep sequencing (ChIP-seq) and ChIP-reChIP-seq analyses revealed that EIN2-C associates with histone partially through an interaction with EIN2 nuclear-associated protein1 (ENAP1), which preferentially binds to the genome regions that are associated with actively expressed genes both with and without ethylene treatments. Specifically, in the presence of ethylene, ENAP1-binding regions are more accessible upon the interaction with EIN2, and more EIN3 proteins bind to the loci where ENAP1 is enriched for a quick response. Together, these results reveal EIN2-C is the key factor regulating H3K14Ac and H3K23Ac in response to ethylene and uncover a unique mechanism by which ENAP1 interacts with chromatin, potentially preserving the open chromatin regions in the absence of ethylene; in the presence of ethylene, EIN2 interacts with ENAP1, elevating the levels of H3K14Ac and H3K23Ac, promoting more EIN3 binding to the targets shared with ENAP1 and resulting in a rapid transcriptional regulation.T he plant hormone ethylene is essential for a myriad of physiological and developmental processes. It is important in responses to stress, such as drought, cold, flooding, and pathogen infection (1, 2), and modulates stem cell division (3). The common aquatic ancestor of plants possessed the ethylene signaling pathway and the mechanism has been elucidated by analysis of Arabidopsis (4). Ethylene is perceived by a family of receptors bound to the membrane of the endoplasmic reticulum (ER) that are similar in sequence and structure to bacterial two-component histidine kinases (5-9). Each ethylene receptor has an N-terminal transmembrane domain, and the receptors form dimers that bind ethylene via a copper cofactor RAN1 (10, 11). Signaling from one of the receptors, ETR1, induces its physical association with the ER-localized protein RTE1 (12). The ethylene receptors function redundantly to negatively regulate ethylene responses (5) via a downstream Raf-like protein kinase called CTR1 (13,14).In the absence of ethylene, both the ethylene receptors and CTR1 are active, and CTR1 is associated with the ER membrane through a direct interaction with ETR1 (13). The CTR1 downstream factor, EIN2, is localized to the ER membrane, where it interacts with ETR1 (15). The protein stability of EIN2 is regulated by two F-box proteins, ETP1 and ETP2, which mediated its degradation by the ubiquitin-proteasome pathway (16). In the absence of ethylene, the CTR1-mediated phosphorylation at the C-terminal end of EIN2 (EIN2-C) leads to ...

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Section: Discussionmentioning

confidence: 65%

EIN2 mediates direct regulation of histone acetylation in the ethylene response

Zhang

Wang

et al. 2017

Proc. Natl. Acad. Sci. U.S.A.

132

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“…This decondensed pattern is related to high transcriptional activity at this developmental stage . Histone acetylation is normally correlated with an increased gene activity [Liu X et al, 2012]. DNA methylation and H4 deacetylation act simultaneously and coordinately, restructuring the chromatin and regulating the gene expression during floral differentiation [Meijón et al, 2009].…”

Section: H3ac and H4ac Change During Microspore Embryogenesis In Relamentioning

confidence: 99%

“…Acetylation of lysines in histones has been recognized as a characteristic of actively transcribed genes by altering histone-DNA interactions and making the DNA more accessible to the transcription machinery [Xu et al, 2005;Earley et al, 2007]. N-terminal lysine residues of histones H3 and H4 are found to be acetylation targets for different histone acetyltransferases (HATs), enzymes which contribute to many plant development and adaptation processes in combined action with histone deacetylases [Pandey et al, 2002;Xu et al, 2005, Liu X et al, 2012. Changes in chromatin condensation-decondensation states have been reported at different developmental stages during microspore embryogenesis in relation to changes in chromatin function and cell activity [Testillano et al, 2000.…”

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confidence: 99%

Changes in Histone Methylation and Acetylation during Microspore Reprogramming to Embryogenesis Occur Concomitantly with BnHKMT and BnHAT Expression and Are Associated with Cell Totipotency, Proliferation, and Differentiation in Brassica napus

Rodríguez-Sanz

Moreno‐Romero

Solís

et al. 2014

Cytogenet Genome Res

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In response to stress treatments, microspores can be reprogrammed to become totipotent cells that follow an embryogenic pathway producing haploid and double-haploid embryos which are important biotechnological tools in plant breeding. Recent studies have revealed the involvement of DNA methylation in regulating this process, but no information is available on the role of histone modifications in microspore embryogenesis. Histone modifications are major epigenetic marks controlling gene expression during plant development and in response to environmental changes. Lysine methylation of histones, accomplished by histone lysine methyltransferases (HKMTs), can occur on different lysine residues, with histone H3K9 methylation being mainly associated with transcriptionally silenced regions. In contrast, histone H3 and H4 acetylation is carried out by histone acetyltransferases (HATs) and is associated with actively transcribed genes. In this work, we analyzed 3 different histone epigenetic marks: dimethylation of H3K9 (H3K9me2) and acetylation of H3 and H4 (H3Ac and H4Ac) during microspore embryogenesis in Brassica napus by Western blot and immunofluorescence assays. The expression patterns of histone methyltransferase BnHKMT and histone acetyltransferase BnHAT genes have also been analyzed by qPCR. Our results revealed different spatial and temporal distribution patterns for methylated and acetylated histone variants during microspore embryogenesis and their similarity with the expression profiles of BnHKMT and BnHAT, respectively. The data presented suggest the participation of H3K9me2 and HKMT in embryo cell differentiation and heterochromatinization events, whereas H3Ac, H4Ac, and HAT would be involved in transcriptional activation, totipotency, and proliferation events during cell reprogramming and embryo development.

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“…By contrast, deacetylation induces a more compact chromatin structure that is associated with transcriptional repression. Histone acetylation mediates the effects of various plant hormones (Pandey et al, 2002;Liu et al, 2012;Yamamuro et al, 2016), and several histone deacetylases are known to be involved in the regulation of gene expression in plants (Zhou et al, 2005;Zhu et al, 2011;Perrella et al, 2013;Wang et al, 2013). Little is known about histone acetyltransferases or HDACs in ethylene signaling, however.…”

Section: Discussionmentioning

confidence: 99%

Histone Deacetylases SRT1 and SRT2 Interact with ENAP1 to Mediate Ethylene-Induced Transcriptional Repression

Zhang

Wang

et al. 2018

Plant Cell

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Ethylene plays pleiotropic roles in plant growth, plant development, and stress responses. Although the effects of ethylene on plants are well documented, little is known about molecular-level events that result in transcriptional repression during the ethylene response. In this study, we found that two histone deacetylases, SRT1 and SRT2, interact with ENAP1, which associates with EIN2 in the nucleus. Genetic and transcriptome analyses revealed that SRT1 and SRT2 are required for negative regulation of certain ethylene-responsive genes. The acetylation of HISTONE3 at K9 (H3K9Ac) is specifically regulated by SRT1 and SRT2 in ethylene-repressed genes. In addition, the srt1 srt2 double mutation in Arabidopsis thaliana suppresses both the ENAP1ox and the EIN3ox constitutive ethylene response phenotypes, and the ethylene-induced transcriptional repression observed in EIN3ox plants is derepressed in the EIN3ox/srt1 srt2 mutant. SRT2 and ENAP1 both bind to promoter regions of genes negatively regulated by ethylene, reducing H3K9Ac levels and resulting in transcriptional repression. This work establishes a mechanism by which histone deacetylases SRT1 and SRT2 interact with ENAP1 to mediate transcriptional repression by regulating the levels of H3K9 acetylation in the ethylene signaling.

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Histone acetyltransferases in rice (Oryza sativaL.): phylogenetic analysis, subcellular localization and expression

Cited by 104 publications

References 81 publications

EIN2 mediates direct regulation of histone acetylation in the ethylene response

EIN2 mediates direct regulation of histone acetylation in the ethylene response

Changes in Histone Methylation and Acetylation during Microspore Reprogramming to Embryogenesis Occur Concomitantly with Bn<b><i>HKMT</i></b> and Bn<b><i>HAT</i></b> Expression and Are Associated with Cell Totipotency, Proliferation, and Differentiation in <b><i>Brassica napus</i></b>

Histone Deacetylases SRT1 and SRT2 Interact with ENAP1 to Mediate Ethylene-Induced Transcriptional Repression

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