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Epigenetic and Transcriptomal Regulatory Mechanisms in ROS- and Phytohormone-Dependent Regulation...
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Epigenetic and Transcriptomal Regulatory Mechanisms in ROS- and Phytohormone-Dependent Regulation of Plant Development

A special issue of Genes (ISSN 2073-4425). This special issue belongs to the section "Plant Genetics and Genomics".

Deadline for manuscript submissions: closed (10 February 2024) | Viewed by 5431

Special Issue Editors

Dr. Krystyna Oracz

E-Mail Website1 Website2
Guest Editor
Department of Plant Physiology, Institute of Biology, Warsaw University of Life Sciences - SGGW, Nowoursynowska 159 Str., 02-776 Warsaw, Poland
Interests: antioxidant system; gene silencing; light signaling; phytohormones; proteasome; protein turnover; reactive oxygen species; seed germination and dormancy; allelopathy; transcription factors; transcriptional and post-transcriptional regulation of gene expression
Dr. Taras Pasternak

E-Mail Website
Guest Editor
Instituto de Bioingeniería, Universidad Miguel Hernández, 03202 Elche, Spain
Interests: physiology and cell biology; plant tissue culture; molecular biology; cytochemistry; microscopy
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

Each step of the seed-to-seed plant development cycle is controlled by a combination of endogenous (i.e., phytohormones, reactive oxygen species (ROS)) and environmental (i.e.: light, temperature, stresses) factors resulting in a variety of phenotypic plasticity. As they are not mobile organisms, plants cannot change their surroundings, and they are forced to cope with changeable and often unfavorable growth conditions. An increasing volume of evidence highlights that epigenetic and transcriptional regulatory mechanisms can fine-tune gene activity and expression patterns, thus enabling plants to survive and reproduce successfully in unpredictable environments.

This Special Issue aims to present recent advances in understanding the involvement of epigenetical and transcriptional control of the ROS- and phytohormone-dependent regulation of plant development. Contributions by experts in the field in the form of research papers and critical reviews will be highly appreciated to extend our knowledge in the area.

Dr. Krystyna Oracz
Dr. Taras Pasternak
Guest Editors

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Genes is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2600 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • environmental factors
  • epigenetic regulation
  • gene expression
  • phytohormones
  • plant development
  • reactive oxygen species
  • signaling network

Published Papers (3 papers)

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Research

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27 pages, 5804 KiB  
Article
Histone Deacetylases HD2A and HD2B Undergo Feedback Regulation by ABA and Modulate Drought Tolerance via Mediating ABA-Induced Transcriptional Repression
by Yongtao Han, Amira Haouel, Elisabeth Georgii, Santiago Priego-Cubero, Christoph J. Wurm, Daniel Hemmler, Philippe Schmitt-Kopplin, Claude Becker, Jörg Durner and Christian Lindermayr
Genes 2023, 14(6), 1199; https://doi.org/10.3390/genes14061199 - 30 May 2023
Cited by 1 | Viewed by 1408
Abstract
Histone deacetylation catalyzed by histone deacetylase plays a critical role in gene silencing and subsequently controls many important biological processes. It was reported that the expression of the plant-specific histone deacetylase subfamily HD2s is repressed by ABA in Arabidopsis. However, little is known [...] Read more.
Histone deacetylation catalyzed by histone deacetylase plays a critical role in gene silencing and subsequently controls many important biological processes. It was reported that the expression of the plant-specific histone deacetylase subfamily HD2s is repressed by ABA in Arabidopsis. However, little is known about the molecular relationship between HD2A/HD2B and ABA during the vegetative phase. Here, we describe that the hd2ahd2b mutant shows hypersensitivity to exogenous ABA during the germination and post-germination period. Additionally, transcriptome analyses revealed that the transcription of ABA-responsive genes was reprogrammed and the global H4K5ac level is specifically up-regulated in hd2ahd2b plants. ChIP-Seq and ChIP-qPCR results further verified that both HD2A and HD2B could directly and specifically bind to certain ABA-responsive genes. As a consequence, Arabidopsis hd2ahd2b plants displayed enhanced drought resistance in comparison to WT, which is consistent with increased ROS content, reduced stomatal aperture, and up-regulated drought-resistance-related genes. Moreover, HD2A and HD2B repressed ABA biosynthesis via the deacetylation of H4K5ac at NCED9. Taken together, our results indicate that HD2A and HD2B partly function through ABA signaling and act as negative regulators during the drought resistance response via the regulation of ABA biosynthesis and response genes. Full article
(This article belongs to the Special Issue Epigenetic and Transcriptomal Regulatory Mechanisms in ROS- and Phytohormone-Dependent Regulation of Plant Development)
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17 pages, 3933 KiB  
Article
Genome-Wide Identification and Expression Analysis of SnRK2 Gene Family in Dormant Vegetative Buds of Liriodendron chinense in Response to Abscisic Acid, Chilling, and Photoperiod
by Quaid Hussain, Manjia Zheng, Wenwen Chang, Muhammad Furqan Ashraf, Rayyan Khan, Muhammad Asim, Muhammad Waheed Riaz, Mona S. Alwahibi, Mohamed S. Elshikh, Rui Zhang and Jiasheng Wu
Genes 2022, 13(8), 1305; https://doi.org/10.3390/genes13081305 - 22 Jul 2022
Cited by 4 | Viewed by 1817
Abstract
Protein kinases play an essential role in plants’ responses to environmental stress signals. SnRK2 (sucrose non-fermenting 1-related protein kinase 2) is a plant-specific protein kinase that plays a crucial role in abscisic acid and abiotic stress responses in some model plant species. In [...] Read more.
Protein kinases play an essential role in plants’ responses to environmental stress signals. SnRK2 (sucrose non-fermenting 1-related protein kinase 2) is a plant-specific protein kinase that plays a crucial role in abscisic acid and abiotic stress responses in some model plant species. In apple, corn, rice, pepper, grapevine, Arabidopsis thaliana, potato, and tomato, a genome-wide study of the SnRK2 protein family was performed earlier. The genome-wide comprehensive investigation was first revealed to categorize the SnRK2 genes in the Liriodendron chinense (L. chinense). The five SnRK2 genes found in the L. chinense genome were highlighted in this study. The structural gene variants, 3D structure, chromosomal distributions, motif analysis, phylogeny, subcellular localization, cis-regulatory elements, expression profiles in dormant buds, and photoperiod and chilling responses were all investigated in this research. The five SnRK2 genes from L. chinense were grouped into groups (I–IV) based on phylogeny analysis, with three being closely related to other species. Five hormones-, six stress-, two growths and biological process-, and two metabolic-related responsive elements were discovered by studying the cis-elements in the promoters. According to the expression analyses, all five genes were up- and down-regulated in response to abscisic acid (ABA), photoperiod, chilling, and chilling, as well as photoperiod treatments. Our findings gave insight into the SnRK2 family genes in L. chinense and opened up new study options. Full article
(This article belongs to the Special Issue Epigenetic and Transcriptomal Regulatory Mechanisms in ROS- and Phytohormone-Dependent Regulation of Plant Development)
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Review

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12 pages, 1636 KiB  
Review
Persistence of Abscisic Acid Analogs in Plants: Chemical Control of Plant Growth and Physiology
by Christine H. Nguyen, Dawei Yan and Eiji Nambara
Genes 2023, 14(5), 1078; https://doi.org/10.3390/genes14051078 - 13 May 2023
Cited by 3 | Viewed by 1450
Abstract
Abscisic acid (ABA) is a plant hormone that regulates numerous plant processes, including plant growth, development, and stress physiology. ABA plays an important role in enhancing plant stress tolerance. This involves the ABA-mediated control of gene expression to increase antioxidant activities for scavenging [...] Read more.
Abscisic acid (ABA) is a plant hormone that regulates numerous plant processes, including plant growth, development, and stress physiology. ABA plays an important role in enhancing plant stress tolerance. This involves the ABA-mediated control of gene expression to increase antioxidant activities for scavenging reactive oxygen species (ROS). ABA is a fragile molecule that is rapidly isomerized by ultraviolet (UV) light and catabolized in plants. This makes it challenging to apply as a plant growth substance. ABA analogs are synthetic derivatives of ABA that alter ABA’s functions to modulate plant growth and stress physiology. Modifying functional group(s) in ABA analogs alters the potency, selectivity to receptors, and mode of action (i.e., either agonists or antagonists). Despite current advances in developing ABA analogs with high affinity to ABA receptors, it remains under investigation for its persistence in plants. The persistence of ABA analogs depends on their tolerance to catabolic and xenobiotic enzymes and light. Accumulated studies have demonstrated that the persistence of ABA analogs impacts the potency of its effect in plants. Thus, evaluating the persistence of these chemicals is a possible scheme for a better prediction of their functionality and potency in plants. Moreover, optimizing chemical administration protocols and biochemical characterization is also critical in validating the function of chemicals. Lastly, the development of chemical and genetic controls is required to acquire the stress tolerance of plants for multiple different uses. Full article
(This article belongs to the Special Issue Epigenetic and Transcriptomal Regulatory Mechanisms in ROS- and Phytohormone-Dependent Regulation of Plant Development)
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