Mechanisms of ROS Regulation of Plant Development and Stress Responses.

Plants are subjected to various environmental stresses throughout their life cycle. Reactive oxygen species (ROS) play important roles in maintaining normal plant growth, and improving their tolerance to stress. This review describes the production and removal of ROS in plants, summarizes recent progress in understanding the role of ROS during plant vegetative apical meristem development, organogenesis, and abiotic stress responses, and some novel findings in recent years are discussed. More importantly, interplay between ROS and epigenetic modifications in regulating gene expression is specifically discussed. To summarize, plants integrate ROS with genetic, epigenetic, hormones and external signals to promote development and environmental adaptation.

Introduction

It is well known that improving crop yield and productivity requires improved understanding of the coordinated growth of plant tissues and organs. Plant morphogenesis is regulated by both intrinsic genetic programmes and external environmental factors. Reactive oxygen species (ROS) are regarded as by-products of plant aerobic metabolism and are generated in several cellular compartments such as chloroplasts (Dietz et al., 2016), mitochondria (Huang et al., 2016), and peroxisomes (Sandalio and Romero-Puertas, 2015). ROS not only cause irreversible DNA damage and cell death, but also function as important signaling molecules that regulate normal plant growth, and responses to stress. This suggests that ROS have a dual role in vivo depending on different levels of reactivity, sites of production and potential to cross biological membranes (Miller G. et al., 2010). From an evolutionary point of view, the emergence of oxygen-releasing photosynthetic life had a profound impact on all living organisms (Rosing and Frei, 2004). As the source of all ROS, oxygen (O2) is stable and not very reactive in plants. However, it can be converted into high-energy ROS in several organelles by various processes that affect plant metabolism (Mittler, 2017). As reactive molecules, ROS oxidize and modify some cellular components and prevent them from performing their original functions (Apel and Hirt, 2004; Mittler et al., 2004). Under unfavorable circumstances, plants generate a large number of ROS species involved in regulation of various processes including pathogen defense, programmed cell death (PCD), and stomatal behavior (Gill and Tuteja, 2010; Schippers et al., 2016). These reactions exert profound or irreversible effects on development of tissues and organs, often leading to abnormal plant growth or death (Mittler, 2017; Tognetti et al., 2017). Additionally, ROS interplay with epigenetic modifiers and hormones to control plant developmental processes, and stress responses (Gill and Tuteja, 2010; Tsukagoshi et al., 2010; Zeng et al., 2017; Kong et al., 2018). In general, low ROS levels are necessary for the progression of several basic biological processes, including cellular proliferation and differentiation (Tsukagoshi et al., 2010; Zafra et al., 2010). At higher levels ROS pose a significant threat that may eventually lead to DNA damage, and incorrect timing of PCD directly (Xie et al., 2014).

Generation and Removal of ROS in Plants

In plants, ROS exist in ionic and/or molecular states. Ionic states include hydroxyl radicals (•OH) and superoxide anions (), while molecular states mainly include hydrogen peroxide (H2O2), and singlet oxygen (1O2) (Blokhina, 2003; Apel and Hirt, 2004; Mittler et al., 2004). Each type of ROS has a different oxidative capacity and affects different physiological and biochemical reactions regulated by different genes in plants. As an excited oxygen, singlet oxygen (1O2) is usually generated in chloroplast photosystem II (PSII) and has strong oxidizability. Although 1O2 exists for a very short time and is extremely unstable in cells, once generated, it has great impact on photosynthesis. Superoxide anion () is the precursor of various ROS because of its instability and strong oxidation/reducibility. could maintain the stability of plant stem cells (Zeng et al., 2017). However, excessive also causes increased ROS levels and eventually leads to cell death (Gill and Tuteja, 2010). In rice, roots, and stems seem to be the main organs of production, which might be related to their adaptation to the aquatic environment (Yamauchi et al., 2017). can be produced by photosynthetic electron transport chains, mitochondrial respiratory electron transport chains, and membrane-dependent NADPH oxidase (RESPIRATORY BURST OXIDASE HOMOLOG proteins) systems, which react with hydrogen ions to form oxygen molecules or with superoxide dismutase (SOD) to form H2O2 (Bose et al., 2014; Mhamdi and Van Breusegem, 2018). Among these, H2O2 is considered an important redox molecule, given its specific physical and chemical properties, including a remarkable stability within cells (half life of 10–3 s), and rapid and reversible oxidation of target proteins (Mittler, 2017; Mhamdi and Van Breusegem, 2018). H2O2 can be transported by aquaporins localized in the cell membrane, not only causing long-distance oxidative damage (Bienert et al., 2007; Wudick et al., 2015), but also participating in cell signaling regulation (Miller E.W. et al., 2010). H2O2 has been shown to participate in cell differentiation, senescence, PCD, and cell wall formation in plants (Moller et al., 2007; Karkonen and Kuchitsu, 2015; Schippers et al., 2016; Waszczak et al., 2016; Ribeiro et al., 2017; Zeng et al., 2017). Additionally, H2O2 interplays with hormones to regulate plant developmental process and stress responses. •OH can be formed when the O−O double bond in H2O2 cleaves. •OH is active and usually acts very near its production site. Therefore, •OH is the most reactive ROS, and it can react with all biological molecules. It can oxidize the cell wall polysaccharides, resulting in cell wall loosening (Karkonen and Kuchitsu, 2015), and it can also induce DNA single-strand breakage (Hiramoto et al., 1996). Under normal conditions, excessive ROS can be scavenged by various antioxidative defense mechanisms. The equilibrium between production and scavenging of ROS may be perturbed by various biotic and abiotic stresses. These disturbances of the equilibrium can cause sudden increases in intracellular ROS levels and significantly damage cell structures. Taken together, plants are obliged to cope with excessive ROS generation in order to maintain cellular redox homeostasis. Accordingly, the augmented ROS levels are sensed and restrictively controlled by a battery of ROS-scavenging systems.

ROS scavenging mechanisms can be classified into two types: enzymatic and non-enzymatic antioxidant defense systems, which work synergistically and interactively to neutralize free radicals. The enzymatic systems mainly include SOD, catalase (CAT), ascorbate peroxidase (APX) and glutathione peroxidase (GPX) (Apel and Hirt, 2004). In rice, most of these genes participating in ROS removal exhibit tissue/organ-specific expression profiles (Table 1). However, their function in ROS homeostasis and regulation of gene expression remain unclear. Among the enzymatic systems, SOD is able to rapidly convert ⋅OH to H2O2, and the generated H2O2 is then converted to water and dioxygen by peroxidase and CAT (Gechev et al., 2006; Mittler, 2017). The non-enzymatic systems are mainly mediated by low molecular mass antioxidants, such as glutathione, ascorbic acid (AsA) and flavonoids, which are known to remove hydroxyl radicals and singlet oxygen (Gechev et al., 2006). When ROS levels in the cell exceed the range of the scavenging systems, cells enter the oxidative state, resulting in oxidative modification and cell damage which can lead to death. When ROS levels are low, the cells are in the reduced state, and ROS can be used as second messengers that participate in stem cell maintenance, cell division, and differentiation, organogenesis, and biotic and abiotic responses, etc. (Fujita et al., 2006; Zeng et al., 2017). Thus, it is necessary to maintain ROS levels within the right range for plant health. Of course, alterations in ROS levels that are part of the normal function of the plant should not exceed the threshold boundary between cytostatic and cytotoxic levels.

TABLE 1

Genes that participate in the removal of ROS and their expression profiles in various rice tissues and organs.

Roles of ROS in Plant Growth and Development

The appearance of aerobic conditions gave organisms the opportunity to use oxygen as an electron acceptor, while enabling them to harness its reactive properties for metabolism and signaling (Schippers et al., 2012; Foyer and Noctor, 2016). It was therefore, inevitable that evolution in an oxygenic environment would necessitate integration of oxidative processes and ROS sensing and signaling into the developmental programs. From seed germination to plant senescence, ROS are dynamically generated or removed, which makes plants regulate their development in order to adapt to different environments. However, the effects of ROS on plant growth and development are more complex due to the temporal and spatial variability of ROS regeneration and interplay between them in plants.

ROS Participate in the Maintenance of Plant Vegetative Apical Meristems

Emerging evidence indicates that ROS homeostasis shapes plant vegetative apex development (Figure 1). In Arabidopsis thaliana, primarily accumulates in the meristematic zone of the root tip and is required for cell division, whereas H2O2 mainly accumulates in the elongation zone, which confers cell differentiation (Tsukagoshi et al., 2010). These two different ROS micro-environments coincide with the meristematic and the elongation zone, and their distributions are important for localization of the transition zone. Because of the ROS species gradients, cells entering the transition zone can still proliferate. Once the ratio of to H2O2 reaches a certain level, cells stop dividing and begin to elongate (Dunand et al., 2007). Therefore, the ROS balance in the transition zone is essential. The transcription factor UPB1 (UPBEAT1) is one of the key regulators maintaining this balance. Further studies showed that H2O2 itself affects UPB1 expression, and this regulatory system contains a feedback loop that plays a role in both ROS homeostasis and root growth (Tsukagoshi et al., 2010). In addition, the quiescent center (QC) and distal stem cell (DSC) are required for root apical meristem (RAM) size maintenance. APP1 (Arabidopsis thaliana P-loop NTPase1) affects root stem cell niche (SCN) identity through its control of local ROS homeostasis. Disruption of APP1 is accompanied by a reduction in ROS levels, a rise in the rate of cell division in the QC, and the promotion of root DSC differentiation, suggesting that ROS levels are directly related to RAM size in Arabidopsis (Yu et al., 2016). More importantly, ROS, together with hormones and other signal molecules, regulate plant root primary growth. In the RAM, ROS, and auxin signaling are antagonistically regulated to balance root meristem growth (Tognetti et al., 2017). The imbalance of different ROS species or accumulation of ROS induced by high levels of glucose oxidizes active IAA, resulting in its degradation, impairs root meristem activity, and subsequently inhibits root growth through the conserved macroautophagy/autophagy pathway (Huang et al., 2019). The findings suggest that autophagy is an essential mechanism for glucose-mediated maintenance of the root meristem by modulating the homeostasis of cellular ROS and promoting the degradation of the oxidatively damaged peroxisomes. Recent studies have shown that Brassinosteroids (BRs) also control root tip stem cell activity through ROS. Binding of BR to receptor kinase BRI1 (BRASSINOSTEROID INSENSITIVE1) increases cellular levels of H2O2, and the increased H2O2 induces oxidative modification of BZR1 (BRASSINAZOLE-RESISTANT1) and BES1 (BRI1-EMSSUPPSSOR1), the key transcription factors in BR signaling. The oxidative modification enhances BZR1 transcriptional activity by promoting its interaction with PIF4 (PHYTOCHROME INTERACTING FACTOR4) and ARF6 (AUXIN RESPONSE FACTOR6), thereby promoting root meristem development (Lv et al., 2018; Tian et al., 2018). However, at present, there is limited information about the relationship between ROS and cytokinins in regulation of apex growth. Taken together, it is clear that the hormonal and ROS networks can no longer be regarded as independent mechanisms. Rather, they are interconnected in order to trigger physiological and stress adaptation responses. Glutathione reductase (GR) plays a key role in controlling the levels of reduced glutathione in the Arabidopsis RAM. Excessive accumulation of oxidized glutathione in GR2 (Glutathione reductase2) mutants results in root apical cells entering the oxidized state and eventually leads to abnormal growth. Exogenous application of reduced glutathione partially restores the normal root phenotype. Glutathione regulates ROS levels in cells through both auxin/PLETHORA (PLT) dependent and independent pathways, thereby participating in and maintaining ROS homeostasis in the RAM (Yu et al., 2013). VTC1, which is a rate-limiting gene affecting the quantity of AsA, as well as several downstream steps, is shown to be a key modulator of H2O2 levels. Knockout of VTC1 resulted in elevated H2O2 levels and numbers of QC cells and periclinal divisions in the RAM (Kka et al., 2018). This result revealed the interaction between AsA and H2O2 in maintaining RAM size. Accumulating evidence has shown that the redox state of the cell affects its proliferation/differentiation program. For example, in Arabidopsis embryonic roots, division of cells in G1 phase is accelerated if they are in the oxidized state and slowed if they are in the reduced state (de Simone et al., 2017). These results suggest that controlled oxidation is a key feature of the early stages of the plant cell cycle.

FIGURE 1

ROS involved in vegetative apical meristem identity in the shoot apical meristem. WUS, WUSCHEL, a regulator maintaining stem cell identity in shoot apical meristem. and H2O2 activate and repress WUS activity to balance stem cell identity and differentiation, respectively. DCC1, a functional thioredoxin that inhibits the accumulation of ROS in the cell, and creates conditions for SAM formation. TCP, TEOSINTE BRANCHED/CYCLOIDEA/PCF, a transcriptional regulator of the cell cycle, is inhibited by higher ROS levels in the SAM. TCPox (TCP in oxidated state)/TCPred (TCP in reduced state) can be regulated by GRX (Glutaredoxin). FtSH4 (also named AtFTSH4), an ATP-dependent mitochondrial protease, associated with internal oxidative stress and mitochondrial function in the SAM. UPB1, transcription factor UPBEAT1, plays an important role in maintaining and H2O2 balance in the RAM. RSL4, ROOT HAIR DEFECTIVE SIXLIKE 4, a bHLH transcription factor, activates ROS-related gene expression and regulates root hair elongation. AIM1, ABNORMAL INFLORESCENCE MERISTEM, regulates ROS levels via the SA synthesis pathway in the RAM. APP1, Arabidopsis thaliana P-loop NTPase1, controls ROS homeostasis in the stem cell niche (SCN) of the root tip. VTC1, an Enzyme Involved in Ascorbate Biosynthesis, regulates H2O2 levels in the RAM. BRI1, BRASSINOSTEROID INSENSITIVE 1, and BZR1, BRASSINAZOLE-RESISTANT1, are modified by ROS. QC, quiescent center; BR, brassinosteroids; SA, salicylic acid; GR, glutathione reductase; RH, root hair. Arrows indicate positive regulation. Bars indicate negative regulation. Unbroken lines indicate direct regulation, and broken lines indicate unclear mechanism.

In the Arabidopsis shoot apical meristem (SAM), enrichment of in stem cells activates the WUSCHEL gene to maintain stem cell activities, whereas H2O2 accumulation in the peripheral zone (PZ) promotes cell differentiation. Moreover, H2O2 negatively regulates generation in stem cells, and increased H2O2 levels or scavenging leads to the termination of stem cells (Zeng et al., 2017). These results suggest that ROS mediate the control of plant stem cell fate, and the balance between and H2O2 is essential for shoot stem cell maintenance and differentiation. The expression of transcription factor TCP (TEOSINTE BRANCHED/CYCLOIDEA/PCF), which is associated with the cell cycle, is inhibited by higher ROS levels in the SAM. At the same time, glutaredoxin (GRX) reduces ROS levels in the SAM. Lower ROS levels activate TCP and directly regulate the expression of cell cycle-related genes CYCA2;3, and CYCB1;1, thus promoting SAM cell division and maintaining SAM stability (Viola et al., 2013; Schippers et al., 2016). Recently, a novel thioredoxin DCC1 has been shown to determine the shoot regeneration capacity of various Arabidopsis ecotypes. Further studies demonstrated that DCC1 altered the activity of respiratory chain NAD(P)H dehydrogenase complex I. Knock-out of DCC1 triggered production of mitochondrial ROS. The process further regulates shoot regeneration. Meanwhile, six different SNPs (Single Nucleotide Polymorphism) in the DCC1gene sequence were found to be closely related to bud regeneration in different Arabidopsis ecotypes, and ROS levels varied in ecotypes harboring different SNPs (Zhang et al., 2018). Taken together, these results demonstrate that modulation of ROS homeostasis plays an essential role in many processes from apical meristem maintenance to de novo shoot initiation.

ROS Trigger Plant Organ Morphogenesis

As signaling components, ROS are distributed in all plant tissues, especially in metabolically active tissues. Maintenance of ROS homeostasis and ROS generation regulates seed germination through GA and/or ABA metabolism and signaling in Arabidopsis and barley, respectively (Baek et al., 2015; Ishibashi et al., 2015). Late embryogenesis abundant protein OsLEA5 interacted with zinc finger transcription factor ZFP36 to co-regulate ABA-inhibited seed germination by controlling the expression of APX OsAPX1 in rice (Huang et al., 2018). Phenylalanine (Phe) biosynthetic activity of AROGENATE DEHYDRATASE3 (ADT3) played a critical role in coordinating ROS homeostasis and cotyledon development in etiolated Arabidopsis seedlings. The results revealed that cytosolic Phe played a critical role during the transition of seedlings from heterotrophy to autotrophy by protecting the cells from oxidative damage, and by providing substrates for defense (Para et al., 2016). ROS are also thought to play essential roles in leaf development, senescence and organ dormancy. For instance, expression of CAT2 (Catalase 2) is reduced in the leaves of Arabidopsis upon bolting. This results in accumulation of H2O2 which promotes the expression of the WRKY53 gene, which is required for leaf senescence (Zimmermann et al., 2006). Loss of function of mitochondrial ATP-dependent protease FtSH4 increases ROS, and is involved in leaf senescence via regulation of WRKY-dependent salicylic acid (SA) accumulation and signaling (Zhang et al., 2017c). Potato tuber dormancy is a complicated physiological process. When levels are inhibited, tuber sprouting is delayed. When treated with exogenous H2O2, potato tuber dormancy is released (Liu et al., 2017). This indicates that different ROS play different roles during the progression of potato tuber dormancy. Similarly, the concentration of H2O2 also dynamically changes in olives as they progress from bud formation through fertilization, which indicates that the difference in H2O2 concentrations has important physiological significance for the development of different organs (Zafra et al., 2010). During the process of Arabidopsis vernalization and flowering, the content of ROS initially increases and then decreases. This suggests that from the initiation of floral buds to maturation of sexual organs, ROS levels might play different roles (Zimmermann et al., 2006). In rice, homeobox gene MADS3 has been proved to be essential for stamen formation during early floral development. However, at later stages of anther development, MADS3 regulates ROS homeostasis, and abnormal expression of MADS3 causes the accumulation of and pollen sterility (Hu et al., 2011). PEROXIDASE9 and PEROXIDASE40, which catalyze the oxidation of various substrates by H2O2, are genetically redundant and essential for proper anther and pollen development in Arabidopsis, likely through their extensin cross-linking activity (Jacobowitz et al., 2019). OsCIPK31 perceives the response to stresses and regulates ROS accumulation and IAA distribution in the panicle. Excess IAA might lead to ROS accumulation in the apical spikelet, which ultimately leads to cell death in rice panicles (Peng et al., 2018). H2O2 and superoxide are formed during lateral root (LR) development, and contribute to the elongation of LRs but, intriguingly, not to the initiation of LR primordia (Manzano et al., 2014). In addition, ROS are also essential for the development of crown roots (CRs) in rice. WOX11, a WUSCHEL-related homeobox transcription factor, is required in crown root development (Zhao et al., 2009). In wox11 mutants, significant alteration is observed in the expression of many genes involved in the regulation of ROS homeostasis (Jiang et al., 2017). This suggests that ROS might be involved in crown root development controlled by WOX11. Accumulation of ethylene in rice CRs promotes the production of ROS under flooding. ROS together with other signals trigger epidermal cell death, thus promoting crown root emergence and elongation (Steffens et al., 2012). SA inhibits the expression of ROS scavenging-related genes, which increases ROS levels and promotes root meristem activity. However, decreased ROS levels in the ABNORMAL INFLORESCENCE MERISTEM (AIM1) mutant, which participates in SA synthesis, resulted in inhibition of rice crown root growth. Exogenous application of SA or H2O2 could partially restore root development (Xu et al., 2017). These results further support the interplay between SA, ethylene and ROS in rice crown root development. RSL4 (ROOT HAIR DEFECTIVE SIXLIKE 4) is a member of the auxin-responsive factor family. In Arabidopsis, auxin promotes the expression of a series of ROS-related genes by activating the expression of RSL4, thereby regulating the elongation of root hair cells, indicating that ROS also play an important role in root hair development (Mangano et al., 2017). These findings establish a molecular link between auxin and ROS-mediated polar root hair growth.

ROS Participate in Plant Stress Responses

A great deal of evidence has shown that environmental factors such as heat (Zhao et al., 2018), cold (Kawarazaki et al., 2013), drought (Lee et al., 2012), Al toxicity (Wu et al., 2017), organic pollutants (OPs) (Ahammed et al., 2017) and pathogens (Kim and Hwang, 2014; Yang et al., 2017) could induce ROS generation in plant cells (Table 2). ROS, acting as signaling molecules, trigger signal transduction pathways in response to those stresses. On the other hand, ROS cause irreversible cellular damage through their strong oxidative properties, which promote alterations in plant morphological structures that enhance resistance (Wahid et al., 2007; Bose et al., 2014; Frederickson Matika and Loake, 2014). Because of the existence of many interconvertible ROS, it is very difficult to distinguish between the cytotoxic and signaling events that are induced by a particular ROS. It should be pointed out that although ROS cause cell death, it is a necessary process to confer resistance to stress. Altogether, stress-induced ROS-activating responses have to occur rapidly with the appearance of the stress and should decay when the stress disappears. Plants lacking AtFtSH4, an ATP-dependent mitochondrial protease, exhibited an intriguing phenotype of precocious cessation of growth at both the SAM and RAM when grown at elevated temperature (LD 31°C). This was associated with accumulation of internal oxidative stress and progressive mitochondrial dysfunction (Dolzblasz et al., 2016, 2018). These results reveal that maintaining mitochondrial functionality within the SAM and RAM, which depends on AtFtSH4, is vital to preserve stem cell activity and adaptation to temperature stress throughout development. Ethylene accumulation induces the expression of RBOHH, a member of the NADPH oxidase gene family. Knock out of RBOHH by CRISPR/Cas9 reduces ROS accumulation and inducible aerenchyma formation in rice roots, which is essential for rice to adapt to flooding and other oxygen-deficient conditions (Yamauchi et al., 2017). Under drought conditions, ABA prevents H2O2 accumulation through induction of CAT OsCATB expression and protects cells against ROS oxidative damage (Ye et al., 2011). When wheat E3 ubiquitin ligase TaPUB1 (The Plant U-Box Proteins 1) is transfected into tobacco, less accumulation of ROS and stronger antioxidant capacity are detected in the transgenic plants, thereby improving the survival rate of transgenic tobacco in drought stress (Zhang et al., 2017a). In Arabidopsis, APETALA2/ETHYLENE RESPONSE FACTOR (AP2/ERF) transcription factor RRTF1 (Redox Responsive Transcription Factor 1) is a component of the core redox signaling network. Its expression is rapidly and transiently stimulated by various ROS generated by biotic and abiotic signals. Elevated RRTF1 levels in plants causes ROS accumulation, which suggests that RRTF1 amplifies ROS formation in response to stresses. Stimulation of ROS production by RRTF1 might be important for a rapid and transient establishment of local ROS maxima to induce appropriate downstream responses (Matsuo et al., 2015). When pathogens invade, plants stimulate ROS production, which is rapidly triggered following detection of a pathogen and may synergistically activate the hypersensitive response (HR) (Delledonne et al., 2001). In plant disease resistance, ROS play a positive role and directly kill invading bacteria (Paiva and Bozza, 2014), and at the same time enhance thickening of adjacent cell walls to prevent spread of invading pathogens (Wang and Higgins, 2005). The rapid production of the ROS burst is a conserved signaling output in immunity across kingdoms. To protect against infection by fungal pathogens, plants have developed the pattern-recognition receptor (PRRs) for chitin perception, which triggers the intracellular activation of mitogen-activated protein kinase (MAPK) cascades for the rapid production of ROS (Kawasaki et al., 2017). In Arabidopsis, PRR-Associated Kinase BIK1 directly phosphorylates NADPH oxidase RBOHD and causes the PAMP-induced ROS burst and antibacterial immunity (Kadota et al., 2014). Additionally, environmental pollution by OPs also induces accumulation of both H2O2 and nitric oxide (NO) in root tips, resulting in increased malondialdehyde (MDA) content, an indicator of membrane lipid peroxidation, and abnormal root growth. Plant growth and stress tolerance regulator 24-epibrassinolide (EBR) induces non-enzymatic and enzymatic antioxidant defense systems in cucumber, and increases the content of antioxidants such as SOD, CAT, and GSH, that maintains the homeostasis of ROS in cells, consequently enhancing the resistance of cucumber to OPs (Ahammed et al., 2017).

TABLE 2

ROS involved in plant stress responses.

Stress response	Relative ROS	Gene or phytohormone	Source	References
Waterlogging	O2⋅-, H2O2	Ethylene, OsRBOHH	Rice	Yamauchi et al.,2017
Water stress	H2O2	ABA, OsCATB	Rice	Ye et al.,2011
High temperature	O2⋅-, H2O2	OsCATB	Rice	Zhao et al.,2018
Disease resistance	H2O2	Ethylene, OsEIN2	Rice	Yang et al.,2017
Cold temperature	O2⋅-, H2O2	AtSRC	Arabidopsis	Kawarazaki et al.,2013
Plant immune	–	AtRBOHD	Arabidopsis	Kadota et al.,2014
Drought	O2⋅-, H2O2	ABA, AtNTL4	Arabidopsis	Lee et al.,2012
Al stress	H2O2	AtPRX64	Tobacco	Wu et al.,2017
Organic pollutants treatment	H2O2, NO	24-Epibrassinolide	Cucumber	Ahammed et al.,2017
Microbial pathogens	H2O2	SA, CaPAL1	Pepper	Kim and Hwang,2014

Interplay Between ROS and Epigenetic Modification

Epigenetic modifications, including both post-translational modifications of histone proteins and chemical modifications of DNA, often help regulate the expression of genes in specific redox pathways. Conversely, ROS have impacts on the epigenetic mechanisms of gene regulation. In mammals, histone deacetylases (HDACs) function in epigenetic regulation in connection with oxidative stress (Shimazu et al., 2013). HDACs can change conformation, consequently diminishing their catalytic activity or altering their cellular localization under oxidative stress (Doyle and Fitzpatrick, 2010). On the other hand, increases in ROS result in increases in various histone modifications such as H3K4me2/3, H3K79me3, H3k27me3, and H3K9me2, due to inhibition of histone demethylases (Chen et al., 2006; Zhou et al., 2008; Niu et al., 2015). Growing evidence reveals a close link between ROS metabolism and epigenetic regulation during plant growth and environmental acclimation. Four distinct DNA demethylases, REPRESSOR OF SILENCING 1 (ROS1), DEMETER (DME), DME-like 2 (DML2), and DML3 catalyzed the active removal of 5-methylcytosine from DNA (Zhang and Zhu, 2012; Wang et al., 2016). Recent studies demonstrate that ROS1 and DME interact directly with the Fe–S cluster assembly machinery, which is highly susceptible to oxidation by ROS. Their activity can consequently be altered by stress-derived oxidative conditions (Shen et al., 2016). This result reveals a connection between DNA methylation and ROS metabolism. Rice plants overexpressing OsSRT1, a SILENT INFORMATION REGULATOR2 (SIR2)-related HDAC gene, have shown an enhanced tolerance to oxidative stress, while OsSRT1 RNAi induces H2O2 overproduction, DNA fragmentation, and cell death (Huang et al., 2007). Recent studies also showed that OsSRT1 not only inhibits the “moonlighting” transcriptional activation activity of glyceraldehyde-3-phosphatedehydrogenase (GAPDH),which binds the promoters of glycolytic genes and stimulates their expression, but also reduces the acetylation of GAPDH lysine residues and its nuclear accumulation that are otherwise enhanced by oxidative stress in rice seedlings (Zhang et al., 2017b). Cellular oxidation could reduce HDA19 and HDA9 activity, thereby enhancing histone acetylation and transcription of stress-responsive genes in Arabidopsis (Liu et al., 2015). Recent studies also showed that changes in ROS levels caused apparent epigenetic modifications such as acylation, which in turn regulated the activity of ROS related proteins in rice leaves (Zhou et al., 2018). This suggests that the interplay between ROS and acylation might play important roles in the PTMs (post-translational modifications) of leaf proteins that have key metabolic functions. We also found that the expression of some ROS-related genes was linked to changes in their acetylation modification during crown root development in rice (Jiang et al., 2017). This implies there is close cooperation between ROS and epigenetic regulation of gene expression during rice crown root development. However, further studies are needed regarding how interactions between ROS and epigenetic modifications regulate gene expression. Histone demethylation is catalyzed by two different classes of enzymes: the jumonji C (JmjC) demethylases, which are Fe (II)- and 2-oxoglutarate-dependent dioxygenases, and FAD-dependent amino oxidases, including lysine-specific demethylase 1 (LSD1) (Chen et al., 2011). There is a clear connection between histone methylation, energy metabolism, and cell redox balance in animals and yeast cells (Niu et al., 2015). Many JmjC proteins have been reported to respond to plant exposure to stress by modulating the expression of stress-related genes, probably acting together with ROS generated during stressful conditions, leading to the establishment of a complex network of defense responses (Shen et al., 2016). However, it is not clear whether the activity of JmjC proteins is directly altered by ROS. In mammalian cells, glutathione (GSH) seems to be a new post-translational modifier of the histone code, capable of modulating the chromatin structure. Glutathionylation of histone H3 affects nucleosome stability leading to a more open chromatin structure (Garcia-Gimenez and Pallardo, 2014). This reveals a new connection between epigenetic control and cellular redox homeostasis. In addition, GSH can influence epigenetic processes, inhibiting the activity of the enzymes involved in the synthesis of S-adenosyl-methionine (SAM), which is used by DNA methyltransferases (DNMTs) and HMTs as a substrate for DNA and histone methylation, respectively (Garcia-Gimenez and Pallardo, 2014; Garcia-Gimenez et al., 2017). Therefore, the modulation of GSH metabolism may control oxidative stress and epigenetic mechanisms. However, this still needs to be extensively investigated in plants.

Discussion and Prospects

During recent years, sources of ROS, mechanisms of production and removal, and key antioxidant molecules and enzymes that scavenge ROS have been reported in plants. However, much of our current knowledge about ROS remains unclear. Firstly, most ROS have short half-lives and are prone to chemical reactions to produce water or secondary ROS. It is still difficult to accurately study how various ROS lead to signaling and drive plant growth and development in a strictly localized and timely manner. Secondly, we do not understand the interplay between the spatio-temporal production of various ROS and their activities. In certain cases, it is very difficult to distinguish whether oxidative stress is the cause or an effect of cellular damage. This restricts our further understanding of their roles in plants. Thirdly, the abnormal accumulation of ROS also leads to oxidative modification of some microRNA and proteins. The mismatch between oxidized miRNAs and proteins might be involved in the initiation of apoptosis, that eventually leads to the cell death (Wang et al., 2015; Dumont and Rivoal, 2019; Shekhova et al., 2019; Smirnoff and Arnaud, 2019). These findings shed new light on our current understanding of the significance of ROS functions. It will be interesting to characterize whether oxidatively modified miRNA or proteins are involved in plant growth and development. Finally, recent studies showed that interplay between ROS levels and epigenetic modifications had important roles in plant development and stress responses, and biotic and abiotic stresses greatly affected plant growth and redox states. However, the regulatory mechanism remains unknown. It will be important to explore the cross-talk between ROS and epigenetic modifications, which will contribute to understanding the mechanisms whereby ROS homeostasis, epigenetics and plant adaptation and tolerance are mutually regulated.

Author Contributions

YZ wrote and revised the manuscript. HH collected all the materials and wrote the draft. FU and D-XZ revised the manuscript. MY gave some suggestion and advice.

Conflict of Interest Statement

The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.