Transcription Factors Associated with Leaf Senescence in Crops

Abstract

Leaf senescence is a complex mechanism controlled by multiple genetic and environmental variables. Different crops present a delay in leaf senescence with an important impact on grain yield trough the maintenance of the photosynthetic leaf area during the reproductive stage. Additionally, because of the temporal gap between the onset and phenotypic detection of the senescence process, candidate genes are key tools to enable the early detection of this process. In this sense and given the importance of some transcription factors as hub genes in senescence pathways, we present a comprehensive review on senescence-associated transcription factors, in model plant species and in agronomic relevant crops. This review will contribute to the knowledge of leaf senescence process in crops, thus providing a valuable tool to assist molecular crop breeding.

1. Introduction

Senescence is a natural phenomenon highlighted by a reduction in leaf functionality, clearly identified by changes in leaf color. It is a controlled process in which functional structures from leaves are dismantled to generate nutrients that are recycled and remobilized into developing organs, like young leaves, flowers and grains [1,2,3]. Because of climate change, plants have developed various strategies to respond efficiently to the changing environment. Under optimal conditions, the onset of leaf senescence depends mainly on the ontogeny of the plant. This process, however, can be induced prematurely by endogenous and exogenous stimuli, like biotic or abiotic stress conditions, to accelerate the remobilization of nutrients [1]. In annual species, this process provides enough energy to start the reproductive stage, in order to culminate its life cycle and generate offspring. In perennial species, on the other hand, recycling of nutrients implies the initiation of the vegetative rest stage [4].

Chloroplasts are the first organelles that begin to lose functionality. Their structures are dismantled by specific enzymes and chlorophyll is massively degraded, thus becoming a readily accessible source of nitrogen and causing leaf yellowing [5]. Free amino acids are remobilized or used as an alternative energy source during mitochondrial respiration [6]. Meanwhile, macromolecules, like fatty-acids and nucleic acids, are degraded and the nutrients derived from this catabolism are dynamically transported to younger tissues [7]. Micronutrients like Fe, Cu, Mn and Zinc are essential for seed germination and have an important role in grain quality. Nutrient remobilization of senescent leaves and root uptake occur mainly through the phloem [8,9]. However, the ions remobilization can vary between species and because of growth conditions [10,11]. On the other hand, leaf cells have different mechanisms regarding nutrient recycling, for example, they can degrade pigments inside the chloroplast [12], or stomal proteins inside the central vacuole or via senescence-associated vacuoles (SAV) [13,14].

During leaf development, phytohormones and other biochemical compounds regulate different signaling pathways mainly by modulating the activation or repression of different genes including transcription factors (TFs) [15]. Studies on leaf senescence, along with the methods used to analyze and describe this process, especially at the molecular level, have increased over the last years [2,16,17,18,19,20,21]. Next generation sequencing (NGS) technologies have increased our knowledge on this process [22,23,24,25]. TFs are involved in different developmental processes and many of them act as putative master regulators and hub genes in signaling processes [1,16,25,26,27]. Multiple studies have described correlations between transcription expression patterns and biological functions of TFs, mainly to elucidate the molecular mechanism between leaf senescence, photosynthesis and nutrient remobilization [28].

In this review, we describe the main regulating networks governing senescence in Arabidopsis and present evidence regarding how TFs, particularly from the NAC (NAM, ATAF and CUC) transcription factor family, interact with phytohormones and regulate the onset of leaf senescence. Moreover, we discuss how the modulation of TFs may contribute to the generation of delay-senescence varieties, named as “stay-green”, in important crops. The presented evidence confirms the importance of these genes as candidate tools to assist genetic breeding programs. Finally, we describe stay-green phenotype examples as a result of plant breeding tools, not only for grain-filling, but also for species in which greenery or post-harvest leaf lifespan needs to be improved, mainly in horticultural and ornamental industries. Hence, this work presents valuable information for the generation of biotechnological tools to assist molecular crop improvement.

2. Senescence Regulation Network in Arabidopsis and NAC TF Contribution

Advances in high-throughput technologies applied to gene expression studies triggered the identification of multiple senescence-associated genes (SAGs). In Arabidopsis, almost 20% of the genes change their expression during natural senescence [29]. These genes participate in different molecular, biochemical, morphological and physiological events that contribute to the senescence phenotype. Under stress conditions, plants rapidly adjust their physiology through the biosynthesis of phytohormones that promote stress-resistance responses or premature senescence. Phytohormones like ethylene, abscisic acid, jasmonates, auxins and salicylic acid promote senescence, whereas cytokinins and gibberellin acid delay this process.

TFs are nodes in gene expression pathways and a single TF can modulate an entire response process [26]. Thereby, the identification of senescence-associated TFs acting downstream of a hormone-signaling network could have an important impact on generating new tools for crop breeding. Different TF families participate in leaf senescence in many species, particularly the NAC [17,20,30,31,32,33], MYB [34,35], AP2 [36,37] and WRKY [38,39,40,41] families. The crosstalk regulation between phytohormones and TFs associated with senescence is crucial to understand the molecular mechanisms governing this last developmental stage.

The NAC (NAM, ATAF and CUC) gene family is one of the largest groups of plant TFs, with more than 100 members in Arabidopsis [42]. The NAC proteins contain a NAC domain (InterPro IPR003441) at the N-terminal region, which is subdivided in five well-conserved subdomains (A–E), and very variable transcription regulatory regions (TRRs) at the C-terminal region [42]. The NAC domain is involved in dimerization and DNA binding, whereas the TRR region acts as a transcription activator or repressor [42]. According to global transcriptome profiling data, more than 30 NAC genes have enhanced expression during natural leaf senescence in Arabidopsis and maintain a strong crosstalk with phytohormones and environmental signals, which highlights their importance in the regulation of this process (Figure 1) [15]. ORE1, NAP, ANAC16, ATAF1, ANAC072, ANAC019 and ANAC055 promote leaf senescence, whereas VNI2 and JUB1 delay it [30,31,33,43,44,45,46].

Ethylene is a key senescence-promoting hormone. Indeed, its exogenous application accelerates leaf and flower senescence, whereas inhibitors of ethylene perception or biosynthesis delay leaf senescence [47]. Besides, senescing tissues display an elevated expression of genes encoding ethylene biosynthetic enzymes [26,48]. Several studies have suggested that ethylene response depends mainly on leaf ontogeny (or “natural” senescence), instead of stress-induced senescence [49,50,51]. Hence, in Arabidopsis senescence cannot be induced by ethylene until a defined developmental stage [49,51]. The ethylene response includes the activation of the EIN2 (ETHYLENE-INSENSITIVE 2) transcription factor, as evidenced by an ein2 mutation that produced a direct impact on senescence phenotype [24,52]. Furthermore, EIN3 (ETHYLENE-INSENSITIVE 3), downstream EIN2, directly regulates chlorophyll catabolic genes (CCG), like NYE (STAYGREEN), NYC1 (NONYELLOW COLORING1) and PAO (PHEOPHORBIDE A OXYGENASE) [18].

ORE1 is one of the most studied TFs in leaf senescence. This TF is expressed during ethylene-induced senescence under the control of EIN2 [17]. In addition, ORE1 interacts with GOLDEN2-LIKE1 (GLK1) and GLK2, which are relevant for chloroplast development and maintenance [53]. Hetero-dimerization of ORE1 and GLKs inhibits the transcriptional activity of GLKs, leading to leaf senescence [53]. Furthermore, ORE1 accelerates chlorophyll lost by directly activating the transcription of Chlorophyll Catabolic Genes (CCGs) [18], as well as BFN1 (BIFUNCTIONA NUCLEASE 1), SAG29/SWEET15 (SENESCENCE-ASSOCIATED GENE 29/SUGARS WILL EVENTUALLY BE EXPORTER TRANSPORTERS 15) and SINA (SEVEN IN ABSENTIA) [20]. Consequently, ORE1 induces distinctive senescence features, like the degradation of nucleic acid, proteins and nitrogen recycling as well as the promotion of sugar transport [20,53]. Moreover, in Arabidopsis leaves, ORE1 promotes ethylene biosynthesis by positive feedback, through the transcriptional activation of ACS2 (ETHYLENE BIOSYNTHESIS GENE) [18].

The transcript level of NAP (NAC-LIKE ACTIVATED BY AP3/PI), another positive regulator of senescence, increases with leaf age [31]. In Arabidopsis, ore1 and nap mutants revealed that these genes act in distinct and overlapping signaling pathways [24]. Phenotypic reversion in mutant plants further demonstrated that ORE1 and NAP can activate common as well as different NAC TF genes. In addition, EIN3 directly binds and upregulates both NAP and ORE1 expression in ethylene-induced senescence [24].

Moreover, some studies have revealed that the regulating networks governing leaf senescence maintain a crosstalk between activating stimuli from different phytohormones making this process even more complex [54]. For example, EIN2 is also upregulated by abscisic acid (ABA) or salt [55,56,57,58].

ABA is an important signaling molecule that enables plants to tolerate unfavorable environmental stresses like drought, salt, cold, heat and oxidation [59,60]. Moreover, ABA can induce the expression of CCGs [61]. Two main families of ABA TFs were associated with senescence, ABA INSENSITIVE 3/4/5 (ABI3/4/5) and ABA-responsive element binding factor members (ABF1, AREB1/ABF2, AREB2/ABF4 and ABF3) [60].

ABI5 plays a crucial role during senescence by binding to the promoter of ORE1 [62] and therefore activating CCG genes [63]. Likewise, NAP is a positive regulator of ABA concentrations inside the cell by binding the promoter of AAO3 (ABSCISIC ALDEHYDE OXYDASE3) [64]. AAO3 is responsible for the final step in ABA biosynthesis [65]. Zhang and Gan [66] reported a mechanism that includes ABA–NAP–SAG113 signaling and demonstrated that NAP expression increases in an ABA-dependent manner. NAP upregulates the SAG113 gene (SENESCENCE-ASSOCIATED GENE113), which in turn regulates stomatal movement and water loss in senescent leaves [66]. Conversely, cytokinin would efficiently promote the proteasomal degradation of ABI5 and, in this way, cytokinin may delay senescence by antagonizing the ABA effect [67]. Therefore, the balance of ABA and cytokinin concentration could be controlling the onset of age-induced senescence during plant development [68].

NAC016 is a positive regulator of senescence and can upregulate NAP and CCGs by direct binding to the gene promoter [43,63,69]. NAC016 is also upregulated under abiotic stress and seems to downregulate ABA-dependent genes, presumably through AREB1 [63,70,71]. Yeast one-hybrid assays, on the other hand, suggest ORS1 as a direct target of NAC016 [43]. nac16 and overexpressing NAC016 plants showed contrasting expression patterns for ORS1 [43]. ORS1 is a positive regulator of senescence in Arabidopsis and, according to a sequence analysis, a paralog to ORE1 [30]. Overexpression of ORS1 produced an early senescence phenotype along with the upregulation of several SAGs. In addition, ORS1 is associated with senescence triggered by salinity and peroxide stress [30]. ATAF1, a positive senescence-regulated NAC TF, was upregulated by ABA, reactive oxygen species (ROS) treatment and drought stress [44,57]. ATAF1 possibly induces ABA biosynthesis by interacting with the NCEDs (9-cis-epoxycarotenoid dioxygenases) promoter, which is a key regulatory step of ABA biosynthesis [72]. ATAF1 also interferes in chloroplast maintenance by blocking GLK1 transcription and inducing ORE1 expression [44].

Additionally, Hickman et al. [73] reported ANAC019, ANAC055 and ANAC072 (RD26) as SAGs. The study of these three genes is a difficult task because of their sequence similarity, leading to overlapping functions in downstream networks [74]. Single mutants of any of these three genes does not lead to detectable changes in phenotype, thus multiple mutants in the same plant were necessary for that purpose [75,76,77,78,79]. Evidence suggests that these three genes are induced under salt and drought stress [73,80,81], whereas only NAC072 is induced also by cold treatment [73,80]. Moreover, the three NAC TFs are ABA-inducible genes [73,76,80,81,82]. ABF3 and ABF4 can directly bind the promoters of ANAC072, ANAC055 and ANAC019, and activate their transcription [73,82]. The TF family comprised by CBF1 (C-REPEAT BINDING FACTOR), 2, 3 and 4 are important for regulating responses to abiotic stress. Particularly CBF3 is associated with abiotic stress, like cold, osmotic and salinity, whereas CBF1 is associated with ageing senescence. Interestingly, both genes can upregulate ANAC072 [73,80].

ABA and brassinosteroids (BRs) antagonistically regulate senescence. BRs regulate plant growth and stress responses through the BES1/BZR1 (BRI1-EMS-SUPPRESSOR1) transcription factor family [83]. NAC072 is associated with the crosstalk between ABA and BR responses. Several studies show that BES1 is capable of inhibiting NAC072 transcription [73,84,85]. Besides, Ye et al. [85] have demonstrated that NAC072 can downregulate BR gene responses (negative crosstalk) by generating a complex with BES1. During ABA-response stress, the ratio between ABA/BR increases and ANC072 is upregulated thus triggering senescence. Furthermore, studies using the triple mutant anac072, anac055 and anac019 suggested a redundant function in the inhibition of BR-response genes [85]. As in the case of the balance between ABA/Cytokinins controlling the activation of ABI5 described above, the regulation of ANAC072 by ABA/BR is another example of control of senescence onset by phytohormone response genes.

Jasmonate (JA) is another phytohormone capable of inducing leaf senescence through the activation of CCGs in Arabidopsis [77,86]. Additionally, senescence can induce jasmonate biosynthesis [86,87]. The metabolic network is negatively regulated by the JAZ (JASMONATE ZIM-DOMAIN) transcription factors and activated by MYC2 [88]. Abundant evidence suggests that ANAC055, ANAC072 and ANAC019 act downstream of MYC2 during senescence [75,77,78,81,89]. Moreover, the protein MYC2 directly interacts with ANAC019 and in turn the protein complex activates CCGs [77].

ANAC055 and ANAC019 also have an important role in ethylene senescence response [24,52,75]. For instance, ein2 plants displayed a considerable decrease in ANAC055 and ANAC019 expression, thus indicating an EIN2-dependent regulation. Indeed, EIN3 can bind ANAC055 and ANAC019 promoters [54]. Moreover, a crosstalk between ethylene and JA networks could explain the interaction of MYC2 and ANAC019 during ethylene responses [54,90,91]. By contrast, ANAC072 expression remains unaltered in ein2 plants, which suggests that these two NAC members trigger senescence through different pathways [24].

ANAC072 can directly activate the transcriptional expression of CCGs [92]. Besides, ANAC072 is implicated in the metabolic reprogramming during senescence by controlling the expression of multiple genes across the cellular degradation hierarchy [93]. For example, ANAC072 activates the transcription of CV (CHLOROPLAST VESICULATION), which encodes a protein crucial for chloroplast protein degradation, and the sugar transport gene SWEET 15 [93]. Besides, ANAC072 activates the transcription of genes involved in the catabolism of lysine and phytol. ANAC072 also reduces GABA (γ-aminobutyric acid) concentration by inducting the respective catabolic genes. This degradation, along with the degradation of lysine and phytol, provides substrates for cellular respiration during senescence [93].

ANAC019 can induce the expression of CCGs, but also interacts with the VSP1 (VEGETATIVE STORAGE PROTEIN 1) promoter [75]. In turn, VSP1, an important source of mobilized nutrients, is transcriptionally activated by JA and wounding [94]. On the other hand, ANAC019 directly interacts with the promoters ICS1 (ISOCHORISMATE SYNTHASE 1) and BSMT1 (S-ADENOSYLMETHIONINE-DEPENDENT METHYL-TRANSFERASE). ICS1 is involved in SA biosynthesis, whereas BSMT1 is associated with SA metabolism. ANAC019 represses ICS1 and activates BSMT1, which leads to a reduction of SA accumulation [78]. To date, there is no substantial evidence of ANAC055 directly downregulating any gene. However, since ANAC019 and ANAC055 bind to the same DNA elements [81], ANAC055 may also bind to BSMT1 and ICS1 promoters and therefore regulate their expression [78].

NAC family genes can regulate senescence in a positive or negative manner. ANAC017, ANAC090 and ANAC082, named as “NAC troika” by Kimet et al. [95], were upregulated during the pre-senescence stage. These genes are negative regulators of senescence, their expression is highly linked to SA and ROS stress pathways. Besides, mutant plants for these genes showed accelerated senescence, whereas overexpression of these genes had the opposite effect. These genes are also involved in the downregulation of other NACs, suggesting that troika genes may underlie the positive-to-negative regulatory shift in senescence onset [95].

VNI2 is another negative regulator of senescence whose expression increases along with leaf aging and senescence [46]. Interestingly, VNI2 expression accompanies leaf aging and senescence. Moreover, vni2 plants showed an accelerated senescence, whereas its overexpression displayed a delayed senescence phenotype. Additionally, VNI2 is upregulated with high salinity in an ABA-dependent manner [46]. Based on these findings, Seo et al. [96] proposed a model where the overregulation of VNI2 can enhance stress resistance to ensure reproductive success. Similarly, Wu et al. [45] reported another NAC repressor of leaf senescence: JUNGBRUNNEN1 (JUB1). JUB1 overexpression strongly delays senescence in Arabidopsis. Its transcription is activated by elevated hydrogen peroxide levels and enhances tolerance to various abiotic stresses. Moreover, jub1 knockdown plants showed an early senescence phenotype [45].

3. The Stay-Green Trait in Crops

Along the senescence process, upregulation of the CCGs, SWEET15, PES1, CV, SINA and other genes are essential for leaf catabolic processes. The importance of these genes relies on that their capacity to increase the nutrient recycling and transport to the sink and, therefore, they are fundamental for the quality and yield of grains. The control of the expression of these genes may act as a breeding tool for the improvement in the grain yield. Interestingly, Uauy et al. [97] described a wheat line with an early senescence phenotype and a high grain quality, possibly because of an efficient catabolic process (this case is described below). A premature upregulation of these genes, however, can generate an early senescence phenotype and therefore a decline in grain quality, because of the shortage of nutrients in young leaves (Figure 2A).

On the other hand, stay-green varieties are plants that present a delay in foliar senescence while maintaining their green leaf area active for longer periods. The stay-green phenotype is an indicative of plant health in fields and can be associated with an increased tolerance to diseases, pests and drought [98]. For instance, in some species, the stay-green phenotype has been associated with diminished percentage of plant lodging [98]. Many researchers have suggested that the delay of leaf senescence may have a positive impact on agronomic yields, presumably by maintaining the photosynthetic machinery active, despite of the adverse condition especially during the reproductive stage [19,20,99]. In line with this finding, many studies have reported positive correlations between green leaf area, late senescence and productivity (e.g., in maize, sorghum, wheat, sunflower, rice and soybean). Moreover, in all these cases, this late senescence led to higher crop yields [38,100,101,102,103,104,105,106,107,108,109,110]. However, this positive effect depends on the interaction of each species with the environment. Furthermore, once senescence is triggered, the recycling events must occur efficiently and need to synchronize with leaf age to maximize the nutrient content (Figure 2B). However, if the stay-green phenotype is not accompanied by the catabolic process, no improvement occurs in the grain yield. This feature is known as cosmetic stay-greens (Figure 2C).

The grain-filling period is one of the most crucial stages in agronomic crops and depends on the relationship between the source and the sink. This relationship could be modified by an improved stay-green breeding program, i.e., the use of a stronger source may prolong the activity of the photosynthetic machinery. Different molecular tools have been widely used to study and achieve stay-green phenotypes in multiple species. In general, wild-type genotypes and plant varieties have provided an abundant source of stay-green germplasm. Moreover, these genotypes are useful for the detection of QTL and genes involved in senescence.

Alternatively, these genotypes can be used to study the transcriptional expression patterns and the biological function of the assessed genes. Several genes, defined as SAGs (senescence-associated genes), vary their expression throughout senescence. Among these genes, the transcription factors are particularly important candidates in the generation of functional stay-green crops [1]. Therefore, functional analyses are essential to confirm the real influence of these genes in senescence. Researchers usually assess, and often confirm, the role of candidate genes by overexpressing or silencing the candidate genes.

4. Main TFs Associated with Leaf Senescence in Crops

A leaf senescence delay has a strong impact on yield in several crops. Main relevant contributions were performed in Arabidopsis, and later on assessed in monocotyledonous plants like rice, wheat, barley, maize and sorghum, or in dicotyledonous crops like sunflower, soybean, cotton and grapevine [28,110,111,112]. Below, we describe the TF associated to senescence in conventional and non-conventional agronomic crops, with special attention on NAC TFs.

4.1. Rice

Rice (Oryza sativa) is one of the most important crops worldwide and provides the essential caloric requirement for more than half of the global population [113]. However, rice production will need to be increased by 40% in 2030 to satisfy food demands [114]. A few NAC TFs in rice were associated with leaf senescence and therefore are candidates for future agronomic improvement in rice breeding.

Several studies have linked the expression of OsNAP, a NAP-like transcription factor (Os03g21060), to the onset of leaf senescence in an age-dependent manner, as well as in JA and ABA treatments [115,116,117]. Plants overexpressing this gene had an early senescence phenotype and an elevated transcription of JA signaling genes (LOX2 and AOC1). Moreover, knockdown plants showed a delay in senescence and downregulation of JA genes (AOS, AOC1, OPR7) [117]. osnap plants showed reduced ABA content, whereas aba1 and aba2 plants, two knock-out ABA biosynthesis gene plants, showed repressed expression of OsNAP [116]. Further analyses determined that OsNAP can directly bind to the promoter of genes related to chlorophyll degradation [116]. As expected, because of its homology with AtNAP, OsNAP also plays a crucial role in regulating senescence; in fact, it was also implicated in abiotic stress responses like high salinity, drought and low temperature [115]. Additionally, two independent studies demonstrated that OsNAP-repressed transgenic lines have a functional stay-green phenotype. Firstly, Liang et al. reported two independent knock-down plants showing an increase in grain yield of 6.3% and 10.3%, respectively [116]. Similarly, Tang et al. [118] confirmed that OsNAP acts as a functional stay-green. They reported that transgenic OsNAP-repressed rice plants increased the number of grains per plant (11%) as well as the grain weight (10%) and spikelet fertility rate (6%). Overall, these transgenic lines increased the grain yield per plant approximately 24% in comparison with the wild type.

Regarding OsNAC002 (Os04g0460600, ortholog of AtORE1), mutant plants displayed a delayed senescence phenotype, whereas plants overexpressing OsNAC002 showed an early senescence [119]. In fact, OsNAC002 can bind the promoter of CCGs and upregulate their expression [119]. Further analyses may partially disclose OsNAC002 regulatory pathways. Ma et al. reported elevated OsNAC002 expression in OsEIN2 overexpressing lines and, by contrast, downregulated expression in ein2 mutants [120].

Moreover, in another study, Mao et al. [119] reported that OsNAC002 overexpressing plants presented elevated transcription of ABA biosynthesis genes (OsNCED3 and OsZEP1) and that OsNAC002 bound to the promoter of ABA biosynthesis genes. Interestingly, OsNAC002 is upregulated by low levels of ABA and downregulated by high levels of these phytohormone, which indicates a feedback repression of OsNAC002 [119].

On the other hand, Lee et al. evaluated the crosstalk between the JA and ethylene pathways in rice with oscoi1b-1 (a homologous gene for COI1, a F-Box protein involved in the degradation of the JA receptor) knock-out mutants [121]. These plants showed a stay-green phenotype, with substantial retention of chlorophyll and photosynthetic capacity. In addition, this mutation resulted in lower expression of OsNAC002 and OsEIN3. Altogether, these results provide insight into the ABA–NAC–CCG pathways and the crosstalk between JA and ethylene pathways in rice [120,121]. Moreover, osnac002 plants have shown a functional stay-green phenotype, with an increase of 10% in the grain yield [119].

In this sense, OsNAC002 and OsNAP are two strong candidates for rice breeding biotechnological tools. Furthermore, the other six NAC genes (OsNAC005, OsNAC006, OsNAC009, OsNAC010, OsNAC011 and ONAC106) displayed an abiotic stress regulation function in rice with an impact on senescence [122,123,124,125]. ONAC011 is a clear promoter of senescence. Plants overexpressing ONAC011 showed a precocious senescence phenotype, whereas knockdown plants showed decreased heading time and leaf senescence with high accumulation of chlorophyll. However, both scenarios (overexpressing and knockdown plants) resulted in a reduction in grain yield. onac106 mutant plants showed a delated senescence phenotype and differential expression of key SAGs (SGR, NYC1, OsNAC5, OsNAP, OsEIN3 and OsS3H). Moreover, yeast one-hybrid assays showed that ONAC106 binds to the promoter regions of SGR, NYC1, OsNAC5 and LPA1. This suggests that ONAC106 negatively regulates leaf senescence. Hence, more studies are necessary to clarify the molecular mechanisms, as well as the role of these genes in leaf senescence in rice.

In addition to the grain yield, another feature of crucial significance in rice breeding programs is the nutritional quality of grains. For instance, Zn and Fe are essential micronutrients. Whereas Fe participates as a catalytic cofactor in multiple metabolic pathways, Zn is a key structural component of enzymes and TFs. However, rice cultivars have poor quantities of these minerals [126]. The mineral content in the grain is closely related to nitrogen recycling uptake during senescence [127]. OsNAC005, which increases during rice senescence, may participate in the regulation of mineral remobilization from leaves to the sink through the activation of metal-homeostasis genes [122]. Further experiments are essential to improve grain nutritional qualities in this crop.

4.2. Wheat

Wheat is the second most widely grown crop in the world (220 million ha) [128]. Wheat grain consumption accounts for 19% of the calories consumed worldwide [129]. This grain is rich in carbohydrates, minerals (e.g., Zn, Fe) and vitamins and has a higher protein content than other major cereals; all these features make it an important nutritional source [130,131,132]. Bread wheat (Triticum aestivum) has a hexaploid genome that combines three grass genomes: Aegilops speltoides, Triticum urartu and Triticum tauschii [132]. Consequently, any genetic improvement of this crop becomes extremely complex. Moreover, the discovery of the SAG function in wheat has not enough landmarks because of the differences between the NAC ortholog in wheat and Arabidopsis [111]. However, the nutritional requirements of N and minerals (Zn, Fe) in wheat promote the study of TF genes that can improve grain quality.

Despite its genome complexity, 150 different Triticeae species provide an important genetic resource for crop breeding [128]. Saidi et al. [133] identified 168 NAC genes in durum wheat (AABB genome) including TtNAM-B1 (GPC-B1) and TtNAM-B2 (GPC-B2). TtNAM-B1 is a nonfunctional NAC TF in durum and bread wheat. However, TaNAM-B1, a wild allele for TtNAM-B1, is associated with the distribution of nutrients between leaves and developing grains [134]. Lines carrying the TaNAM-B1 gene exhibit an increase of 10% in the grain protein content (GPC) as well as in zinc and iron [134]. Interestingly, these plants also present early senescence [97].

On the other hand, its homologous genes in the hexaploid wheat GPC-A1 and GPC-D1 had a redundant role in the regulation of monocarpic senescence and nutrient remobilization [135,136]. NAC TFs mutations may delay senescence and inhibit nutrient recycling in the last stages of this process, although grain weight was unaffected [135,136]. These findings highlight the importance of knowing not only the function of the candidate gene, but also the contribution of its homoeologous, mainly in polyploid crops, where redundancy might be expected.

Another recently reported NAC gene, TaNAC-S, is a negative regulator of leaf senescence. Wheat plants overexpressing TaNAC-S displayed a functional stay-green phenotype with increased grain yields and grain protein concentration [101]. On the other hand, Borril et al. [111] described three groups of upregulated genes during late senescence stages in Triticum aestivum. The first group includes two genes with high homology to the Arabidopsis NAP gene (TraesCS5A02G143200 and TraesCS5B02G142100). The second group contains two genes with putative identity to ANAC082 (TraesCS1A02G2466300 and TraesCS1B02G77300). Finally, one gene was an ANAC090 ortholog (TraesCS5A02G127200), although, in this case, differences in the expression time and phylogenetic distance with Arabidopsis must be taken into account before inferred any functionality [111]. Hence, functional studies are essential to establish the role of wheat NAC genes in senescence.

4.3. Barley

Barley (Hordeum vulgare L.) is a worldwide important crop for animal fodder and for fermentation in beer or whisky industries. Although barley is considered the most tolerant crop to salt and drought stresses, it is prone to premature leaf senescence. This can reduce remobilization and recycling of mineral nutrients and nitrogen-containing molecules from the leaves to the rest of the plant and therefore can affect grain filling [38].

Christiansen and Gregersen [137] reported a relevant study describing senescence on barley flag leaves. Although no function for any TFs was tested, a microarray analysis revealed valuable information at the regulatory level. They reported the upregulation of several genes encoding NAC, bZIP, MYB, bHLH, AP2/EREBP and CCAAT transcription factor families throughout senescence. As described for other species, NAC family members were highly associated with senescence. The best candidate gene was HvNAC026, because of its upregulated expression in senescing leaves and its almost undetectable expression in non-senescing leaves. However, HvNAC023, HvNAC027, HvNAC029 and HvNAC030 may also be candidates because of their relatively early upregulation that tends to level off towards the last stages of senescence [137,138]. In addition, HvNAC005 was reported as a positive senescence regulator, since its overexpression produced early senescence, reduced root mass and poor seed setting in barley transgenic lines [138,139]. Similarly, another transcriptional analysis showed an association of some TFs, like HvNAC001, HvNAC013, HvWRKY12 and MYB, with leaf senescence and nitrogen remobilization in barley, although more studies are required [140]. Finally, a non-conventional TF named WHIRLY1 was reported as a main regulator of some stress-induced senescence processes. This gene, previously reported as a nuclear transcription factor involved in activation of SAs related genes, regulates senescence induced by high light irradiance and drought [141]. Barley whirly1 plants delay leaf senescence by altering the expression of the well-characterized SAG HvS40 [142,143]. However, more studies are necessary to postulate WHIRLY1 as a candidate gene for barley breeding.

4.4. Maize

Maize (Zea mays) is also one of the most important agronomic crops worldwide, with more than one million tons per year [144]. This crop is very demanding at the post-anthesis stages when nutrients are remobilized mainly to maximize the number of reproductive structures and to improve seed development [145]. Nitrogen is particularly essential for corn grain development. Its uptake in roots as well as its relocation from leaves impact directly on grain quality [146,147]. The stay-green phenotype has been studied in corn for several decades, although the molecular mechanism remains unclear [148,149]. Some stay-green hybrids delay leaf senescence, which results in crop yield earnings, especially under drought conditions [98,150]. Regarding nitrogen availability, Ma and Dwyer [148,149] demonstrated that stay-green varieties had a higher nitrogen-use efficiency than the conventional hybrids [145,149,151]. In this sense, stay-green hybrids in maize not only improved yields by prolonging leave lifespan, but also by improving nitrogen-use efficiency [152].

Transcriptional studies performing RNAseq profiles under abiotic factors, like drought, have been evaluated and associated with leaf senescence and the stay-green trait in maize [153,154]. Many TF families, including MYB, bHLH, C2H2, NAC, AP2/EREBP and bZIP families, changed expression throughout senescence [155]. Zhang et al. [155] performed a transcriptional analysis of mature as well as early and late senescence leaves. In this study, 12 NAC genes showed differential expression from early senescence towards late senescence. Among these genes, the expression of GRMZM2G104400 and GRMZM2G475014 increased at early senescence stages, as reported for their orthologs, and well-known SAGs, VNI2 and ORE1 in Arabidopsis. Moreover, the expression of GRMZM2G146380, GRMZM2G114850, GRMZM2G163251, GRMZM2G109627 and GRMZM2G011598 greatly increased at early and late stages of senescence, although no orthologs were reported in Arabidopsis. Nevertheless, these TFs represent interesting candidates for further characterizations in maize [155].

Recently Zhang et al. [156] reported a novel QTL controlling functional stay-green traits in maize through the evaluation of senescence-contrasting hybrid lines. In this study, the QTL was mapped to a single candidate gene called NAC007, which resulted to be one of the genes previously reported by Zhang et al. [155], GRMZM2G114850. To evaluate its function, Zhang et al. diminished NAC007 expression by RNAi in two independent maize lines. The NAC007 silenced lines showed delayed senescence and increased both nitrogen accumulation and biomass in vegetative tissues. These findings confirmed that these NAC negatively regulate the stay-green trait in maize. Moreover, the silenced maize lines were crossed with elite inbred testers resulting in stay-green hybrids with delayed leaf senescence. Indeed, these lines were grown in different field trials over two years in multiple locations and showed increased seed yield by an average of 0.29 megagram/hectare (4.6 bushel/acre). Furthermore, physiological and molecular measurements suggest that NAC007 has an essential role in regulating nutrients allocation from vegetative source to reproductive sink tissues [156].

Although Zhang et al. and Zhang et al. [155,156] described a practical example were the modulation of these genes may contribute to the stay-green trait, these types of studies in maize are still scarce. The available gene expression data regarding maize senescence could provide a useful source of information for generating new stay-green phenotypes in maize [157].

4.5. Sorghum

Sorghum (Sorghum bicolor) is a major source of food, especially for the underdeveloped regions or low-income countries, and may be an ideal biofuel crop for marginal lands [158]. Some sorghum lines show delayed leaf senescence. However, the knowledge of molecular mechanisms controlling this process is still limited [159]. To date, Wu et al. [159] presented a transcriptome profiling using RNAseq of developmental leaf senescence in which many of the detected TFs were orthologs of SAGs from other species. However, they did not report any proved functionality of these genes. Among the reported TFs, five families, NAC, ERF, WRKY, HSF and CO-like, were significantly overrepresented during sorghum leaf senescence. Regarding the NAC family, 16 genes corresponded to proteins whose sequences had similarity with AtORE1 and six of them increased their expression along early, mid and/or late senescence. Among these, Sb01g036590 had the highest expression and the highest protein similarity to ORE1. Thus, it is a potential candidate gene.

Another study has reported transcription analysis of dark- and drought-induced senescence [159]. Even though the study does not provide much information about NAC genes, it presents a possible candidate gene, Sb01g006410. This NAC is a middle-senescence marker gene whose expression increases throughout natural senescence and senescence induced by dark and drought. Sb01g006410 is an ortholog to the negative regulator of senescence Arabidopsis JUB1 [45,159].

4.6. Soybean

Soybean (Glycine max) is an oil crop in which the oil–protein balance in the grain is an important criterion of quality. An oil–protein proportion of 22%/42% in grains is good for producing flour (60% of the grain value) [160,161]. The high protein and essential amino acid contents make soybean one of the most important crops, with a production of 317 MMt per year [162]. Nevertheless, soybean is relatively poor in some amino acids like methionine (Met), cysteine (Cys), threonine (Thr) and lysine (Lys) [163]. Hence, the need to increase protein and sulfur amino acid content in seeds is one of the major goals in soybean breeding.

Of the 180 genes of the NAC TF families in soybean, almost half (44%) change expression during leaf senescence. Furthermore, most of the differentially expressed genes (90%) belong to the ATAF-like family [164]. Melo et al. [164] reviewed some differences and similarities of NAC family gene expression between soybean and Arabidopsis.

NAC TFs associated with senescence or cell death in soybean were GmNAC1, GmNAC5 and GmNAC6 (recently designated GmNAC81) [165,166,167]. These three genes were upregulated during senescence and the corresponding proteins localized in the nucleus. Moreover, its transient expression in tobacco leaves induced necrosis and enhanced the expression of senescence markers. GmNAC1 has 67% identity with NAP and is upregulated by ABA treatment [166]. Transient expression of GmNAC065 and GmNAC085 genes in tobacco leaf induces chlorophyll loss, leaf yellowing, lipid peroxidation and H₂O₂ accumulation [164]. Besides, a yeast transactivation assay suggested co-expression of GmNAC065 and GmNAC085 form heterodimers, although they have opposite expression patterns during leaf senescence. GmNAC65 is upregulated in the onset of senescence, whereas GmNAC85 is downregulated at this point [164]. Furthermore, GmNAC065 is a putative VNI2 orthologue, whereas GmNAC085 is the most closely related to ANAC072. However, they are expected to display distinct functional roles especially during leaf senescence [164].

GmNAC81 is a member of the subgroup TERN (tobacco elicitor-responsive gene–encoding NAC domain protein), which has a 62% identity with ANAC036 [168,169]. Soybean plants overexpressing GmNAC81 showed an early senescence phenotype, whereas a reduced GmNAC81 expression, through virus-induced gene silencing, delayed leaf senescence [170]. Furthermore, the overexpressing plants showed elevated levels of ABA and lower levels of SA during leaf senescence onset [170]. The results suggest that GmNAC81 may regulate senescence by altering ABA and SA biosynthesis under normal growth conditions [170]. Moreover, GmNAC81 seems to be involved in transducing cell death signal generated by ER (reticulum endoplasmic) and osmotic stress, which are induced by NRP-mediated cell death signaling pathway [167,168,171]. Other studies have shown that GmNAC81 acts downstream of NRP and that it can bind to common cis-regulatory sequences in target promoters like VPE (CASPASE-1–LIKE VACUOLAR PROCESSING ENZYME) to activate VPE gene expression [171]. Indeed, VPE participates in cell death, when triggered by pathogen infection, and is highly expressed in leaf senescence [172]. This pathway was originally identified in soybean and recently reported in Arabidopsis. Moreover, other NAC genes may collaborate with GmNAC81 in the activation of VPE. For example, GmNAC30 can form heterodimers with GmNAC81 and therefore bind to the promoter of VPE [171]. GmNAC30 shows highly conserved similarity with ATAF1 and ATAF2 and this makes it a strong candidate gene of the senescence regulation network in soybean [164].

4.7. Sunflower

Sunflower (Helianhtus annuus L.) is the fourth most important oil crop worldwide and produces high-quality oil for human consumption, and is also an important source of biodiesel [173]. Precocious senescence leads to economic losses in sunflower [174,175]. According to a detailed carbon (C) source–sink analysis during the pre-anthesis period, the contribution of fixed C was around 15% and 27% of the total carbon (i.e., fixed C + respired C) uptake of the grain in irrigated and in water-stressed crops, respectively [176]. In this sense, senescence in sunflower was linked to mainly water stress [23,177]. Besides, senescence is accelerated by nitrogen deficiency [178] and increased by light exposure during growth [179]. Plants grown under a high concentration of N (nitrate 20 mM) showed less decline in photosynthesis activity and a significant increase in the hexose to sucrose ratio at the onset of senescence than the plants grown under a low concentration of N [178]. The concentration of CO₂, on the other hand, also promotes leaf senescence in sunflower, probably by affecting the soluble sugar levels, the C/N ratio and the oxidative status during leaf ontology [179].

Several studies have reported TFs regulating leaf senescence in sunflower. Among these TFs, the HD-Zip HaHB-4 has been widely used for crop breeding [180]. Ethylene positively regulates HaHB-4 during normal leaf senescence; once induced, HaHB-4 negatively regulates the biosynthesis of ethylene and the expression of genes related to this signaling pathway. Later, an expression gene analysis reported HaNAC001 as the putative sunflower orthologous gene of ORE1 [21]. HaNAC TFs are the third family of TFs most highly expressed during senescence in sunflower [99]. HaNAC001 and HaEIN2 transcription profiles during natural senescence showed an earlier upregulation in leaves of plants close to maturity, in comparison with young leaves of plants at the pre-anthesis stages [21].

On the other hand, HaNAC002, HaNAC003 and HaNAC005, which are highly similar to Arabidopsis ANAC072, ANAC055 and ANAC019, respectively, showed contrasting expression profiles during natural senescence. In Arabidopsis, ANAC072, ANAC055 and ANAC019 belong to the same clade of NAC genes and have overlapping expression patterns [181]. In sunflower, the expression of HaNAC003 and HaNAC005 rapidly increased towards anthesis. However, HaNAC002 showed an opposite expression pattern.

HaNAC004, which is highly similar to ANAC047, was upregulated during leaf development in sunflower [21]. In Arabidopsis, ANAC047 was upregulated during leaf senescence and downregulated in mutants with defective JAs, SAs or ethylene pathways, which suggests that this protein participates during leaf senescence in association with hormone signaling [24,182].

Recently, a gene network analysis (WGCNA) and a BioSignature Discoverer analysis of transcriptomic and metabolomics data provided a useful tool for identifying candidate genes and metabolites with a role during the triggering and development of leaf senescence in sunflower [22]. The results of these analyses showed that HeAn_C_11118 (NCBI: NC_035440) is a key node in senescence. This NAC TF has high sequence similarity with AtNAP. The authors also reported a potential role of HaNAC003 as a hub gene in leaf senescence. Furthermore, HaNAC001, HaNAC003 and HaNAC005 were also upregulated during senescence in an early senescence genotype in relation to a stay-green sunflower genotype [183].

4.8. Cotton

Cotton (Gossypium hirsutum L.) is one of the most important fiber production crops worldwide. The reduction in yield and fiber quality of this crop due to premature leaf senescence occurs with an increased frequency in many producing countries and causes important economic losses (up to 10% or 20% of total production in some cases) [184,185]. Lin et al. [186] reported a transcriptome analysis of cotton leaf senescence and identified 519 TFs from different families among all the differentially expressed genes. NAC, WRKY, bHLH, MYB, C3H, GRAS, DBP and AP2-EREBP were the most overrepresented TF families, with most of their members acting at early and mid-stages of the senescence process. GhNAC12, ortholog to the positive senescence regulator ANAC059/ORS1 gene, is upregulated during leaf senescence and this leads to early senescence [187]. Moreover, a NAP-like transcription factor was associated with leaf senescence regulation. Ectopic expression of GhNAP can rescue the null atnap phenotype in Arabidopsis, and the GhNAPi lines of cotton present delayed leaf senesce, with no alteration of other agronomic traits. In comparison with the wild-type cotton, transgenic lines with reduced levels of GhNAP increased by 15% the lint yield, presumably by regulating secondary cell wall biosynthesis and deposition [188]. As reported for its ortholog in other species, a delay in leaf senescence was associated with regulation of different ABA pathways, which suggests that the function of NAP-like genes may be conserved over plant species [189].

Besides, different TF families regulate leaf senescence in cotton. Elasad et al. [190] reported nine cotton genes that increased their expression during leaf senescence, with CotAD_37422 as the only TF member of the GRF (ortholog to the AT4G37740.1 gene). Further analyses must be done to confirm the functionality of this TF in regulating leaf senescence [190].

Finally, GhWRKY27 (accession KF669775), a gene of the group III WRKY family, was recently reported in cotton. GhWRKY27 was upregulated during early stages of senescence and its expression differs across different cotton lines. Indeed, GhWRKY27 expression was higher in an early-ageing cotton variety than in a late-ageing cotton variety. The ectopic overexpression of GhWRKY27 promoted leaf senescence in Arabidopsis. In addition, a yeast one-hybrid assay and electrophoretic mobility shift assay showed that GhWRKY27 directly binds to the promoter of a member of the cytochrome P450 family (GhCYP94C1), whose members are involved in leaf senescence [191,192].

4.9. Grapevine

Grapevine (Vitis vinifera) is one of the most important fruit crops because of its economic and agronomical inherence [110]. Leaf senescence seriously affects photosynthesis and nutrient assimilation, and thereby influences in yield and quality of grapes [193]. Some research has been made since the release of its genome in 2007, although the identification of TFs governing leaf senescence was poorly reported [194].

One of the few reports was the characterization of VvNAC1, a member of the NAP superfamily. In this report, the researchers analyzed the role of VvNAC1 in development and in stress responses in grapevine and demonstrated that VvNAC1 has a strong expression pattern at late stages in three organs (leaf, flower and berries). This finding indicates VvNAC1 may be a strong candidate in regulating developmental senescence, although no functionality was proved [195].

Recently, a member of the NAC family, DRL1, was reported as a main regulator in ABA-associated leaf senescence. The expression level of DRL1 was higher in young leaves and decreased consistently with senescence progression. In other tissues, including stem flower and berry, the transcripts of DRL1 remained at a very low level. Ectopic overexpression of DRL1 in tobacco lines showed a delay in leaf senescence, suggesting that DRL1 negatively regulates leaf senescence presumably by altering ABA-signaling pathways [196]. Hence, this study showed how NAC family members not always act as positive actors of senescence progression, thus revealing new insights in negative regulation paths, as previously described for the Arabidopsis NAC transcription factor JUNGBRUNNEN1 and VNI2 [45,46].

4.10. Ornamental Species

Many efforts were achieved to genetically improve ornamental traits in several cultivars, with a main focused interest on carnation, rose, chrysanthemum and petunia. Such genetic modifications lead to distinct developmental and structural changes, like flower color, compact branching of internodes, flower longevity improvement, adventitious root development, changing flowering time and resistance to different biotic or abiotic stresses [197,198,199,200]. However, delaying of leaf senescence, which is an essential criterion of plant quality according to many ornamental breeders, has not been considered along these species.

Recently, Trupkin et al. [201] characterized the expression pattern of some NAC transcription factors during leaf and petal senescence progression in petunia (Petunia hybrid) and provided important information for future petunia genetic breeding programs. As expected, orthologs of the AtORE1 and AtNAP genes in petunia were selected as the best candidate genes governing leaf and flower senescence, even though no functionality was proved [201].

5. Expression Pattern and Function Integration of NACs TFs Involved in Leaf Senescence across Species

NAC function, as well as different developmental processes in which they are involved, may have been conserved throughout evolution in several plant species, particularly between monocotyledonous and dicotyledonous plants [138,202,203,204,205]. However, divergent evolutionary patterns of NAC TFs, like the evolutionary rate of gene duplication and loss, have been reported between dicots and monocots by Jin et al. [206]. Therefore, to have a better understanding of NAC TFs acting as modulators of leaf senescence across species, we resumed and listed all TFs cited in this review to compare their expression pattern and functionality (

Table 1. Summary of the TFs involved in leaf senescence from different species. Expression and functional annotations are listed. Putative orthologues were obtained via BLASTp from the NCBI database.

Species	Code ID/Name	Orthologue in A. thaliana	Expression in Leaf Senescence	Function	Reference
Arabidopsis thaliana	AT1G01720/ATAF1	-	Increase	Promote leaf senescence	[44]
	AT1G52890/ANAC019	-	Increase	Promote leaf senescence	[73]
	AT3G15500/ANAC055	-	Increase	Promote leaf senescence	[73]
	AT4G27410/ANAC072	-	Increase	Promote leaf senescence	[73]
	AT1G34180/ANAC016	-	Increase	Promote leaf senescence	[43]
	AT1G69490/NAP	-	Increase	Promote leaf senescence	[31]
	AT5G13180/VNI2	-	Increase	Delay leaf senescence	[46]
	AT5G39610/ORE1	-	Increase	Promote leaf senescence	[17]
	AT2G38440/ORS1	-	Increase	Promote leaf senescence	[30]
	AT2G43000/JUB1	-	Increase	Delay leaf senescence	[45]
Oryza sativa	Os04g0460600/OsNAC002	ORE1	Increase	Promote leaf senescence	[119]
	Os01g0884300/OsNAC006	ANAC072	Increase	unclear	[123]
	Os03g21060/OsNAP	NAP	Increase	Promote leaf senescence	[113]
	Os11g0184900/OsNAC005	ATAF1	Increase	unclear	[113]
	Os03g0815100/OsNAC009	NAP	Increase	unclear	[122]
	Os11g03300/OsNAC010	NAP	Increase	unclear	[122]
	Os06g0675600/ONAC011/OsY37	ANAC022	Increase	Promote leaf senescence	[124]
	Os08g0433500/ONAC106	ANAC100	Decrease	Delay leaf senescence	[125]
Triticum aestivum	TaNAM-A1 (GPC-A1)	ANAC025	Increase	Promote leaf senescence	[136]
	TaNAM-D1 (GPC-D1)	ANAC025	Increase	Promote leaf senescence	[136]
	TaNAM-B1 (GPC-B1)	ANAC025	Increase	Promote leaf senescence	[97]
	TaNAC-S	ANAC001	Decrease	Delay leaf senescence	[101]
	TraesCS5A02G143200	NAP	Increase	unclear	[111]
	TraesCS5B02G142100	NAP	Increase	unclear	[111]
	TraesCS1A02G2466300	ANAC082	Increase	unclear	[111]
	TraesCS1B02G77300	ANAC082	Increase	unclear	[111]
	TraesCS5A02G127200	ANAC090	Increase	unclear	[111]
Hordeum vulgare	HvNAC026	ANAC104	Increase	unclear	[138]
	HvNAC023	NAP	Increase	unclear	[138]
	HvNAC027	ANAC025	Increase	unclear	[138]
	HvNAC029	ANAC025	Increase	unclear	[138]
	HvNAC030	ANAC018	Increase	unclear	[138]
	HvNAC005	NAP	Increase	Promote leaf senescence	[139]
	HvNAC001	ANAC022	Increase	unclear	[137]
	HvNAC013	ANAC100	Increase	unclear	[137]
	HvWRKY12	AtWRKY018	Increase	unclear	[140]
Zea mays	GRMZM2G104400	VNI2	Increase	unclear	[155]
	GRMZM2G475014	ORE1	Increase	unclear	[155]
	GRMZM2G146380	ANAC046	Increase	unclear	[155]
	GRMZM2G163251	JUB1	Increase	unclear	[155]
	GRMZM2G109627	ANAC047	Increase	unclear	[155]
	GRMZM2G011598	ANAC025	Increase	unclear	[155]
	GRMZM2G114850/ZmNAC007	ANAC022	Increase	Promote leaf senescence	[156]
Sorghum bicolor	Sb01g036590	ORE1	Increase	unclear	[159]
	Sb01g006410	JUB1	Increase	unclear	[159]
Glycine max	Gm0266x00007/GmNAC1	NAP	Increase	Promote leaf senescence	[166]
	Gm0025x00889/GmNAC5	ANAC079	Increase	Promote leaf senescence	[166]
	Glyma.08G360200/GmNAC065	VNI2	Increase	Promote leaf senescence	[164]
	Glyma.12G149100/GmNAC085	ANAC072	Decrease	Promote leaf senescence	[164]
	Glyma.12G022700/GmNAC81	ANAC036	Increase	Promote leaf senescence	[170]
	Glyma.05G195000/GmNAC30	ATAF	Increase	unclear	[164]
Helianhtus annuus	HanXRQChr13g0397761/HaNAC001	ANAC100	Increase	unclear	[21]
	HanXRQChr13g0407321/HaNAC002	ANAC072	Decrease	unclear	[21]
	HanXRQChr11g0327521/HaNAC004	ANAC047	Increase	unclear	[21]
	HanXRQChr03g0079641/HaNAC005	ANAC019	Increase	unclear	[21]
	HanXRQChr08g0210751/HaNAC003	NAP	Increase	unclear	[21]
	Han003584/HaHB-4	AtHB7	Increase	Delay leaf senescence	[180]
Gossypium hirsutum	GhNAC12	ORS1	Increase	Promote leaf senescence	[187]
	GhNAP	NAP	Increase	Promote leaf senescence	[188]
	CotAD_37422	GRF2	Increase	unclear	[190]
	KF669775/GhWRKY27	AtWRKY041	Increase	Promote leaf senescence	[191]
Vitis vinifera	VvNAC1	NAP	Increase	unclear	[195]
	XP-002281816/VvDRL1	ANAC036	Decrease	Delay leaf senescence	[196]
Petunia hybrida	Comp559557_c0_seq1/PhNAC024	NAP	Increase	unclear	[201]
	Comp22005_c0_seq3/PhNAC017	ORE1	Increase	unclear	[201]

).

For the NAC family, expression pattern analysis as an initial characterization method is a good starting point for selection of candidate genes as putative regulators of senescence processes. Despite some differences, NAC functionality was highly conserved throughout evolution. For example, putative orthologs of the Arabidopsis NAP gene seems to be central senescence regulators. Orthologues to NAP were found associated to leaf senescence in rice, sunflower, wheat, barley, soybean, grape, cotton and petunia (Table 1). NAP-like genes in those species showed a SAG behavior and increased their expression throughout leaf ontogeny. Furthermore, as described earlier, OsNAP and GhNAP has very similar functionality to AtNAP in the senescence process and are considered excellent candidates for the breeding process associated with a functional stay-green phenotype and enhanced agronomic traits [116,188,189]. Moreover, in barley and soybean, AtNAP orthologous promote leaf senescence although no functional stay-green lines were developed to assess crop productivity [139,166]. Hence, NAP-like TFs are putative targets for future breeding programs in outstanding agronomic relevant crops in almost all cited species, both monocots and dicots.

Another example is ORE1, one of the NAC TFs more widely characterized in Arabidopsis. Its regulation is based in ethylene activity during natural senescence in an age-dependent pathway [207]. Rice osnac002 lines show a functional stay-green phenotype, with an increase of 10% in the grain yield. Moreover, ORE1 orthologues increased their expression along leaf ontogeny in rice, maize, sorghum, sunflower and petunia (Table 1). In this sense, ORE1 is a key TF in natural senescence and is considered a powerful candidate gene for crop breeding across species. Similarly, JUB1 and ATAF orthologues showed a conserved expression pattern across all cited species, regardless of monocots or dicots (Table 1). All this evidence suggests that some NAC TFs may have a conserved function in regulating leaf senescence throughout evolution.

By contrast, some other NAC members may differ in their expression pattern or functionally across species. VNI2 expression increased in Arabidopsis, soybean and maize, but presented a different function on senescence regulation in Arabidopsis and soybean, both dicots. On the other hand, ANAC100 is a homolog to ORE1 and is up-regulated in Arabidopsis, sunflower and barley, but delay senescence in rice (Table 1). Interestingly, ANA072, which is upregulated in Arabidopsis and rice, is downregulated in soybean and sunflower and, despite the difference in the expression pattern, this gene promotes leaf senescence in both Arabidopsis and soybean, again two dicot species (Table 1). As described before, the study of ANA072 is complex since it has high sequence identity to ANAC019 and ANAC055. Thus, the divergent result cited in this review could be explained by this redundancy [73].

Furthermore, the ANAC025 ortholog (TaNAMs) in wheat and ANAC022 orthologs (ONAC011 and ZmNAC007) in rice and maize positively regulates leaf senescence (Table 1). These two genes were not reported to be closely involved in leaf senescence in Arabidopsis or in any dicot species cited in this review. This finding suggests they could be regulators of senescence, specifically in monocot species. Furthermore, ANAC036 increases its expression and promotes leaf senescence in soybean but decreases its expression and delays senescence in grapevine (Table 1). This gene was only reported in dicots species, although it was not described to regulate leaf senescence in Arabidopsis.

The divergent functionality of some NAC members across species may be explained by the number of genes gained in the dicot lineages throughout evolution, which was much larger than in the grass lineages [207]. Besides, phylogenetic distance in conjunction with ploidy number and differences in the life cycle (monocarpic or perennial cycle) between model species and crops can result in important differences at the molecular regulation. Such regulation may explain to some extent the difference in functionality between some NAC putative orthologues. Nevertheless, these previous studies in model species like Arabidopsis (dicot) and rice (monocot) were essential for the identification of molecular components regarding senescence process in non-model species, where genome complexity may hinder gene networks analysis [99]. Although, some examples like the detection of TaNAM in wheat from mutant varieties [97], ZmNAC007 in stay-green varieties of maize [156] or the new stress-ER-induced senescence network in soybean [171] show the importance of continuing with conventional breeding in crop species.

6. Conclusions

Crop leaf senescence and grain yields have an inverse relation; that is, early senescence causes substantial biomass decrease. That is why working on plant senescence traits may result in crop yields improvements.

In this work, we discussed some practical examples regarding the importance of transcription factors acting as hub genes in senescence pathways. To our knowledge, stay-green genotypes were successfully selected in relevant agronomic crops like rice, wheat, maize and cotton, with direct improvements in yield or grain quality. Moreover, stay-green genotypes developed in some crops (barley, soybean, sunflower and sorghum) displayed improved agronomic traits, like stress tolerance or increased lifespan. Although, as described before, the improvement on yield or grain nutritional quality requires that the stay-green genotypes are accompanied by an efficient nutrient recycling and transport system from the source tissues to the grains once senescence is triggered.

This review compiles the overall knowledge of TFs, especially the NAC family, associated with leaf senescence available to date in the literature. New NGS technologies combined with molecular studies done in Arabidopsis serve as excellent kick-off information for generating stay-green genotypes in most agronomic crops. However, these previous studies cannot be transferred directly to all crops because senescence may have a different complex origin in other species or because this process may be intimately associated with a particular stress condition that has not been evaluated yet. As summarized in Table 1, putative orthologs from dicots and monocots have some similarities as well as some differences, even between classes. Therefore, as proposed by VanDerBuschel et al. [208], the appearance of new agronomic model plants that may share more molecular path signals with agronomic crops, is essential.

Indeed, the stay-green phenotype may be considered as one of the most promising traits in crop breeding programs, as it could diminish yield losses of plants growing in unfavorable environmental conditions. Functional stay-greens could provide an increase in the grain yield and an improvement in the nutrient content quality, although some studies should be carried over in order to assess if there is any correlation between agronomic traits like the number of reproductive structures, post-harvest senescence and functional stay-green lines in non-conventional crops. As a consequence, it should be considered that some SAG TFs might promote senescence and thus can improve grain yield and quality [97]. This strong impact may be due to their involvement in the recycling/transport mechanisms of nutrients that might impact in the grain filling process. Finally, we propose that cosmetic stay-green genotypes could be useful in breeding programs for most ornamental or horticultural plant species, where maintenance of greenery is an important quality trait.