Advances in studies on ion transporters involved in salt tolerance and breeding crop cultivars with high salt tolerance

Advances in studies on ion transporters involved in salt tolerance and breeding crop cultivars with high salt tolerance 耐盐胁迫相关离子转运蛋白与作物耐盐育种研究的进展 first-author corresp ‡Corresponding Author ‡Corresponding Author †E-mail:zhanggp@zju.edu.cn †E-mail:zhanggp@zju.edu.cn zhanggp@zju.edu.cn Key Laboratory of Crop Germplasm Resource of Zhejiang Province, Department of Agronomy, Zhejiang University, Hangzhou 310058, China Key Laboratory of Crop Germplasm Resource of Zhejiang Province, Department of Agronomy, Zhejiang University, Hangzhou 310058, China Soil salinity is a global major abiotic stress threatening crop productivity. In salty conditions, plants may suffer from osmotic, ionic, and oxidative stresses, resulting in inhibition of growth and development. To deal with these stresses, plants have developed a series of tolerance mechanisms, including osmotic adjustment through accumulating compatible solutes in the cytoplasm, reactive oxygen species (ROS) scavenging through enhancing the activity of anti-oxidative enzymes, and Na + /K + homeostasis regulation through controlling Na + uptake and transportation. In this review, recent advances in studies of the mechanisms of salt tolerance in plants are described in relation to the ionome, transcriptome, proteome, and metabolome, and the main factor accounting for differences in salt tolerance among plant species or genotypes within a species is presented. We also discuss the application and roles of different breeding methodologies in developing salt-tolerant crop cultivars. In particular, we describe the advantages and perspectives of genome or gene editing in improving the salt tolerance of crops. 植物组织特别是地上部钠离子的积累是影响耐盐性的关键因素,这一过程涉及到一些离子转运蛋白,如SOS1、HKT和NHX等.不同植物种和同一物种不同品种之间的耐盐性差异很大,这种差异与耐盐胁迫相关离子转运蛋白基因表达有关.分子标记辅助育种、诱变技术、遗传转化和基因编辑技术为耐盐作物育种提供了高效有力的技术支撑,特别是迅速发展的基因编辑技术,将从非转基因的技术手段有效地改良作物的耐盐性. Salinity Osmotic stress Ionic stress Oxidative stress Salt tolerance 盐害 渗透胁迫 离子胁迫 氧化胁迫 耐盐 Introduction 1 Soil salinity is one of the major abiotic stresses restricting global crop productivity. Moreover, the area undergoing salinization is still expanding. It is predicted that nearly half of all arable land in the world will be under salinization by 2050 (Butcher et al., 2016 2016 ), raising a huge threat to sustainable agriculture development and food security. The development and planting of crop cultivars with high salt tolerance is the most efficient approach for fighting soil salinity. Therefore, it is important to reveal salt tolerance mechanisms and identify relevant genotypes or genes. Salt toxicity in crop plants 1 Salt stress greatly affects crop growth and development. High concentration of soluble salt ions is a main factor resulting in salt stress. The most direct damage to crops caused by salt stress is due to high osmotic pressure resulting from a high concentration of salinity ions (i.e., Na + and Cl − ). Therefore, osmotic stress and ionic stress are severe conditions for crops exposed to salt stress. The superposition of these two stresses can lead to secondary oxidative stress (Munns and Tester, 2008 2008 ). Osmotic stress 2 Osmotic stress occurs when plant roots are subjected to a certain salt level. For most plants the threshold level is around 40 mmol/L NaCl (Munns and Tester, 2008 2008 ). The onset of osmotic stress decreases the ability of plants to take up water. Dehydration may occur when the osmotic pressure of the external salt solution is higher than that of the root cells (Horie et al., 2012 2012 ). This phase lasts for a short time, and leads to stomatal closure and inhibition of cell expansion in shoots (Isayenkov and Maathuis, 2019 2019 ). The formation and development of regenerative organs of cereal crops are greatly affected by salt stress, which reduces the rate of panicle formation and changes flowering and maturity time (Munns and Rawson, 1999 1999 ). Osmotic stress causes physiological water deficiency. In cereals, the major effect of salinity on shoots is a reduction in tillers per plant (Munns and Tester, 2008 2008 ). For dicotyledonous species, the major effect is often a dramatic curtailing of leaf growth or a reduced number of branches (Munns and Tester, 2008 2008 ). Ionic stress 2 Under salt stress, excessive uptakes of Na + and Cl − through transpiration streams cause cyto-toxicity and nutritional imbalance in plants, namely long-term ionic stress. Large amounts of salt ions, especially Na + , accumulated in shoots can reach toxic levels, inhibiting plant growth. The old leaves cannot sufficiently dilute the toxic ions by leaf expansion, thereby accelerating senescence. NaCl is a major component of saline soil. For some plants, such as citrus, Cl − is a more toxic ion than Na + (Moya et al., 2003 2003 ). However, for most crops, Na + appears to have a lower toxic concentration threshold than Cl − (Tester and Davenport, 2003 2003 ). The inhibition of K + by Na + in plants results in a significant reduction in K + uptake and accumulation, and a significant increase in the Na + /K + ratio (Chen et al., 2007 2007 ). The significant reduction of K + uptake may be connected to the phenomenon of salt stress-induced K + loss (Chen et al., 2007 2007 ; Wu et al., 2014 2014 ). Too great an accumulation of Na + in shoots causes a decrease in other essential metal cations such as Ca 2+ and Mg 2+ , which in turn affects physiological and biochemical activities in plants (Chen et al., 2005 2005 ; Munns, 2005 2005 ; Wu et al., 2013a 2013a ). Oxidative stress 2 Salt stress is in general also accompanied by oxidative stress because of excessive generation of reactive oxygen species (ROS), including O 2 − , H 2 O 2 , ·OH, and HO 2 · (Zhu, 2001 2001 ; Munns and Tester, 2008 2008 ; Isayenkov, 2012 2012 ). The excess ROS cannot be eliminated fast enough by antioxidant enzymes, leading to the formation of lipid free radicals, degradation of proteins and metabolites, and inhibition of biological metabolism. Eventually, under long-term salt stress, the stabilities of cell membranes and organelles are destroyed, photosynthesis is severely inhibited, and biosynthesis and nutrient transport are largely blocked (Zhu, 2001 2001 ; Zahra et al., 2014 2014 ). Therefore, in the middle and late stages of salt stress, oxidative stress will cause severe damage to plants. Usually, halophytic plants contain high amounts of antioxidant compounds in their tissues, which is one adaptive strategy enabling them to survive in harsh environments (Munns and Tester, 2008 2008 ). In short, salt stress causes severe inhibition of growth and development of crop plants through osmotic, ionic, and oxidative stresses. Mechanisms of salt tolerance in plants 1 In the process of combating salt stress, plants have evolved a set of physiological and molecular mechanisms to adapt to the different stages of salt stress (Rajendran et al., 2009 2009 ; Roy et al., 2014 2014 ). Recently, “omic” methodologies have been widely used in studies of abiotic stress tolerance in plants (Nawrot et al., 2016 2016 ; Meena et al., 2017 2017 ). Multi-omic methods have proved effective and powerful for understanding complex molecular networks in plants (Nawrot et al., 2016 2016 ; Wang et al., 2016 2016 ). The responses of plant crops to salt stress have been intensively investigated at physiological and molecular levels. The ionome, proteome, metabolome, and transcriptome have been studied to understand the molecular responses involved in osmotic adjustment, ROS scavenging, energy metabolism, Na + detoxification, and ion homeostasis (Wu et al., 2013b 2013b ; Shen et al., 2017 2017 , 2018 2018 ; Huang et al., 2018 2018 ). Osmotic adjustment 2 To cope with osmotic stress, plants synthesize and accumulate compatible osmolytes to maintain turgor and osmotic potential, thereby increasing leaf stomatal conductance to conserve water and alleviate plant growth inhibition (Passioura and Munns, 2000 2000 ; Fricke and Peters, 2002 2002 ; Roy et al., 2014 2014 ). Compatible solutions include N-containing compounds, sugars, straight-chain polyhydric polyols, and cyclic polyhydric alcohols (Hare et al., 1998 1998 ). Most glycophytes synthesize compatible solutions to fight against osmotic stress, but this strategy is “expensive” with the inhibition of growth rate as a cost (Munns and Gilliham, 2015 2015 ). Metabolomic and proteomic analyses have revealed that amino acids like proline, and polyols like inositol, play important roles in developing salt tolerance in barley roots (Wu et al., 2013b 2013b ; Shen et al., 2018 2018 ). Similarly, results from studies of the maize ( Zea mays ) metabolome showed that salt stress leads to the enhanced formation of sugars, contributing to the mitigation of osmotic stress (Guo et al., 2017 2017 ). Inorganic ions such as Na + also can be used as osmolytes provided that they are compartmentalized into vacuoles to reduce their cytotoxicity (Flowers and Colmer, 2008 2008 ). Metabolomic and transcriptomic analyses revealed that sea barley ( Hordeum marinum ) accession H559 did not increase compatible solutions such as proline and maltose more than did barley ( Hordeum vulgare ) XZ113 or “Golden Promise,” but accumulated Na + and K + as the “cheapest” form of osmotic adaptation in roots (Huang et al., 2018 2018 ). For halophytes or salt-tolerant taxa, the uptake, transport, and compartmentalization of inorganic ions as osmo-regulators may be an economical and efficient way to cope with osmotic stress. ROS scavenging and energy metabolism 2 When plants are exposed to salt stress for a long time, the photosynthetic rate declines rapidly and ROS are generated, which have a strong oxidative ability and cause cytoplasmic membrane damage, irreversible metabolic dysfunction, and cell death (Miller et al., 2010 2010 ). Correspondingly, plants have developed the defense system of ROS scavenging, mainly through antioxidative enzymes, such as superoxide dismutase (SOD), ascorbate peroxidase (APX), catelase (CAT), and glutathione peroxidase (GPX) (Miller et al., 2010 2010 ; Wang et al., 2016 2016 ). In most cases, stress tolerance in plants is achieved at the expense of energy consumption (Munns and Gilliham, 2015 2015 ). Therefore, the energy distribution of plants exposed to salt stress is important for their survival and ability to thrive. Proteomic analyses showed that dehydroascorbate reductase and peroxidases scavenging ROS in roots, and phosphoglycerate kinase, triosephosphate isomerase, sedoheptulose-1, and 7-bisphosphatase related to photosynthesis in shoots, play important roles in salt tolerance in the early stage of salt exposure in barley (Shen et al., 2017 2017 ). Salt stress caused a significant reduction in metabolites involved in the glycolysis pathway and an increase in those associated with the tricarboxylic acid (TCA) cycle in the shoots of a salt-sensitive Tibetan wild barley XZ169, but little change in the salt-tolerant line XZ26 (Shen et al., 2016 2016 ). Multi-omic studies also showed that XZ26 adopted strategies of root adaptation to salt stress by enhancing antioxidant ability to cope with ROS and consuming less energy to produce biomass (Shen et al., 2018 2018 ). Comparative transcriptomic and alternative splicing analyses of rice and barley found that differentially expressed genes (DEGs) associated with scavenging ROS and lowering energy consumption might contribute to the higher salt tolerance of barley (Fu et al., 2019 2019 ). Na + detoxification and ion homeostasis 2 Relatively salt-tolerant plant species or genotypes commonly demonstrate a lower accumulation of Na + in shoots when under salt stress (Shen et al., 2016 2016 , 2017 2017 , 2018 2018 ; Fu et al., 2018 2018 , 2019 2019 ; Huang et al., 2018 2018 ). On the other hand, highly tolerant species also show a high accumulation of Na + in roots (Fu et al., 2018 2018 , 2019 2019 ; Huang et al., 2018 2018 ). For most plant species, the main tissue organ to suffer Na + toxicity is the leaf, where Na + is highly accumulated due to ion deposition through the transpiration stream (Munns, 2002 2002 ). Consequently, for most crops, the main physiological response to salt stress is to restrict Na + distribution, thereby lessening accumulation in shoots, even though the Na + content in roots may be greatly increased. Ion homeostasis is another ubiquitous physiological strategy for achieving salt tolerance in plants. The ionomic analysis of three barley genotypes differing in salt stress tolerance revealed that the rearrangement of nutrient elements (i.e., K, Mg, and Ca) in tissue organs possibly contributed to the development of salt tolerance (Wu et al., 2013a 2013a ). K and Na compete with each other for their uptake and accumulation in plants (Chen et al., 2007 2007 ). The ability to retain K + in plant tissues under salt stress is important for achieving salt tolerance (Chen et al., 2005 2005 ), and the K + /Na + ratio has been used to identify salt tolerance in different plants (Chen et al., 2007 2007 ; Kronzucker et al., 2008 2008 ; Shabala et al., 2010 2010 ). K + homeostasis, involving K + -related programmed cell death and K + as a signaling moiety in metabolic pathways, is closely linked to salt tolerance (Isayenkov and Maathuis, 2019 2019 ). In short, to adapt to the different stages of stress caused by salinity, plants have evolved complex physiological and molecular mechanisms including osmotic adjustment, ROS scavenging, energy metabolism, Na + detoxification, and ion homeostasis. Genetic differences in salt tolerance among crops 1 Salt tolerance differs greatly among plant species (Munns and Tester, 2008 2008 ). According to their tolerance and adaptive evolution, plants can be divided into glycophytes and halophytes (Flowers and Colmer, 2008 2008 ). Halophytes can grow normally in an environment with substantial amounts of salt and may even benefit from salty conditions (Shabala, 2013 2013 ; Shabala et al., 2014 2014 ). However, most crops are glycophytes, which are sensitive to salt stress. Even if the scope is narrowed down to within the Poaceae family, salt tolerance still differs greatly among genera such as barley ( H . vulgare ) and rice ( Oryza sativa ) (Ligaba and Katsuhara, 2010 2010 ; Nevo and Chen, 2010 2010 ; Hamam et al., 2016 2016 ). Cultivated plant species and their wild relatives may differ significantly in their salt tolerance. For example, sea barley grass ( Hordeum marinum ) is a wild halophyte species, while other Hordeum species are glycophytes. In a physiological study, we showed that a sea barley grass accession H559 had higher salt tolerance than barley genotypes XZ113 and “Golden Promise” (Huang et al., 2018 2018 ). Comparative studies of plant species that differ greatly in salt tolerance are an effective way to understand the mechanisms of salt tolerance in plants (Fu et al., 2018 2018 , 2019 2019 ; Huang et al., 2018 2018 ). There may also be distinct differences in salt tolerance among genotypes within a plant species (Wu et al., 2014 2014 ). However, the domestication of crops has resulted in a narrowing of genetic variation in wild crop relatives. Therefore, closely related species of crops are valuable genetic resources for modern agriculture and breeding (Dai et al., 2018 2018 ; Isayenkov, 2019 2019 ). For instance, our previous study identified some Tibetan wild barley accessions, which showed higher salt tolerance than a well-recognized salt-tolerant barley cultivar CM72 (Qiu et al., 2011 2011 ). The wide genetic diversity in salt tolerance among plant species and genotypes within a species could provide useful gene donors for improving the salt tolerance of crop cultivars. Although great effort has been applied in exploiting natural variation, only modest improvements in salt stress tolerance in a few crops have been recorded for several reasons, including the complexity of salt tolerance, its interactions with other agronomic traits, and the limited understanding of the physiology and genetics of salt tolerance (Ismail and Horie, 2017 2017 ). Transporters involved in plant salt tolerance 1 In the last two decades, many transporters related to salt tolerance have been identified in various plant species (Han et al., 2015 2015 ). Among them, salt overly sensitive 1 (SOS1), high-affinity K + transporter (HKT), and Na + /H + exchanger (NHX) participate mainly in the processes of the uptake, long-distance transportation, and distribution of Na + and K + . Together with the K + uptake permease (KUP)/K + transporter (KT) family, stelar K + outward rectifier (SKOR) and guard cell outward rectifying K + channel (GORK; outward-rectifying K + channels) families, arabidopsis K + transporter (AKT)/K + channel in Arabidopsis thaliana (KAT; inward-rectifying K + channel) family, two-pore K + channels (TPKs), non-selective cation channel (NSCC), Ca 2+ /cation exchanger (CCX) H + -pyrophosphatase (PPase) and plasma membrane H + -adenosine triphosphatase (ATPase) pump, these transporters play an important role in maintaining Na + /K + homeostasis under salt stress (Fig. 1 1 ). The arrows in solid lines indicate the direction of Na + and K + flux, while dashed arrows indicate the direction of proton flux. Tm, Triticum monococcum ; Os, Oryza sativa ; At, Arabidopsis thaliana ; HKT, high-affinity K + transporter; SOS, salt overly sensitive; NHX, Na + /H + exchanger; TPK, two-pore K + channel; P i , inorganic phosphorus; PP i , pyrophosphate; Ta, Triticum aestivum ; Hv, Hordeum vulgare ; SKOR, stelar K + outward rectifier; ADP, adenosine diphosphate; ATP, adenosine triphosphate; KUP, K + uptake permease; HAK, high-affinity potassium transporter; KT, K + transporter; PIP, plasma membrane intrinsic protein; NSCCs, non-selective cation channels; AKT, K + transporter; KAT, K + channel in Arabidopsis thaliana ; Cyt, cytoplasm; GORK, guard cell outward rectifying K + channel SOS transporters 2 The SOS pathway, containing a myristoylated calcium-binding protein SOS3, a serine/threonine protein kinase SOS2, and a plasma membrane Na + /H + antiporter SOS1, has been well characterized in Arabidopsis (Shi et al., 2000 2000 , 2002 2002 ; Qiu et al., 2002 2002 ; Quintero et al., 2002 2002 ). The main mechanism of the SOS regulatory pathway is that a salt-stress-elicited calcium signal first activates SOS3 and SOS2 to form a protein kinase complex, and then SOS1 is phosphorylated and activated by the SOS3-SOS2 complex to gain the function of achieving Na + efflux from cells (Shi et al., 2000 2000 , 2002 2002 ) (Fig. 1 1 ). It seems likely that SOS1 could also be phosphorylated in a phospholipase D (PLD) signaling pathway-dependent manner (Yu et al., 2010 2010 ). A high Na + concentration increases the enzyme activity of PLDα1, leading to fast accumulation of phosphatidic acid (PA) as a lipid second messenger. PA in turn activates mitogen-activated protein kinase 6 (MPK6), which can directly phosphorylate SOS1 (Yu et al., 2010 2010 ). Apart from in Arabidopsis , the Na + /H + antiporter SOS1 was also functionally characterized in rice (Martínez-Atienza et al., 2007 2007 ; el Mahi et al., 2019 2019 ), wheat (Xu et al., 2008a 2008a ), and tomato (Huertas et al., 2012 2012 ). The SOS1 gene expression pattern, combined with the results of ion analysis in sos1 mutant plants, suggests that SOS1 has several roles in adjusting ion homeostasis: (1) Na + efflux from roots; (2) slowing down Na + accumulation in the cytoplasm to allow time for Na + storage in vacuoles; and (3) controlling long-distance Na + transport between roots and leaves (Shi et al., 2000 2000 , 2002 2002 ; Qiu et al., 2002 2002 ; Quintero et al., 2002 2002 ; Zhu, 2003 2003 ; el Mahi et al., 2019 2019 ). It has also been found that cells lacking vacuoles, such as root tip cells, exhibit high SOS1 activity. However, the disadvantage of this type of Na + extrusion is the loss of the plasma membrane H + gradient. Enhanced levels of SOS1 expression may increase tolerance to Na + , but plant growth remains relatively slow (Isayenkov and Maathuis, 2019 2019 ). Moreover, the unusually long cytoplasmic tail of SOS1 is thought to be involved in Na + sensing (Shi et al., 2000 2000 ; Zhu, 2003 2003 ). A recent study measured the acute Na + sensitivity of sos1 plants at low NaCl concentrations to avoid the effects of osmotic stress. Roots of the sos1 mutant showed a marked down-regulation of genes, although the plants suffered from greater stress, indicating impaired stress detection or an inability to mount a comprehensive response to salinity stress without SOS1 (el Mahi et al., 2019 2019 ). NHX transporters 2 At the cellular level, high amounts of Na + can be tolerated if intracellular compartmentalization maintains a cytoplasmic Na + concentration as low as 10–30 mmol/L (Munns and Tester, 2008 2008 ). Most tonoplast-localized NHXs such as AtNHX1, AtNHX2, and OsNHX5 function by sequestering Na + into vacuoles (Fukuda et al., 2011 2011 ; Bassil et al., 2012 2012 ). AtNHX5, localized in golgi and trans-golgi networks, functions by trafficking Na + into vacuoles (Bassil et al., 2011a 2011a ). These processes are considered an economic strategy for adapting to salinity as they not only prevent Na + toxicity in the cytosol, but also use Na + as an osmolyte in the vacuole to alleviate osmotic stress (Zhu, 2003 2003 ; Munns and Tester, 2008 2008 ; Bassil et al., 2012 2012 ). In Arabidopsis , AtNHX1 and AtNHX2 are the most abundant NHX members (Bassil et al., 2012 2012 ). However, overexpression of AtNHX1 causes only a slight improvement in salt tolerance in Arabidopsis . Moreover, the tolerance level is much lower than that of transgenic plants overexpressing AtSOS1 (Yang et al., 2009 2009 ). This suggests that Na + compartmentalization has a minor effect on the engineering of salt-tolerant crops. On the other hand, NHX proteins have important roles in mediating K + homeostasis in plants (Barragán et al., 2012 2012 ; Andrés et al., 2014 2014 ). Studies of transgenic tomato ( Solanum lycopersicum ) indicated that overexpression of vacuolar AtNHX1 or the endosomal LeNHX2 Na + /H + and K + /H + antiporters leads to enhanced K + accumulation in vacuoles (Rodríguez-Rosales et al., 2008 2008 ; Leidi et al., 2010 2010 ). The main role of NHX-transporters may be in the maintenance of K + homeostasis rather than the sequestration of Na + into vacuoles. AtNHX1 and AtNHX2 antiporters control vacuolar pH and K + homeostasis for regulating plant growth (Bassil et al., 2011b 2011b ). The wheat NHX antiporter TaNHX2 confers salt tolerance in transgenic alfalfa by increasing the capacity to retain intracellular potassium (Zhang et al., 2015 2015 ). HKT transporters 2 A member of the gene family of HKT was first cloned in wheat ( Triticum aestivum ) (Schachtman et al., 1992 1992 ), and the family has since attracted significant attention because it confers robust permeability for Na + (Schachtman and Schroeder, 1994 1994 ; Rubio et al., 1995 1995 , 1999 1999 ). Subsequently, the structure, localization, and expression of HKTs in crops and model plants have been successively identified, revealing substantial divergence in function. Plant HKT proteins contain four conserved P-loop domains. The serine residue (SGGG-type) in the first P-loop region primarily determines Na + permeability for HKT sub-family 1 transporters. However, some studies showed that ion permeability is not completely consistent with the classification of the P-loop-conserved amino acid. For example, the structure of TsHKT1;2 from the Arabidopsis relative Thellungiella salsuginea belongs to subfamily 1, but the protein has K + permeability (Rodríguez-Navarro, 2000 2000 ; Mäser et al., 2002b 2002b ; Ali et al., 2012 2012 ; Oomen et al., 2012 2012 ). More amino acid sites affecting ion transport properties in wheat have also been reported. The substitutions of amino acids A240V, L247F, Q270L, N365S, and E464Q sites in TaHKT2;1 from wheat ( T . aestivum ) significantly affect Na + transport properties (Diatloff et al., 1998 1998 ; Rubio et al., 1999 1999 ). Many members of the HKT family have now been functionally characterized (Table 1 1 ). Among the dicotyledons, the model plant Arabidopsis has only one HKT gene, AtHKT1;1 , which has been well documented. AtHKT1;1 has high affinity for Na + and participates in the uptake of Na + in roots, Na + unloading from xylem sap, and leaf Na + refluxing to phloem, thereby reducing shoot Na + toxicity and protecting leaves from salt stress (Mäser et al., 2002a 2002a ; Davenport et al., 2007 2007 ; Møller et al., 2009 2009 ) (Fig. 1 1 ). In gramineous plants, there are generally multiple copies of the HKT gene, such as 9 in rice, 5–11 in the A, B, and D genomes of wheat, and 8 in barley (Garciadeblás et al., 2003 2003 ; Huang et al., 2008 2008 ; Horie et al., 2009 2009 ; Qiu et al., 2011 2011 ; Waters et al., 2013 2013 ). The functional analysis of the HKT genes in rice is relatively comprehensive, covering nine HKT genes, while only four HKT genes have been reported in wheat and only three in barley. The expression, localization, and physiological function of these reported HKT genes in rice, wheat, and barley are listed in Table 1 1 . Among them, OsHKT1;5 in rice encodes an Na + -selective transporter that functions in K + /Na + homeostasis under salt stress (Ren et al., 2005 2005 ). Kobayashi et al. ( 2017 2017 ) used two independent transfer DNA (T-DNA) insertion mutants of OsHKT1;5 to further reveal its physiological roles in mediating Na + exclusion in the vasculature to protect leaf blades and reproductive tissues under salt stress conditions (Fig. 1 1 ). A major quantitative trait locus (QTL) Nax2 was identified in Einkorn wheat ( Triticum monococcum ), and TmHKT1;5-A , located by map-based cloning in the region of Nax2 , reduced Na + accumulation in tomato leaves (Byrt et al., 2007 2007 ; James et al., 2011 2011 ; Munns et al., 2012 2012 ) (Fig. 1 1 ). Furthermore, it was demonstrated that TaHKT1;5-D from bread wheat ( T . aestivum ) is a major gene of the Kna1 locus, which plays a role in leaf Na + exclusion and salt tolerance (Gorham et al., 1990 1990 ; Byrt et al., 2007 2007 , 2014 2014 ) (Fig. 1 1 ). In barley, knock-down of HvHKT1;1 led to higher Na + accumulation in both roots and shoots, while overexpression of HvHKT1;1 in salt-sensitive Arabidopsis mutant ( hkt1-4 ) and loss-of-function mutants ( sos1-12 ) resulted in significant reductions in shoot and root Na + accumulation (Han et al., 2018 2018 ). That study also showed that the constitutive expression of HvHKT1;1 did not increase Na + influx into plant roots and that the gene may take part in the relocation of Na + to root epidermal cells for efflux (Fig. 1 1 ). HvHKT1;5 knock-down barley lines showed higher salt tolerance accompanied by a dramatic decrease in Na + translocation from roots to shoots and increases in the K + /Na + ratio compared with wild-type plants under salt stress. The negative regulation of HvHKT1;5 in salt tolerance distinguishes it from other HKT1;5 members (Huang et al., 2020 2020 ). Plant species Gene Gene expression, localization, and function Reference Oryza sativa OsHKT1;1 Mainly expressed in the phloem of leaves; the expression in old leaves is up-regulated by salt stress, which protects young leaves by accumulating Na + in the old leaves Wang et al., 2012 2012 O . sativa OsHKT1;3 Expressed in the root stele, phloem, and leaf vascular bundle; localized on the golgi; associated with leaf curl Jabnoune et al., 2009 2009 O . sativa OsHKT1;4 Mainly expressed in the vascular tissue of shoot; Na + was unloaded from the stem and leaf sheath during the reproductive growth stage, but this function is not significant during the vegetative growth stage Suzuki et al., 2016 2016 O . sativa OsHKT1;5 ( SKC1 ) Expressed in the plasma membrane of xylem parenchyma cells in root and leaf sheath; unloading Na + from the xylem; reducing Na + accumulation in leaves Ren et al., 2005 2005 ; Kobayashi et al., 2017 2017 O . sativa OsHKT2;1 Expressed in root epidermis and cortical cells; gene expression is reduced under salt stress; involved in root Na + absorption Garciadeblás et al., 2003 2003 ; Kader and Lindberg, 2008 2008 O . sativa OsHKT2;2 Mainly expressed in root and mesophyll cells; gene expression in phloem is significantly enhanced under salt stress; K + /Na + symporter Kader et al., 2006 2006 ; Yao et al., 2010 2010 O . sativa (cv. Nona Bokra) No-OsHKT2;2/1 Gene expression is induced under salt stress; increasing salt tolerance by enhancing selective absorption of K + Oomen et al., 2012 2012 O . sativa OsHKT2;3 Expressed in roots, basal stem, leaves, and sheaths, but no function; possibly pseudogenes Garciadeblás et al., 2003 2003 O . sativa OsHKT2;4 Expressed in root epidermis, stems, internodes, vascular bundles in leaf sheath, and phloem; high affinity to K + , low affinity to Na + ; ion affinity is inhibited by K + Horie et al., 2011 2011 ; Sassi et al., 2012 2012 ; Zhang et al., 2017 2017 Triticum monococcum TmHKT1;4-A ( Nax1 ) Expressed in roots and sheaths; unloading Na + from the vascular bundle; keeping Na + in leaf sheath; unloading Na + from the phloem Lindsay et al., 2004 2004 ; James et al., 2006 2006 T . monococcum TmHKT1;5-A ( Nax2 ) Expressed in the plasma membrane of vascular tissues in root; unloading xylem Na + ; reducing sodium accumulation in shoots Byrt et al., 2007 2007 ; Munns et al., 2012 2012 Triticum aestivum TaHKT1;5-D ( Kna1 ) Expressed in the plasma membrane of stele cells in root; unloading Na + from xylem; reducing Na + accumulation in shoots Byrt et al., 2014 2014 T . aestivum TaHKT2;1 Expressed in the plasma membrane of root cortex; Na + /K + cotransporter under low Na + condition; Na + uniporter under high Na + condition Rubio et al., 1995 1995 ; Gassmann et al., 1996 1996 Hordeum vulgare HvHKT2;1 Gene expression is up-regulated in the roots under low K + condition; K + /Na + cotransporter; when overexpressed in barley, the salt tolerance is enhanced, which may be related to the specific distribution of Na + in leaves Mian et al., 2011 2011 H . vulgare HvHKT1;1 Expressed in the plasma membrane of the root epidermis and steles; participating in the lateral transport of Na + in the roots, and finally reducing the accumulation of Na + in the shoots; involved in maintaining the balance of K + and Ca 2+ in the roots Han et al., 2018 2018 Oshkt2;1 mutant rice plants exhibited significantly reduced growth compared to wild-type plants under low Na + and K + conditions, and accumulated less Na + , but not less K + , in tissues, indicating that the OsHKT2;1 transporter mediates Na + influx into K + -starved roots (Horie et al., 2007 2007 ). HvHKT2;1 co-transports Na + and K + in Xenopus oocytes (Mian et al., 2011 2011 ). In barley plants, overexpression of HvHKT2;1 can result in higher Na + concentration in the xylem sap and more translocation of Na + to leaves, indicating its role in regulating Na + xylem transport (Mian et al., 2011 2011 ). The functions of other members of HKT2 transporters in cereals are listed in Table 1 1 . It is reported that HKT2 sub-family members have a glycine residue in that site (GGGG-type) and are permeable to Na + or both Na + and K + transports (Mäser et al., 2002b 2002b ; Platten et al., 2006 2006 ; Rodríguez-Navarro and Rubio, 2006 2006 ; Horie et al., 2009 2009 ). In conclusion, membrane transporters play an important role in the regulation of K + /Na + homeostasis in plant tissues under salt stress, and their action is considered a key mechanism of salt tolerance in crops. Genetic improvement of salt tolerance in crops 1 In the last few decades, many attempts have been made to develop salt-tolerant crop cultivars using various breeding methodologies, including conventional breeding, mutagenesis breeding, and genetic engineering. Great progress has been made in understanding the physiology and genetics of salt tolerance in several crops, such as rice and wheat (Ren et al., 2005 2005 ; Munns et al., 2012 2012 ), laying a solid foundation for further improvement of salt tolerance in crops. The genetic diversities of cultivated plant species and their wild relatives may provide new and elite genes that have yet to be effectively used (Shen et al., 2016 2016 , 2018 2018 ; Huang et al., 2018 2018 ). Transforming this knowledge into modern approaches through the tools of genomics and molecular breeding will enhance the development of tolerant cultivars, thereby enabling increased food production (Ismail and Horie, 2017 2017 ). Conventional breeding 2 Conventional breeding of new salt-tolerant crop cultivars has been successful in recent decades (Singh et al., 2009 2009 ). Since the 1970s, the International Rice Research Institute (IRRI) has bred more than 30 salt-tolerant rice cultivars through sexual hybridization. With the development of molecular markers, traditional breeding with marker-assisted selection can shorten the breeding cycle. Success in conventional breeding relies first on the proper identification of tolerant genotypes and genes. Land races and wild relatives are considered ideal breeding materials because they exhibit great genetic diversity, including large variation in their responses to salt stress (Reynolds et al., 2005 2005 , 2007 2007 ). Successful breeding for salt stress tolerance also relies on the identification of QTLs responsible for tolerance and their association with linked molecular markers, which are then used for effective marker-assisted selection. Numerous studies have been conducted to map genes or QTLs. For example, Munns et al. ( 2012 2012 ) produced two independent BC4 lines containing Nax2 ( TmHKT1;5-A ) from a cross between the durum wheat cultivar Marrocos and T. monococcum accession C68-101, and a backcross with durum wheat cultivar Tamaroi (James et al., 2006 2006 ; Byrt et al., 2007 2007 ). Field trials on saline soils demonstrated that the presence of TmHKT1;5-A significantly reduced leaf Na + concentration and increased durum wheat grain yield by 25% compared to near-isogenic lines without the Nax2 locus (Munns et al., 2012 2012 ). Saltol is a major QTL for salt tolerance in rice (Thomson et al., 2010 2010 ). A marker-assisted backcross strategy was undertaken to transfer positive alleles of Saltol from FL478 into BT7, and the rice salt tolerance was successfully improved without penalizing agronomic performance (Linh et al., 2012 2012 ). Although the progress of conventional breeding has been greatly accelerated through marker-assisted selection, it is still time-consuming and relies largely on high-throughput genotyping platforms. Mutagenesis breeding 2 In the last century, there were many studies on the use of plant tissue and cell cultures to obtain salt-tolerant mutants. In vitro plant cells or tissues including callus, cell suspensions, and protoplasts have been used in mutagenesis breeding. The selection of salt-tolerant cultivars by in vitro culture includes spontaneous mutation and artificially induced variation. In spontaneous mutation, NaCl, seawater, polyethylene glycol (PEG), hydroxyproline (HYP), and L -azetidine-ethyl-carboxylic acid have been used to screen for the selection of salt-tolerant cultivars (Zhao et al., 1995 1995 ; Du et al., 1999 1999 ; Wang and Jia, 1999 1999 ). Nabors et al. ( 1980 1980 ) used nine consecutive screens to select salt-tolerant tobacco cell lines, and the regenerated salt-tolerant plants were able to stably withstand seawater irrigation for two consecutive generations. This was the first report of an artificially bred cultivar with high salt tolerance that could be inherited by future generations through sexual reproduction. Ye et al. ( 1987 1987 ) combined anther culture techniques with hybridization to screen for salt-tolerant barley cultivars in salt-stressed media. Genetic variation was artificially induced using physical methods (i.e., X-rays, γ-rays, β-rays, or neutrons) or chemical mutagenic agents (i.e., alkylation agents or azides), which cause a higher mutation frequency than spontaneous mutation, and can create more valuable mutants in a shorter time (Li et al., 1990 1990 ; Guo et al., 1997 1997 ). A successful example is the production of the barley cultivar Golden Promise, which is a γ-ray-induced semi-dwarf mutant from the cultivar Maythorpe (Forster, 2001 2001 ). However, the randomness of mutation and difficulties in regenerating whole plants greatly restrict the application and development of mutagenesis breeding. Genetic engineering 2 Transgenic approaches have been widely used in gene functional characterization for several decades. Genomic studies in combination with transcriptomic analysis can be used to discover new genes and reveal regulatory systems and their genomic locations (Roorkiwal et al., 2014 2014 ). Alternatively, genetic transformation provides opportunities for extensive application of genetic engineering across different species, regardless of their reproductive isolation. Thus, many transgenic plants with high salt tolerance have been developed across several species (Khan et al., 2015 2015 ). The overexpression of type-I H + -PPase genes enhanced salt and drought tolerance in tobacco ( Nicotiana tabacum ), cotton ( Gossypium hirsutum ), and maize ( Z . mays ) (Gao et al., 2006 2006 ; Li et al., 2008 2008 ; Lv et al., 2008 2008 , 2009 2009 ). Under salt stress, HvHKT1;5 knock-down transgenic barley lines showed improved salt tolerance, dramatic decreases in Na + translocation from roots to shoots, and increases in the K + /Na + ratio compared with wild-type plants (Huang et al., 2020 2020 ). A late embryogenesis abundant (LEA) protein gene, HvA1 , from barley was introduced into rice, and the transgenic rice plants showed a significant increase in their tolerance to water and salt stresses (Xu et al., 2008b 2008b ). Chen et al. ( 2015 2015 ) also demonstrated a successful application of an inducible promoter in regulating the spatial and temporal expression of HvA1 for improving rice root architecture and multiple stress tolerance without yield reduction. However, because of public concerns about transgenic crops, further research is required to reveal whether this approach is effective for developing commercial salt-tolerant cultivars. Genome editing is defined as the precise modification of the nucleotide sequence of the genome of an organism or cell by inserting, deleting, or replacing DNA at a specific site, usually through the use of engineered nucleases (Chen and Gao, 2014 2014 ; Gao, 2015 2015 ). Genome editing using zinc-finger nucleases (ZFNs) (Kim et al., 1996 1996 ) and transcription activator-like effector nucleases (TALENs) (Christian et al., 2010 2010 ) has been used for almost two decades, but it has recently come under the spotlight through the development of clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated (Cas) systems, which provide simplicity and ease for targeted gene editing (Jinek et al., 2012 2012 ; Li et al., 2013 2013 ). Technologies involving targeted genome editing using sequence-specific nucleases have great potential for crop improvement (Khatodia et al., 2016 2016 ). Such technologies are particularly useful when favorable alleles associated with the specific have been identified and characterized, as is the case for salt tolerance (Ismail and Horie, 2017 2017 ). So far, targeted genome editing for disease resistance has been applied many times in rice (Li et al., 2012 2012 ), wheat (Wang et al., 2014 2014 ), and tomato (Nekrasov et al., 2017 2017 ), but only a few studies have focused on the improvement of salinity tolerance in crops through genome editing. Zhang et al. ( 2018 2018 ) enhanced rice salinity tolerance via CRISPR/Cas9-targeted mutagenesis of the OsRR22 gene. Zhou et al. ( 2017 2017 ) used CRISPR-Cas9-based genome editing to obtain mutants of single microRNA (miRNA) genes ( OsmiR408 and OsmiR528 ) and miRNA gene families ( miR815a/b/c and miR820a/b/c ) in rice, and revealed a positive regulator of rice salt stress tolerance, OsMIR528 . With the rapid development of functional genomics, and the identification and characterization of other important genes, genome editing will provide more powerful and efficient opportunities for improving the salt tolerance of crops. Certainly, more studies should be carried out on the applications of genome editing to the precision breeding of crops. In conclusion, various breeding methodologies, including conventional breeding, mutagenesis breeding, and genetic engineering, have been commonly used in developing salt-tolerant crop cultivars and, in future, gene editing is likely to become a dominant method. Conclusions 1 Many studies have shown that Na + accumulation in tissues, especially in shoots, is a major factor affecting salt tolerance, which in turn depends on Na + uptake, long-distance transportation, and distribution in plants mediated by ion transporters like SOS1, HKT, and NHX. There are dramatic differences in salt tolerance among plant species and genotypes within a species. The wide genetic diversity paves the way for further improvement of salt tolerance in crops. Development of salt-tolerant crop cultivars relies on advanced breeding methodologies, including molecular marker-assisted breeding, mutagenesis breeding, and genetic transformation, while recently developed genome or gene editing provides a more powerful and efficient tool for crop breeding. Commonly regarded as a non-genetically modified (GM) technology, gene or genome editing will become a focus of study and use in crop breeding. References Z Ali , HC Park , A Ali , 等 . 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Regulation of ion homeostasis under salt stress Compliance with ethics guidelines Lu HUANG, De-zhi WU, and Guo-ping ZHANG declare that they have no conflict of interest. This article does not contain any studies with human or animal subjects performed by any of the authors. 10.1631/jzus.B1900510 Project supported by the National Natural Science Foundation of China (No. 31620103912), the China Agriculture Research System (No. CARS-05), the Fundamental Research Funds for the Central Universities (No. 2019FZA6011), and the Jiangsu Collaborative Innovation Centre for Modern Crop Production (No. JCIC-MCP), China 2019-08-27 2019-12-27 2022-01-05 Copyright © Zhejiang University and Springer-Verlag GmbH Germany, part of Springer Nature 2020 2020 Journal of Zhejiang University-SCIENCE B (Biomedicine and Biotechnology) 06 21