The Plant Cell, Vol. 18, 1542–1557, July 2006, www.plantcell.org ª 2006 American Society of Plant Biologists HISTORICAL PERSPECTIVE ESSAY Osmogenetics: Aristotle to Arabidopsis WATER: THE PRINCIPLE OF NATURE IT MUST BE OSMOSIS! The historical beginning of understanding the importance of water to life started with the Ionic Philosophers (from the Ionic Sea), who began to think that physiology (referring to nature, from the ancient Greek physis ¼ nature; logos ¼ talk) could explain life better than theology (referring to god, from the ancient Greek theos ¼ god; logos ¼ talk). Among these, Talete (624–547 BC) is credited with the observation that the ‘‘principle of nature is water,’’ and all life begins with water. In this essay, we explain how water moves through plants and is used for growth by recounting the history of ideas, observations, and experimentation that form our present basis of understanding of plant water homeostasis. We briefly summarize the history of approaches and discoveries that have identified the growing collection of genes that control altered growth and/or altered water use properties of plants during osmotic mediated stresses, with the exception of freezing stress. These genes, which have often been identified by forward genetic mutation screens, impact one or more of several mechanisms controlling water absorption, movement, and use. A better understanding of the basis of water homeostasis should be a useful tool in the arsenal of molecular geneticists, and increased awareness of the utility of genetics to understand adaptation to osmotic stress should be a great benefit to physiologists. The first systematic and definitive quantitative analyses of water absorption and movement within plants were reported by Stephen Hales (1727). Hales was greatly influenced by the work of William Harvey (1628), who first described blood circulation, and also John Ray, who started examining water movement in plants in the 1660s. By simple wet and dry weight measurements, he was able to determine that most of the water absorbed by plants was lost to the air (transpired, or perspired as it was then called). These experiments revealed that waste water was somehow expelled from plants and corrected the mistaken view long held from the vitalist perspective. Not only were plants composed mostly of water as had been proposed earlier by Jan Baptista Van Helmont (1577–1644) (Weevers and Went, 1949), they were also big expellers of water. Hales made several other critically important and novel observations (the highly prestigious honor in plant biology is aptly named the Stephen Hales Prize). He realized that some physical force was responsible for the movement of water in plants. Although he never brought together the precise physical relationships of absorption of water by roots and movement through stems and transpiration from leaves, he laid the conceptual foundation for these relationships. Even more importantly, he demonstrated the value of accurate quantitative results for the purpose of interpretation, a lesson learned again from Mendel’s simple measurements that led to a correct understanding of heritable traits (reviewed in Lander and Weinberg, 2000). In the early 19th century, Nicolas Théodore de Saussure made a critical discovery that minerals dissolved in water were not absorbed by plants in the same proportion as water was absorbed. Furthermore, different minerals were not absorbed in the same proportions that they existed in the external water supply (de Saussure, 1804). This was the beginning of our understanding of the idea of differential permeability. Many investigators struggled to explain this phenomenon on the basis of physical and chemical knowledge at that time, but no clear explanations resulted. A breakthrough came finally with the work of Henri Joakim Dutrochet (1837) who coined the term osmosis. Dutrochet understood that water was attracted from a solution with a low concentration of solutes, such as sugar or salt, to a solution with a higher concentration (this is essentially osmosis as it was eventually defined in a formal physical chemical manner as we shall explain later). Although he constructed an osmometer and demonstrated that it could generate an osmotic pressure (a tremendously important concept that we also will examine in more detail later), he did not fully understand the consequential role of differential permeability of the osmotic HOW DOES YOUR GARDEN GROW? THE FIRST IDEAS Following Talete’s doctrine, the Greeks from the time of Aristotle (384–322 BC) and Theophrastus (372–287 BC) believed that plants absorbed their nutrients from the soil and, much like animals, converted them into body mass by some vital principle that separated living from nonliving things. Part of this ‘‘vital’’ view of plants was that they absorbed only nutrients that were used for growth, as there were no observable waste products that were expelled from plants. This is a crucial incorrect view that later had far-reaching implications for understanding the growth processes of plants. Centuries later, a seldomremembered Italian physician, Andrea Cesalpino (1519–1603), made the earliest attempt to explain absorption of water by plants from a purely physical perspective. Following the earlier suggestions of Claudius Galen (129–200), Cesalpino proposed that water uptake in seeds and plant tissues occurred by a process of imbibition through the microcapillarity of their internal structure (reviewed in Meidner, 1983). John Ray (1627–1705) and Marcello Malpighi (1628–1694) first considered the possibility that capillary action brought water from the roots through the walls of the vascular cells to the leaves. July 2006 1543 HISTORICAL PERSPECTIVE ESSAY membrane. However, at this point, water absorption and movement in plants was placed on a firm physical-chemical foundation, and the vital force was thereafter fully abandoned. Moritz Traube (1867), using information provided by the work of Thomas Graham (1862), was apparently the first investigator to prepare artificial membranes and demonstrate that they were capable of discriminating between water molecules and small solute molecules dissolved therein. This was a significant improvement in Dutrochet’s concept of osmosis and was later supported by Wilhelm Pfeffer’s accurate measurements of osmotic pressure using membranes described by Traube (Pfeffer, 1877). However, the osmosis concept could be put into a proper biological context only because of the understanding of the structure of cells that was advanced greatly in 1846 by Hugo von Mohl, who described the protoplasm as a separate entity from its surrounding wall (reviewed in Weevers and Went, 1949). Thus, it was possible for Pfeffer to present the important idea that the osmotic pressure generated by the concentration of solutes in cellular (protoplasmic) water was able to create a pushing force on the inner walls of plant cells (which he actually called turgor pressure) that could cause their volumes to expand. Pfeffer also believed that a thin film of heterogeneous material was deposited on the inner surface of cell walls that provided a semipermeable barrier by which osmosis could take place. He called this thin film the plasma membrane. Thus, the work of Dutrochet (and those that expanded on his ideas about osmosis) represents a true milestone that placed our knowledge of how plants are able to use water to grow on a firm scientific basis. Using dissolved solutes to cause the attraction of water into cells by osmosis across a semipermeable membrane and subsequently creating a hydrostatic pressure (turgor), plant cells could become bigger. Unfortunately, Pfeffer and other investigators of that time did not believe that the plasma membrane was anything other than a mechanical-physical structure that allowed the passage of solutes based on size, as described by Hugo de Vries (1877). The work of Waymouth Reid (1890) showed that the plasma membrane in some places adhered to the cell wall and in others moved away from the cell wall during osmotic withdrawal of water from cells (reviewed in Kramer and Boyer, 1995). Much later, this was found to result from special structural features of the plasma membrane and cell wall called Hectian strands (Oparka, 1994). de Vries called this phenomenon plasmolysis, and it was then realized that the plasma membrane behaved as an active vital filter for specific solutes. This remains today the central biological concept by which plant cell enlargement by absorption of water is explained. THE FREE ENERGY CONCEPT: WHERE BIOLOGY MEETS MATHEMATHICS To understand the history of how the osmotic theory of water absorption and subsequent cell growth became mathematically formalized, it is essential to begin by explaining the physical chemical basis for Dutrochet’s theory of osmosis. We will present only the basic essential formulas that are needed to see how these concepts evolved. Most of our formal treatment of the descriptions of water movement in plants originates from one common concept: molecules, including water, contain energy that can be dissipated in various forms (Slatyer, 1967; Salisbury and Ross, 1992). Part of the energy dissipated and transferred between a system and its surroundings may generate work, the amount of which depends on the number of molecules exchanging energy. This work may be used for many purposes, including moving water into and through the plant. Willard Gibbs (1931) was the first to formally define the amount of energy available for work, including work required to drive biological functions, which he termed the change in free energy (G) as a function of the changes in entropy (S), enthalpy (H), and temperature (T) of a system (Equation 1): DG ¼ DH2TDS ð1Þ Park Nobel (1991) elegantly framed the application of this equation in the context of plant physiology, explaining that any biological function or process in plants involving free energy changes that occur spontaneously proceeds toward decreasing free energy. In this respect, the movement of water into and throughout plants may be predicted based on the DG. A negative DG value is indicative of a spontaneous process; by contrast, a positive DG indicates the minimum amount of work (free energy) input required for a process to occur. Considering that the Gibbs free energy of a system is the sum of all of its components, it is possible to assign an amount of free energy to each component of an aqueous solution containing solutes on a molar basis. The chemical potential (mj) of a species j is therefore defined as the amount of free energy (available to do work) that one mole of that substance possesses (Slatyer, 1967). Many factors will affect the chemical potential of a substance, including pressure, particle charge, gravity, and other physical factors. The chemical potential of any substance mj is mathematically defined in Equation 2, which introduces the term ‘‘activity’’ of a substance (aj). In describing the chemical potential of a substance, it is proper in thermodynamics to refer to activity instead of concentration because intermolecular interactions increase as concentration increases, affecting free energy content (aj ¼ gjc, where g, the activity coefficient is ,1; c ¼ concentration). This important concept was originally introduced by Noyes and Bray (1911) and further developed by Brønsted (1920), who was the first to link formally the activity (a) of a component to its chemical potential; o mj ¼ mj 1RT ln aj 1 VjP 1 zj FE 1 mj gh; ð2Þ where R ¼ gas constant; T ¼ temperature on the absolute scale; aj ¼ activity of j; Vj ¼ partial molal volume of species j; 1544 The Plant Cell HISTORICAL PERSPECTIVE ESSAY P ¼ pressure (in excess of atmospheric pressure); zj ¼ charge number of species j; F ¼ Faraday’s constant; E ¼ electrical potential; mj ¼ mass per mole; g ¼ gravitational acceleration; h ¼ height; and mjo ¼ the chemical potential for a reference state, which is obtained when j ¼ 1 (therefore, RT ln aj ¼ 0), VjP ¼ 0 (i.e., the pressure in excess of atmospheric pressure ¼ 0), zjFE ¼ 0 (i.e., the species j is uncharged or the electrical potential is 0), and mjgh ¼ 0 (i.e., there is no gravitational component). When all these conditions exist, mj ¼ mjo. The presence of a term for a standard state (mjo) is important because, as we will see later, in most applications of chemical potential, we refer to differences in chemical potentials rather than to the actual values. Therefore, chemical potentials must be expressed relative to a reference level. This equation and its derived forms became the basis for predictions of the direction and extent of movement of water in aqueous solutions into, throughout, and out of plants. FROM CHEMICAL POTENTIAL TO WATER POTENTIAL: THE MATHEMATICS OF OSMOSIS In the late 19th century, the concept of Gibbs free energy was further developed to describe the properties and behavior of water in growing plants by applying the formal mathematical treatment of the chemical potential of aqueous solutions to the ideas of osmosis developed earlier by Dutrochet (1837), Traube (1867), Pfeffer (1877), and others. In 1886, Francois Marie Raoult, using as a foundation Henry’s gas law, demonstrated that the vapor pressure of mixed liquids is dependent on the vapor pressures of the individual liquids and the mole fraction of each present. Raoult’s law allows us to calculate the vapor pressure of any solution, since the partial vapor pressure above the solution is related to the escaping tendency (or chemical potential) of each component. At equilibrium, the chemical potential of a component i (mi) is the same in the solution and in the vapor phase. Raoult’s law established the first link between the chemical potential of a solvent (water) and the solutes dissolved in it. Following Raoult’s law, in the same year (1887), Jacobus Henricus van’t Hoff (Nobel Prize in Chemistry in 1901), based on experimental data provided by Pfeffer (1877), developed an equation that linked the osmotic pressure to solute concentration (osmotic pressure is defined as the pressure exerted by the flow of water through a semipermeable membrane separating two solutions with different concentrations of solutes) (Nobel, 1991; Salisbury and Ross, 1992). van’t Hoff’s equation (Equation 3) became the first mathematical formalization of the concept of osmosis previously presented by Dutrochet and further developed by Traube (1867), Pfeffer (1877), and others. pV ¼ ns RT, ð3Þ where p ¼ osmotic pressure (MPa), V ¼ solvent volume (m3), ns ¼ mole of solute; R ¼ gas constant, and T ¼ temperature in K. The shift from activity to solute concentration made these concepts more amenable to application in biology and certainly friendlier to nonmathematicians. In addition, both the van’t Hoff and Raoult equations provided the theoretical basis on which many instruments were developed and used to measure and calculate osmotic pressures of solutions, including intracellular solutions. Thus, a pivotal role of solutes was formally established in affecting both water movement and turgor in a compartmentalized environment confined by a semipermeable membrane, such as the living cell. As a natural consequence of the van’t Hoff observations, much work between 1920 and 1950 was focused on defining relationships between osmotic pressure and the ability of plants to acquire water from a dry soil environment or one with a high concentration of solutes (salinity) (Kramer, 1950). It was clear to most scientists, however, that this approach had limitations. Finally, in the 1950s and 1960s, the concept of water potential Cw was developed and proposed for standard use by Slatyer and Taylor (1960). By combining the chemical potential (Equation 2) and the van’t Hoff (Equation 3) relationships, it is possible to define the chemical potential for water, which can be expressed using a quantity proportional to mw 2 mwo. This quantity will be called from here on water potential (Cw) (Equation 4): o Cw ¼ ðmw 2mw Þ=Vw ¼ P 2 p 1 rw gh; ð4Þ where all symbols are as for Equation 2: rw ¼ density of water and Cw, the water potential, is a quantity proportional to Dmw. Here, the term mwo refers to the chemical potential of pure water at atmospheric pressure. In addition, the chemical potential has been divided by the partial molal volume of water (Vw) to obtain more convenient units of pressure (see Nobel, 1991; Kramer and Boyer, 1995). Numerous expressions of Cw have been proposed (Nobel, 1991; Salisbury and Ross, 1992; Taiz and Zeiger, 1998) after its original derivation (Slatyer and Taylor, 1960) from the chemical potential formula. Among these, a familiar one for most plant physiologists and practitioners is the following (Equation 5): Cw ¼ Cp 1 Cp 1 Cm ; ð5Þ where Cp ¼ osmotic potential, Cp ¼ pressure potential, and Cm ¼ matrix potential. The osmotic and pressure potentials represent the effects of solutes and pressure, respectively. The matrix potential refers to the effects of liquid–solid interactions on the chemical potential of water. The contribution of a gravitational component Cg to Cw is 0.0098 MPa m21. Therefore, this term is important when describing vertical movement of water in tall trees, whereas it is otherwise generally neglected. The concept of Cw provided a new basis on which to predict, within certain conditions, how water will move from one place to another. Equation 5 made it possible to standardize measurements (having pure water as a reference term), so that comparisons between data collected by different investigators using July 2006 1545 HISTORICAL PERSPECTIVE ESSAY different species and environments could be made (including comparisons of the degrees of stress to which plants are exposed). Therefore, the fundamental accomplishment of transition from m to Cw was to establish an easy method to compare measurements of m by relating all measurements to m of pure water. Despite contrasting opinions on the soundness of the Cw concept and its applications (Kramer, 1988; Passioura, 1988), Equation 5 may be considered the most basic and useful formula for plant biologists to consider when examining the water relations of plants under most conditions. OSMOSIS, TENSION, AND TRANSPIRATION: THE SOIL, PLANT, AND ATMOSPHERE CONTINUUM Once the Cw concept was established, two fundamental physical-chemical principles of plant water movement emerged: (1) water moves within a system in the direction toward the lowest free energy state (lowest/most negative Cw) to establish Cw equilibrium; (2) the components of Cw are therefore the driving forces for direction and degree (amount) of water movement. It was finally realized that plants need to be in favorable Cw balance with two components of the plant environment: the soil and the air. The relative ability of different plants to tolerate environments with diminished water availability could be accurately determined by measuring the Cw of each part of a system consisting of the soil, plant, and atmosphere continuum (SPAC), a term that was first used by Huber (1924). In nontranspiring plants, the DCw of Equation 5 will depend on the solute concentration of the root cells and the Cw of the external soil solution, which will be dominated by either solute concentration (saline conditions) or the matrix component of Cw (drying soils). In fact, the effect of soil dehydration on its Cw can be complex depending on the soil type. Shull (1916), founder of the journal Plant Physiology, determined that water can be absorbed from some soil types more easily than from others. The mechanism of water movement in slowly or nontranspiring plants was originally described by Renner (1912), who referred to it as active absorption. Under these conditions, roots behave essentially as osmometers since solutes that accumulate in the root cells decrease the Cw below that of the external nutrient solution in the soil. This will allow water that diffuses into the cell wall structure of the roots to move along the Cw gradient on its way to the vascular system, passing through at least one plasma membrane at the endodermis, where selectivity of solute (especially ion) absorption takes place (Boyer, 1985). Ion accumulation into the xylem of non- or low-transpiring plants may generate a positive hydrostatic pressure called root pressure, a term coined by von Sachs (1882), that is usually visible as guttation or exudation from the stem of detopped plants. Although movement of water to the shoot probably passes both along a cytoplasmic route through several serial plasma membranes (cell-to-cell path) and an apoplastic path, by 1966 it was accepted that the majority of water that flows to the shoot after passing the endodermis is apoplastic (Weatherley, 1966). More recently, the exact path of all water movement under various conditions has been debated (Steudle, 2001), especially after the discovery of membrane water channels in animals (Preston et al., 1992), later found by Maarten Chrispeels and colleagues in plants (Maurel et al., 1993; Maggio and Joly, 1995). Although they do not alter the direction or final amount of water that moves to establish Cw equilibrium (Steudle and Henzler, 1995), water channels may substantially influence the rate of water flow (flux) by affecting the Rj component of the following relationship (Equation 6): J jVw Aj ¼ DC j=R j ; ð6Þ where J jVw Aj ¼ volume of water across component j in unit time (Aj, for example, could be the root surface area), DC ¼ water potential drop across component j, and R j ¼ the resistance of component j (Nobel, 1991). Water channels may contribute to the rate of water movement j ) as much as or more than the Cw gradient (DCjw). Net (JVw water movement into the root system per se can be accomplished by a simple osmotic adjustment of root cells to produce a cell Cw that is lower than the Cw of moderately dehydrated or saline soil. Water movement into roots of highly transpiring plants, known as passive absorption, is controlled by other important factors and events taking place at the leaf surface. Alphonse de Candolle (1832) coined the term ‘‘stomata’’ to describe the small pores in the leaf surface. von Sachs (1882) later pointed out that transpiration was controlled by some ‘‘living feature’’ of the leaf, restraining or allowing water to evaporate into the air. Francis Darwin, using a newly developed porometer, then found that these crucial living features of leaves were the stomata that are composed of the two guard cells and subsidiary cells (Darwin and Pertz, 1911). Darwin, expanding the work of several others (such as Von Mohl and Malpighi), even realized that the stomatal pores might be controlled by the gain and loss of turgor of the guard cells through the in and out movement of unidentified solutes. In 1804, de Saussure first concluded that plants absorb CO2 from the atmosphere. Jean Baptiste Boussingault, in 1864, measured O2 and CO2 exchange from leaves, and Sachs finally determined that plants are able to absorb CO2 through stomata to make sugar using solar energy. Therefore, it was finally understood that to produce food by photosynthesis, plants needed to open stomata to acquire the necessary CO2, which Alexander von Humboldt and others had speculated as early as the 1790s (Kramer and Boyer, 1995). Therefore, plants that are actively photosynthesizing with open stomata have high rates of loss of water from the leaf to the atmosphere that dominates the Cw gradient by producing a tension (negative pressure) in the xylem. Tension will be transmitted through the xylem column of water (held together by the cohesive properties of water) to the roots. This will further reduce the root Cw, causing a continuous and more rapid water absorption by the plant. The idea that tension is created by the force of transpiration and actually causes the movement of water upward from the roots throughout the plant 1546 The Plant Cell HISTORICAL PERSPECTIVE ESSAY was first put forward by Eugen Askenasy (Weevers and Went, 1949). Dixon and Joly (1895) substantially promoted the tension cohesion theory, and it is now well recognized (Steudle, 2001). Strong tension on xylem water sometimes even breaks the cohesion of water molecules interrupting water flow by causing cavitation (an air bubble in the xylem water column). In actively transpiring plants, the force of water evaporation from the leaf is the major factor controlling the speed and amount of the uptake of water by the root system, which is an important aspect of dehydration (drought) stress because it is the major cause of depletion of soil water. This is true because of the basic thermodynamic properties of water vapor versus liquid water. In formal terms, the driving force for movement of water vapor (the state of water as it leaves the plant) is the difference in vapor pressure or vapor concentration (C). If we consider the leaf-air component of the SPAC, which includes the water vapor movement within intercellular spaces and out of the stomata, and relative resistances at the leaf-air boundary, the transpiration rate (T) can be described by the following relationship (Equation 7): T ¼ ðCleaf 2 Cair Þ=ðrleaf 1 rair Þ; ð7Þ where Cleaf ¼ vapor concentration at the evaporating surface inside the leaf, Cair ¼ vapor concentration in the bulk air, rair ¼ resistance of the air boundary layer to water vapor diffusion, and rleaf ¼ diffusive resistance of all the paths for vapor diffusion. Equation 7 states that the rate of transpiration is proportional to the water vapor concentration difference. If we express the Cw in the air according to the formula C ¼ (RT/Vw) ln(% relative humidity/100) 1 rwgh, we may calculate that the Cw of air at 25C and 50% relative humidity is 295.1 MPa (Nobel, 1991). It is evident that the DCw leaf-air is much larger than the DCw soil-root, and without tension from transpiring leaves, DCw soil-root is the result of the difference in Cw of root cells and their surrounding soil, which is normally in the range of 0.1 to 2.0 MPa. Thus, the Cw concept made clear that the thermodynamic forces causing water to leave the plant through stomata are much larger than those causing water to be absorbed by roots in the absence of transpiration. It is apparent that water loss through the stomata would be reduced by passive closure when there is the loss of turgor of the guard cells due to leaf wilting. However, by the late 19th century, Hugo de Vries understood that closing stomata actively can occur before the leaf cell turgor is lost (wilting) by specific sensing of the environment (such as light) and subsequent signaling that results in solute movement out of the guard cells, specifically causing their turgor loss and pore closure before leaf wilting (Kramer and Boyer, 1995). These observations clearly established active stomatal closing to increase the resistance (R j ) to water vapor flux as one of the most important responses to a disruption of the SPAC. Thus, it became clear that it is the water potential (Cw), not only of the soil and the plant but also of the air that forms a Cw gradient continuum (SPAC), that controls both water loss to the air and water uptake from the soil by plants when stomata are open and the leaf/air R j is low. Therefore, it must be emphasized that the Cw status of the entire continuum (and not just the Cw status of only one part of the continuum) controls direction and amount of water movement. For instance, as early as 1914, Lyman Briggs and Homer L. Shantz demonstrated that wilting was associated with a sort of balance and/or exchange between the atmosphere, plant, and soil water contents. We now understand that wilting (net loss of water from cells) would occur in soil with low Cw because the small R j (R j remains small until stomata begin to close, when R j becomes larger) and the large DCwj at the plant/air continuum would result in a faster rate of water loss out of the plant than the rate of uptake into the plant at the soil/root/shoot continuum, where there is a relatively large Rj and smaller DCwj. This situation worsens when the DCwj at the soil/root diminishes as the falling Cw of drying or salinizing soil becomes closer to the Cw of the root, while the DCwj of the plant/air would remain very large (Equation 6). The plant could rely only on the increased R j caused by stomatal closure to prevent death by dehydration, thus making stomatal closure the most critical response to soil conditions with low Cw caused by dehydration or salinization. After gaining an understanding of the Cw concept and the SPAC, a firm thermodynamic (osmotic) basis for the uptake of water by plants was established and the stage was set to use this concept to establish the role of water relations in growth. We should always keep in mind that the water participating in cell enlargement (growth) is ,1% of the total water removed from the soil by the plant. The vast majority of absorbed water is lost via transpiration. The large amount of water lost in transpiration forced recognition of the central dilemma that plants face to acquire both the water and CO2 needed for growth, especially in water limiting environments (Raschke and Hedrich, 1985). Diffusion of CO2 into the leaf cells occurs almost exclusively through the stomata because leaf surfaces are practically sealed to gas exchange by cuticular and epicuticular barriers. Evolution has never produced a differentially permeable membrane that can discriminate between H2O and CO2; therefore, stomatal pore size became the mechanism by which the loss of water by transpiration and gain of CO2 is optimized. The ratio of dry weight (mainly from CO2) gained (growth) to water lost is called water use efficiency (WUE) and is a fundamental factor controlling the maximum size (growth) of plants that are exposed to environments with limited water availabilities. WUE was first described by Bierhuizen and Slatyer (1965) and varies considerably between species as clearly demonstrated first in the data of Briggs and Shantz (1914) and later by many others (de Wit, 1958; Passioura, 1977; Farquhar and Sharkey, 1982). Genetic control of optimizing the amount of CO2 gained per amount of water lost is dramatically illustrated by the description of C4 photosynthesis in 1966 by Hatch and Slack (see Salisbury and Ross, 1992) and in the extreme example of C4 crassulacean acid metabolism plants that have a WUE 3 to 5 times greater than other plants. Although it has been assumed that WUE is genetically very complex and varies little within a species, alleles of July 2006 1547 HISTORICAL PERSPECTIVE ESSAY individual loci that control WUE have recently been identified (Masle et al., 2005). Evidently, natural selection has provided mechanisms to use water as it passes out of the plant through transpiration, not for maximum but for optimal growth that assures survival. WATER POTENTIAL AND PLANT CELL ENLARGEMENT: IT’S NOT JUST TURGOR The osmotically driven growth process was first formalized by Lockhart (1965) and later by Green et al. (1971), who established a first order relationship between turgor and growth according to Equation 8: E ¼ mðP 2 YÞ, ð8Þ where E ¼ expansion growth, m ¼ cell extensibility, P ¼ cellular turgor pressure, and Y ¼ threshold turgor pressure required for cell expansion. Based on this equation, expansive growth is described as occurring only when the Cw of the plant cell is lower than its immediate outside water source (the apoplast), which is thermodynamically connected to both the soil (roots) and the air (leaves). The inside of the plant cell wall is then under turgor pressure, which is created by the difference between the osmotic pressure of the cell and the water potential of apoplasm. When the wall loosens, it will yield to the turgor pressure, allowing cell volume expansion with water entering the cell. This process of cell enlargement also affects cell division, since cells enlarge until a certain threshold before starting division (Cleland, 1971; Taiz, 1984; Cosgrove, 1987; Beemster et al., 2005). The above relationship also indicates that any water status factor that will reduce turgor pressure, such as the lowering of the soil Cw by dehydration or salinity or increasing the H2O vapor pressure gradient of the air (low humidity and high temperature), will also reduce growth by requiring lower cell Cw to allow water to move into cells. Many studies published after the Lockart equation established the existence of a linear relationship between leaf (or root) cell growth and turgor (Passioura and Fry, 1992; Turner, 1997). Considerable research that was based on the work of Charles Darwin has been aimed at understanding the growth mechanism underlying the Lockhart equation through studies of auxininduced cell growth (Woodward and Bartel, 2005). Eventually, a well-established model of turgor-driven growth was developed in the 1960s that explained cell enlargement as the result of expansion of cells whose walls were loosened by an acidification of the apoplast through proton extrusion. This became known as the acid growth theory (Rayle and Cleland, 1970; Taiz, 1984). The validity of this theory has not been seriously questioned, but the underlying basis of the acid growth phenomenon and the cell wall properties involved in expansion have not been clearly established. However, these ideas were significantly advanced in 1992 with the discovery by Daniel Cosgrove and colleagues of cell wall proteins called expansins that mediate acid growth (McQueen-Mason et al., 1992; reviewed in Cosgrove et al., 2002). Meyer and Boyer (1981) reported the important observation that a reduced growth rate resulting from loss of turgor was maintained in plant tissues even after the adaptive response had restored turgor to levels equal to or higher than those existing before a lowered external Cw resulted in growth retardation. This discovery was independently confirmed by other labs (Matsuda and Riazi, 1981; Bressan et al., 1982, 1990), and although these observations made it clear that growth after osmotic stress is not turgor limited, they did not explain or advance the understanding of the basis of growth control beyond the acid theory. These results did, however, eventually force a new perspective on growth process control. Zhu and Boyer (1992) introduced a new conceptual framework for the relationship between cell water status and growth that is called the growth-induced water potential gradient theory. This perspective implicitly placed the growth process itself, through cell wall metabolism, as the inducer of a lower turgor pressure. As such, the turgor and thereby the water status of the cell is controlled by the growth process(s). In other words, water status (including turgor) is not in control of (or does not constrain) growth, but rather the opposite is true. Essentially, turgor became understood to be required but not sufficient for growth. This concept, which is still poorly understood by many plant scientists, cannot be overemphasized because the previous view largely neglected the need to control other biological processes that are coordinately regulated during growth (Figure 1), such as membrane extension, wall synthesis, osmotic readjustment, cytoskeleton development, energy and protein production, and many other cellular processes, including cell division. This becomes clearer when the relationship between cell size and cell division is considered. As recently summarized by Beemster et al. (2005), cell division and enlargement processes are tightly coordinated, and both contribute significantly to overall growth. Bressan et al. (1990) demonstrated that after adaptation to osmotic stress, the relationship between cell division and enlargement is altered and is not controlled by the turgor or osmotic status of the cell, indicating that there must be proactive genetic control of the integrated growth process that can be reset after osmotic stress adaptation, resulting in slower growth with equal or higher turgor levels. Thus, the wall loosening process, subsequent cell expansion, and many other cell processes involved in growth must be under the control of a still elusive, master regulatory system of cell growth and division. This system may involve both abscisic acid (ABA) and ethylene to distinguish between dehydration and saline-based osmotic stresses (Ruggiero et al., 2004). ON THE GENETICS ROAD: ARISTOTLE MEETS ARABIDOPSIS As early as 1910, the German physiologist George Klebs pointed out that environmental effects (such as salinity and drought) on 1548 The Plant Cell HISTORICAL PERSPECTIVE ESSAY Figure 1. Physical (Osmo) Path of Water through Plants from Soil into Root Tissues, through Xylem Vessels, and Finally Out of Leaves via Stomata into the Atmosphere. Critical (genetic) control points that mediate plant responses to osmotic stresses are indicated, including reduced stomatal conductance, reduced shoot meristem activity, unchanged or increased root meristem activity, reduced water uptake, and increased osmolyte accumulation. Many other responses occur but are not shown for simplicity. Left: plant before osmotic (dehydration or salinity) stress. Right: plant after a period of stress and recovery (adaptation/acclimation). Drawing by Matilde Paino D’Urzo. the growth (phenotype) of plants acted through physiological/ metabolic processes that were limited by genetic potentials that differed between species. Yet, for several decades, little effort was made to understand the genetic bases of water use control. One of the first clear indications that knowing the bases of genetic potentials could dramatically increase our understanding of water homeostasis appeared when a few tomato mutants with highly compromised abilities to maintain a SPAC favorable for growth and survival were discovered. These mutants were also found to be impaired in the ability to close the stomata during osmotic (dehydration) stress as a result of an ABA accumulation deficiency (Tal and Imber, 1971). These ABAdeficient mutants provided evidence that an increase in ABA levels after osmotic stress (e.g., Pierce and Raschke, 1980; Saab et al., 1990) is causatively related to osmotic stress tolerance, validating a clear genetic basis for osmotic stress tolerance. Epstein (1985) summarized experiments based on crossing plants with different salt tolerances that established a genetic basis for the adaptive tolerance to osmotic stress. Eventually this adaptability was concluded to be a multigenetic trait that defied simple genetic introgression. Later, studies with rice confirmed the multigenic basis of tolerance responses but also indicated that substantial tolerance may be mediated by just a few genes (Gorham et al., 1997). Evidence that single genes could affect tolerance to osmotic stress continued to appear sporadically from the 1960s through the 1980s. Soybean mutants with increased tolerance to osmotic stress were reported in 1969, and tobacco and fern mutants were found in the 1980s (see Zhu, 2000). Also, Handa et al. (1983) reported that plant cells not only could adapt to osmotic stress but that long-term exposure to a low osmotic potential environment leads to a gradual selection for genetically stable cell lines July 2006 1549 HISTORICAL PERSPECTIVE ESSAY (mutants) with increased tolerance. Later experiments, discussed in more detail below, revealed how the monogenic and polygenic nature of a single trait can be reconciled. Although the discovery of mutants that are tolerant to ABA and osmotic stress exposed the dramatic dependency of stress tolerance on single genes, these mutants were not available in genetically tractable species that would allow molecular genetic approaches to be used to identify DNA sequences of the genes. Therefore, even as the genetic basis of growth control in response to osmotic stresses continued to become more evident, plant water relations research before 1990 remained focused on the physics of water movement, and most studies only correlated physiological responses with osmotic stress. However, many responses to stress are not adaptive. Even detailed studies of species with different tolerances, including genomic scale microarray gene expression studies (Maggio et al., 2003), will not easily yield the mechanisms of adaptation without a mutational loss- or gain-of-function approach. Sung et al. (2003) pointed out that the plethora of descriptive studies of cold acclimation (adaptation) did not lead to a clear way to understand or manipulate cold tolerance. Numerous studies of these responses also have not led to a clear way to manipulate the ability to adjust to a disrupted SPAC that causes net water loss, just as the case with cold acclimation. However, gradually investigators began to recognize the importance of earlier genetic work and how a genetic approach could reveal which responses to an unfavorable osmotic environment cause adaptation. Eventually, in the 1980s and 1990s, mutants with altered osmotic stress tolerance began to be reported from studies using Arabidopsis, a highly tractable molecular genetic model system (Saleki et al., 1993; Finkelstein and Gibson, 2002). Using mutational studies in Arabidopsis, Koornneef et al. (2004) discovered the crucial first genetic connection between altered osmotic stress sensitivity and altered sensitivity to ABA (see Alonso-Blanco and Koornneef, 2000). It then became of great interest to identify mutant alleles of genes that altered ABA responses or sensitivities. In the early 1990s, mutants in Arabidopsis became available that were altered in ABA sensitivity, osmotic sensitivity, or both. However, the identification of the genes responsible for the altered phenotypes, although technically quite possible, at that time could be pursued only by map-based cloning technology. This was then quite a challenging undertaking. Because of this difficulty, to identify genes that control osmotic or ABA sensitivity, an indirect approach was used that involved the identification of genes whose transcripts accumulated in response to osmotic stress or ABA. The reasoning behind this approach was that genes whose transcript accumulation was controlled by ABA or osmotic stress would be involved in the phenotype of stress adaptability. Because ABA plays an important role in many plant developmental processes (e.g., seed dormancy and germination, leaf abscission, and senescence), the mechanism of ABA-mediated regulation of gene expression gained the early attention of numerous researchers, many of whom were not necessarily interested primarily in osmotic stress (Rock and Quatrano, 1995). By the 1990s, it was known that the transcript levels of hundreds of genes, which probably participate in many phenotypes, were influenced by ABA (Rock, 2000). The promoters of genes whose expression was controlled by ABA were examined by several research groups to determine the regulatory ciselement sequences responsible for ABA control. Work by Ralph Quatrano on the Emb-1 gene from wheat yielded the first revelation of an ABA control element that was called the ABA-responsive element (ABRE) (Marcotte et al., 1988). The ABRE element binds to members of the basic leucine zipper– type transcription factor family also called AREB and ABF that are homologs of the ABI15 gene. Michael Thomashow, Kazuo Shinozaki, and others led separate exhaustive characterizations of genes that are either cold regulated and were found to contain a cold-responsive cis-element that was designated the C-repeat (CRT) element (Baker et al., 1994) or genes that are dehydration responsive and contain a dehydration-responsive (DRE) element (Yamaguchi-Shinozaki and Shinozaki 1994). These turned out to be the same cis-elements and are now referred to as the CRT/ DRE element (Yamaguchi-Shinozaki and Shinozaki, 2005). Thomashow and colleagues made the historic breakthrough that identified the family of transcription factors that bind to the CRT/DRE elements and named them CBF (for C-repeat binding factor), followed shortly by Shinozaki and colleagues, who named the same gene family DREB (for dehydration response element binding protein) (Stockinger et al., 1997; Liu et al., 1998). Although these family members correspond to identical loci in Arabidopsis, the separate names have persisted, resulting in some confusion; therefore, it is worthwhile to indicate here the matching pairs: CBF1 ¼ DREB1b; CBF2 ¼ DREB1c; CBF3 ¼ DREB1a. These are all members of the Apetala-2/ethylene response element binding protein family, originally found to control flower development and ethylene responses (Riechmann and Meyerowitz, 1998). Some osmotic stress–controlled genes contain both ABRE and CRT/DRE elements, and others contain either or none of the sequences. Members of the CBF/DREB1 family of transcription factors are inducible, and their stress induction is mediated by the ICE1 family of HLH-type transcription factors (Chinnusamy et al., 2003). After these discoveries of ABRE and CRT/DRE elements, extensive work pioneered by David Ho and others revealed that ABA activation through ABRE elements can be enhanced by the action of a coupling element, CE1 (reviewed in Ingram and Bartels, 1996). Eventually, additional cis-elements became known to be involved in ABA responsiveness, including RY/ Sph elements and MYB and MYC recognition elements (Finkelstein et al., 2002; Yamaguchi-Shinozaki and Shinozaki, 2005). The identification of these cis-elements eventually allowed the discovery of the DNA binding proteins (transcription factors) that recognize and bind to them and thereby mediate expression of ABA-controlled genes. Transcription factors corresponding to these additional types of cis-elements include 1550 The Plant Cell HISTORICAL PERSPECTIVE ESSAY the B3 domain proteins that bind to RY/Sph elements (ABI3) and MYB- and MYC basic helix-loop-helix–type transcription factors that bind to MYB and MYC recognition elements, respectively. Other transcription activators and repressors have been identified that mediate osmotically controlled gene expression, such as the NAC, HDBZIP, and AZF protein families, and the transcription cascade system has been extensively reviewed and modeled (Himmelbach et al., 2003; Yamaguchi-Shinozaki and Shinozaki, 2005). Before transcription factors can bind to and activate (or repress) their target genes, they need to be either transcribed themselves in a transcription cascade, or if they are at the beginning of the cascade, they need to be activated. A common activation mechanism is phosphorylation mediated by a protein kinase. Several protein kinases have been implicated in osmotic stress responses, especially following the early discovery of the major role for the mitogen-activated protein kinase (MAPK) cascade that controls osmotic adjustment in yeast and that terminates in transcription factor activation (Hasegawa et al., 2000). In fact, several members of the plant MAPK group, including stress-induced map kinase, stress-activated map kinase, salicyclic acid–induced protein kinase, wound-induced protein kinase (Jonak et al., 2002), and other kinases, are known to be activated by osmotic stresses (Zhu, 2002). Extensive studies of these kinases by several labs led to the discovery that at least one MAPK plays a functional role in osmotic stress tolerance in plants by controlling gene expression (Teige et al., 2004). Other protein kinases have been connected to osmotic adaptation, such as the calcium-dependent protein kinases and the SNF1 (SnRK2) family through the discovery of the fava bean ABA-activated protein kinase that was shown to dramatically control stomata function in fava bean (Li et al., 2000) and in Arabidopsis where it is called Open Stomata-1 (Mustilli et al., 2002). All 10 members of the SnRK2 family genes are now known to be activated by osmotic stress or ABA (Boudsocq and Laurière, 2005). After the discoveries of the promoter control elements and their corresponding transcription factors and possible activation by kinase and transcription factor cascades, additional work by many researchers allowed osmotic-induced signal systems to be organized into a complex of both ABA-dependent and ABAindependent pathways, and these now have been extensively reviewed (Ingram and Bartels, 1996; Rock, 2000; Chinnusamy et al., 2004; Yamaguchi-Shinozaki and Shinozaki, 2005). ABA: THE CENTRAL SIGNAL MOLECULE CONTROLLING WATER HOMEOSTASIS Since the 1960s a number of mutants that display either precocious seed germination or a wilty phenotype have been described (see Xiong and Zhu, 2003). Although several of these were known to be deficient in ABA biosynthesis (e.g., the flacca mutant that clearly linked ABA to stomatal control), the ABA biosynthetic pathway remained uncertain for decades. One of the most persistent pursuers of this pathway has been Jan Zeevaart, who contributed extensively to our understanding of the biochemistry of ABA metabolism and participated in the discovery of several genes encoding pathway components (see Xiong and Zhu, 2003). The DNA sequence of any mutant locus causing an ABA deficiency phenotype was not known until 1996 when the sequence of the zeaxanthin epoxidase locus was reported (Marin et al., 1996). This was followed by the identification of the 9-cis epoxycarotenoid dioxygenase, short-chain alcohol dehydrogenase/reductase, ABA aldehyde oxidase, and molybdenum cofactor sulfurylase loci (see Xiong and Zhu, 2003) by 2002. Extensive studies of gain and loss of function of these genes have revealed that all of them are involved in water homeostasis and have confirmed the central role of ABA in adaptation to osmotic stresses. The important discovery that all of the ABA biosynthetic pathway genes are themselves induced not only by osmotic stress but also by ABA has implied the existence of a feedforward control system capable of amplifying the stress-induced ABA signal (Xiong and Zhu, 2003). Evidence exists that several plant hormones participate in such feed-forward induction of their own synthesis beginning with the very early observation by Hans Kende, Shang Fa Yang, and others of the autocatalytic nature of ethylene (Yang and Hoffman, 1984). Although both osmotic stress and ABA affect transcription of all of the key genes encoding proteins in the ABA biosynthetic pathway, the major components, including the transcription factors that mediate these ABA pathway genes, remain elusive. A recent report, however, indicates that the transcription factor high osmotic sensitive (HOS10) may control transcription of ABA biosynthesis genes. An important challenge for the ability to modify stress tolerance will be the elucidation of the control mechanism(s) of the ABA biosynthetic pathway (Chinnusamy et al., 2004). Besides the important role of ABA in mediating osmotically induced gene expression, ABA also has direct effects on water homeostasis that do not require altered gene expression. Paramount among these are the effects of ABA on direct stomatal function. ABA mediation of stomatal behavior is presently the most studied physiological process that controls water use by plants (Kuhn and Schroeder, 2003; Fan et al., 2004; Riera et al., 2005). Again, this is due in large measure to Arabidopsis molecular genetic studies. Guard cell turgor, which was shown to involve K1 accumulation as early as 1905 by Archibald B. Macallum, and substantiated by Fischer and Hsiao (1968), is now understood to be due primarily to uptake of K1 that occurs down the electrochemical potential gradient across the plasma membrane. The counter ion is typically Cl2 or malate22, but NO32 also may serve to balance the K1. Membrane depolarization results in passive efflux of ions and other solutes, including sucrose, causing turgor loss and stomatal closure. The functioning of many transport proteins in stomatal opening and closure have now been described, sometimes in great detail, and have been reviewed extensively (Fan et al., 2004; Chaerle et al., 2005). July 2006 1551 HISTORICAL PERSPECTIVE ESSAY ABA is perceived in the guard cells both intercellularly and extracellularly through an unidentified sensor(s) (Fan et al., 2004). The extreme importance of ABA perception likely means that functionally overlapping receptors exist and thereby preclude their easy identification by mutation screening. However, recently, a leucine-rich repeat receptor-like protein kinase (RPK1) was determined to be involved in early ABA signaling, perhaps even in perception (Osakabe et al., 2005). Although ABA has been known for many decades to be the principal mediator of stomatal closure in response to osmotic stress, it is now known to do so through several signal pathways that can be generally divided into Ca21-independent and Ca21-dependent systems (Kuhn and Schroeder, 2003; Fan et al., 2004; Chaerle et al., 2005; Riera et al., 2005). Because Ca21 is involved in the mediation of several signal pathways, the mechanism of its specificity has been an important goal of many investigators. Elegant experiments performed by a number of researchers, including Alistair Heatherington, Michael Blatt, Gethyn Allen, and Julian Schroeder, for the first time identified Ca21 level oscillations as a manner by which Ca21 specifically mediates stomatal behavior (reviewed in Blatt, 2000). Ca21-dependent stomatal behavior involves reactive oxygen species (ROS), inositol polyphosphate, and nitrous oxide cyclic nucleotide pathways. Ca21independent signaling includes a heterotrimeric G-protein cascade that involves phosphatidic acid and ROS. Other signal components have been discovered and include sphingosine, ascorbate, inositol-1,4,5-trisphosphate, cyclic ADP-ribose, and [H1] (Blatt, 2000). In some instances, the enzymes involved in the production of the signaling intermediates have been identified (Fan et al., 2004; Chaerle et al., 2005). Using primarily genetic approaches, a complex signal system that controls stomatal behavior in response to osmotic stresses has been modeled (Chaerle et al., 2005). Although valuable information about genes that control water homeostasis was being obtained from the study of ABA biosynthesis and response mutants, by the late 1990s, no genes had been identified by directly screening for hypersensitive growth responses to osmotic stress. Even though Arabidopsis became the most tractable plant genetic system and as such, the obvious choice for a genetic model to screen directly for loss of osmotic tolerance, it is not particularly tolerant of either salinity or dehydration stress. Arabidopsis would thereby seem unsuitable for loss-of-function genetic screening (there is very little tolerance to lose and thereby detect in screens). However, some important observations pointed the way to the use of Arabidopsis for loss-of-function screening for osmotic sensitivity. (1) Previous studies determined that tolerance to low Cw could be controlled by a few or even single genes (Zhu, 2000). (2) Several reports indicated that essentially all plants (not just halophytes and xerophytes) possess genes that contribute significantly (can be screened) for loss of the ability to adapt to low Cw (Bressan et al., 1990). (3) Indeed, as we have pointed out, a number of mutants in Arabidopsis were isolated that exhibited changed tolerance to NaCl, although these studies did not lead to the iden- tification of the mutated genes (Alonso-Blanco and Koornneef, 2000; Finkelstein and Gibson, 2002). (4) Mutants screened for insensitivity of germination to ABA were found to be altered in dehydration tolerance also (Koornneef et al., 2004). Armed with all of this information, Jian-Kang Zhu and coworkers began in the late 1990s to isolate Arabidopsis mutants by directly screening for altered growth responses to NaCl-mediated osmotic stress and then to identify the genes that control adaptation to low Cw (Verslues et al., 2006). THE SOS PATHWAY: CONNECTING Ca21 SIGNALING WITH ION TRANSPORT PHYSIOLOGY Forward genetic screening for loss of osmotic stress tolerance in Arabidopsis resulted in the discovery of the Salt Overly Sensitive3 (SOS3) gene in 1998 (Liu and Zhu, 1998). Later, discovery of other SOS pathway genes revealed part of the molecular basis of the long-observed amelioration effect of Ca21 on NaCl stress. The Ca21-dependent SOS pathway transduces salt stress–mediated signaling to activate the plasma membrane Na1/H1 antiporter (SOS1) that is required for efflux of Na1 during the gradual net accumulation of NaCl for osmotic adjustment (Zhu, 2003). The discovery of SOS1 by Shi et al. (2000) and the vacuolar Na1/H1 antiporter family by Jerry Fink and others (see Pardo et al., 2006) revealed the molecular genetic basis of the well-established detoxification/osmotic balance role of cytoplasmic efflux and vacuolar compartmentation of Na1, which had been based on the multiphasic concept of transport of ions presented several decades ago in the classic work of Epstein (1985). The SOS pathway is functionally analogous to the calcineurin pathway that controls ion homeostasis in yeast, where the calcineurin B subunit binds Ca21 and activates the phosphatase calcineurin A (Bohnert and Bressan, 2002). The Ca21 binding protein SOS3 is activated by a Ca21 transient and then recruits to the plasma membrane and activates SOS2, which, instead of a phosphatase, is a Ser/Thr kinase (Knight et al., 1997). The SOS3-SOS2 protein kinase complex then phosphorylates SOS1, resulting in activation of Na1/H1 antiporter activity. The SOS3-SOS2 complex also activates SOS1 expression, perhaps through processes that are responsible for SOS1 mRNA stability. ABA may participate in the SOS pathway through the ABA-Insensitive2 (ABI2) protein, which is a PP2C phosphatase that interacts with SOS2. SOS3 family Ca21 Binding Protein5 and its interacting kinase, Protein Kinase SOS2 Family3, are components of a regulatory circuit that negatively controls ABA signaling through ABI1 and ABI2 (Chinnusamy et al., 2004). This regulatory circuit possibly controls transport systems that function to lower cytosolic Ca21 after ABA-induced Ca21 channel gating. It is necessary to also lower cytosolic Ca21 levels to produce Ca21 oscillations that activate the SOS pathway and other signaling required for salt and osmotic adaptation (Chinnusamy et al., 2004). Mutants in the SOS pathway (sos1, sos2, and sos3) also exhibit K1 deficiency, indicating that SOS signaling has a positive regulatory effect on 1552 The Plant Cell HISTORICAL PERSPECTIVE ESSAY K1 acquisition, which has been long understood to be inhibited by excess NaCl. However, SOS1 does not posses innate K1 transport capacity. Other direct or indirect outputs of the SOS and SOS-like signal pathways that function in Na1 and K1 homeostasis include the vacuolar cation/H1 antiporter NHX and perhaps HKT1 and AKT1 (Rus et al., 2001; Chinnusamy et al., 2005). SOS1 may also be a Na1 sensor (Zhu, 2003). THE FUTURE The Regulatory Small RNAs and the Dark Genome Although noncoding RNAs (rRNA and tRNA) have been recognized for many decades, genetic phenomena that eventually led to the general regulatory functions of RNAs did not surface until the discovery of genetic cosuppression in plants in 1990 by Rich Jorgensen (Napoli et al., 1990) and RNA interference in Caenorhabditis elegans (Fire et al., 1998). The connection to regulatory small RNAs was made when small interfering RNAs (siRNAs) were found in plants that are undergoing posttranscriptional gene silencing (Hamilton and Baulcombe, 1999). In a separate line of work, microRNAs (miRNAs) were discovered in C. elegans mutants defective in developmental timing (Lee et al., 1993; Wightman et al., 1993). In eukaryotes, it is now recognized that there is an ocean of small RNAs ranging between 20 and 30 nucleotides in size that regulate gene expression at many levels from transcription to translation (Lu et al., 2005). Although we know that these RNAs are encoded extensively in plant genomes, we remain very much in the dark about how they function in relation to the classic protein encoding genome. The small RNAs are classified as either miRNAs or siRNAs based on their biogenesis (Carrington and Ambros, 2003; Baulcombe, 2004). miRNAs and siRNAs are ultimately generated by the Dicer endonucleases from transcripts forming stem-loop structures and long double-stranded RNAs, respectively. They are incorporated into the Argonaute-containing RNA-induced silencing complex and guide the complex to complementary mRNAs to cause mRNA cleavage or translational inhibition (Carrington and Ambros, 2003). Additionally, siRNAs can also guide epigenetic inheritance through a nuclear chromatin remodeling complex to cause histone and/or DNA methylation, leading to transcriptional gene silencing (Baulcombe, 2004). Because of their small and noncoding nature, the small RNAs have evaded detection by traditional and microarray-based transcriptional profiling as well as by all but a few genetic screens. The role of miRNAs and endogenous siRNAs in plant and animal development is now well established (Carrington and Ambros, 2003). Evidence that small RNAs are involved in osmotic stress responses was reported by Sunkar and Zhu (2004). Thus far, evidence indicates that some miRNAs and siRNAs are inducible by osmotic stresses, and they play critical roles in removing negative determinants of stress (e.g., osmolyte catabolizing genes and ROS generating genes) to achieve tolerance (Borsani et al., 2005; X. Hu and J.-K. Zhu, unpublished data). Certain miRNAs and siRNAs may also be downregulated by stress to relieve their suppression on positive determinants of stress tolerance. These new regulators and other chromatin level regulation (i.e., DNA and histone modifications) hold enormous potential for unraveling the complex network of stress responses to uncover key loci that have alleles that actually cause stress tolerance. Mendelization of Polygenic Traits An important lesson being relearned from Arabidopsis genomicsscale research is that, depending on the germplasm pool being studied, a trait can be either polygenic or monogenic. From the work of geneticists like J. Doebley and S. Tanksley, we know that complex traits such as grain and fruit yield have been largely imparted to crops through genetic manipulation involving specific alleles of only a few genes (see Richards, 1996; Doebley et al., 1997; Peng et al., 1999; Lippman and Tanksley, 2001). An example involving flowering time in Arabidopsis provides a clear illustration of this concept. Scores of genes in Arabidopsis have now been shown to affect flowering time (Sung and Amasino, 2005). However, classical genetic experiments have indicated that ecotype differences in flowering time can be controlled by specific alleles of only a few loci. F1 plants of the C24 3 Columbia cross, for instance, exhibit dramatically late flowering. Subsequent mapbased cloning of FRIGIDA (FRI) and FLOWERING LOCUS C (FLC) revealed that FLC was an impaired locus in C24 and that the FRI locus in Columbia was null. FLC is a suppressor of flowering, and FRI is required for expression of FLC. The combination of these particular alleles of only these two loci results in a dramatically altered phenotype of a trait that is clearly polygenic. The flowering time story teaches that the solution to the problem of dramatically altering traits that appear to be polygenic is to identify appropriate alleles of key loci. As more functions are assigned to Arabidopsis genes, it appears that many, if not most traits, are actually polygenic, but many are also observed to be dramatically affected by specific alleles at a few important loci. This is because alleles of key loci for many traits, like flowering time, are divergent enough within the commonly used natural ecotype gene pools of Arabidopsis to exhibit qualitative phenotypic effects. The transfer of a highly effective (qualitative trait) allele into a genome that contains several loci, each contributing a small effect to that trait (thereby defined as a quantitative trait controlled by quantitative trait loci), has been referred to as the Mendelization of the quantative trait (AlonsoBlanco and Koornneef, 2000). The limited allelic diversity at important loci is recognized by far-sighted plant breeder/ geneticists such as Gurdev Khush (Brar and Khush, 1997), who expanded the breeding gene pool of rice, and Don Duvick, who demonstrated that after alleles of key loci that control yield were introduced to maize by domestication, the narrow genetic base of modern maize has hardly allowed any advance in genetic potential for grain yield in over seven decades of breeding (Duvick and Cassman, 1999). Modern breeders have been left to work with only the minor (quantitative) loci that control environment effects on yield. Interestingly, Yamasaki July 2006 1553 HISTORICAL PERSPECTIVE ESSAY et al. (2005) have recently reported that alleles of loci that have or have not been fixed by domestication or crop improvement can be identified by gene sequence diversity analyses. New unexploited loci controlling agronomic traits that show low allelic diversity in elite cultivars and thus do not contribute much to agronomic performance could still have useful allelic diversity in land races and wild relatives of maize where specific alleles have not become fixed by selection bottlenecking. The practical goal of plant molecular geneticists is the same as that of the plant breeding: to improve crop performance. To that end, the strategies of both groups are, in reality, remarkably similar: to find and transfer superior alleles controlling agronomic traits. Only the tactics differ. In the quest for stress tolerant crops, molecular geneticists need to identify as many genes as possible that affect different parts of the water homeostasis control systems, including epigenetic and regulatory RNA control components. Physiologists can play an important role in exploring the specific physiological functions of genes and gene products in water homeostasis using the genetic material provided by model systems. This would greatly help to identify the best combinations of key loci by discovering which genes affect different control points (see Figure 1). An important perspective on crop yield, promoted in particular by John Passioura, emphasizes the amount of harvestable product that can be produced per unit of water used (reviewed in Richards, 1996). This can be greatly affected by several traits, such as overall plant size, root growth and architecture, leaf and canopy architecture, flowering time and development of fruit, seed growth and development, and other agronomic traits (Richards, 1996; Maggio et al., 2003). In fact, reducing the anthesis/silking interval in maize flowering has been shown to significantly improve yield under drought conditions (Bolaños and Edmeades, 1993). Although most molecular geneticists do not now focus on these traits, the next generation molecular genetics approach toward improvement of osmotic stress tolerance will undoubtedly involve the development of special forward genetic screens that are designed to identify genes controlling these kinds of morphological and phenological traits. This should be followed by the search for, or creation of, superior alleles of key genes, first by the use of new Arabidopsis relatives model systems (Inan et al., 2004) and eventually by the use of exotic (tolerant) germplasm (secondary or tertiary gene pools) of important crop species. The approach of using genes identified by model systems that has been expanded to wild relatives, combined with either direct transformation or zerodistance marker assisted breeding (Rus et al., 2005), should allow minimization of impaired function or undesirable pleiotropic effects that may result from the direct use of taxonomically more distant alleles found in Arabidopsis relatives model systems or other model systems. The long road from Aristotle to Arabidopsis may be leading us back to the farmer’s field, which allowed a large human population and the resulting development of modern human cultures and their eventual adoption of scientific agriculture. Science has shown that there are five basic requirements for growing crops: sunlight, CO2, essential minerals, water, and favorable temperatures. Where we grow our crops, we have available plenty of sunlight, appropriate, although not always optimum, temperatures, and CO2. We can also provide essential minerals. We do not have enough water of high enough quality (in particular, low salinity) at the right locations. We know how to engineer (transport and purify) enough quality water at the needed locations, but we don’t have enough energy to do it. Without that energy, we must now learn how to engineer plants to produce more food with less water of less quality or we will not meet the growing food demands of our expanding population. ACKNOWLEDGMENTS We thank Jose Pardo, Stefania Grillo, Giancarlo Barbieri, and Brian Larkins for their generous hospitality during the writing of the manuscript and Rebekah Fagan for infinite patience with the countless versions she helped to edit. We apologize to the many investigators whose work was not mentioned only because of space limitations. Albino Maggio Department of Agricultural Engineering and Agronomy University of Naples Federico II Portici, Italy 80055 Jian-Kang Zhu Institute for Integrative Genome Biology, Botany, and Plant Sciences University of California Riverside, CA 92521 Paul M. Hasegawa Center for Plant Environmental Stress Physiology Department of Horticulture and Landscape Architecture Purdue University West Lafayette, IN 47907 Ray A. Bressan Center for Plant Environmental Stress Physiology Department of Horticulture and Landscape Architecture Purdue University West Lafayette, IN 47907 REFERENCES Alonso-Blanco, C., and Koornneef, M. (2000). Naturally occurring variation in Arabidopsis: An underexploited resource for plant genetics. Trends Plant Sci. 5, 22–29. 1554 The Plant Cell HISTORICAL PERSPECTIVE ESSAY Baker, S.S., Wilhelm, K.S., and Thomashow, M.F. (1994). 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