Physical, metabolic and developmental functions of the seed coat

1The evolution of sexual reproduction and the seed underlies much of the evolutionary success of the flowering plants. The most distinctive characteristic of the angiosperms is the double fertilization event, followed by the development of a seed encased in maternal tissue, referred to as the seed coat (or testa). The enclosure of the developing embryo affords it protection and thereby enhances its chances of reaching maturity and establishing the subsequent generation; this feature has not been achieved by species belonging to other clades of the plant kingdom. The progenitor structure of the angiosperm seed on the female side is the ovary, and its final form comprises an embryo, an endosperm, and the seed coat. The embryo results from the fusion between an egg cell and a sperm nucleus, while the endosperm develops from the fusion between the two central cell nuclei and a second sperm nucleus to produce (in diploid species) a triploid structure. The seed coat is entirely maternal in origin. When fertilization fails, the structure degenerates rapidly, thereby ensuring that the assimilate invested in an aborted seed is recycled. Post fertilization, the development of the seed relies on a coordinated interaction between the seed coat, the embryo, and the endosperm. The molecular basis of seed development has been intensively studied, but until now, the lack of suitable in vivo analytical methods has hampered systematic investigations of either the metabolism occurring or the internal structures developing within the growing seed. Here, a description is given of our current understanding of the functional role of the seed coat in the developing seed.

2The seed coat originates from cell layers surrounding the ovule. The analysis of a number of Arabidopsis thaliana mutants has revealed its structure and function, as well as identifying many of the genes involved in its development. Seed coat development is repressed prior to fertilization by dosage-sensitive, sporophytically active polycomb-type-proteins that are expressed in the maternal tissue surrounding the female gametophyte. The fertilization generates a signal that relieves the polycomb type protein-mediated repression, resulting in the initiation of seed coat formation.

3The A. thaliana seed coat is composed of five cell layers: the three-layered inner integument and the two-layered outer integument; each of these layers follows a distinct path during seed development. The endothelium (the innermost cell layer) synthesizes proanthocyanidins (PAs), which first condense into tannins, then oxidize to impart the brown pigmentation seen in the mature seed of many species. The two adjacent cell layers are crushed together as the seed expands. The outer integument undergoes extensive differentiation, regulated by the YABBY family transcription factor INNER NO OUTER, going on to form the sub-epidermal and epidermal cell layers. The former of these generates a thickened wall on the side facing the epidermis, while the latter produces a pectinaceous carbohydrate referred to as mucilage. The outer integument is associated with a suberized layer, and the endothelium with a cutin-like polyester layer. In leguminous species, the seed coat is typically a multi-layered structure, including both macro- and osteosclerids in its outer integument and parenchyma in its inner integument. In the cereal grain (strictly a caryopsis rather than a seed, since the ovary wall is fused with the seed coat), the endothelium and the outer integument each form a pair of cell layers, while the enlarged pericarp takes over some of the key functions of the seed coat. The various impacts of the seed coat are illustrated for a contrasting set of species in Figure 1.

4The development of the endothelium has been revealed by the analysis of A. thaliana mutants impaired in seed coat pigmentation. A number of relevant genes have been isolated, classified for the most part into either transcription factors or genes required for the synthesis and compartmentation of PA flavonoid compounds. Comprehensive transcriptomic descriptions of the developing A. thaliana seed coat have provided a wealth of information relevant to how the process occurs in other species. The Medicago truncatula myb transcription factor gene MtPAR has been shown to be a key regulator of PA synthesis, and its transcription co-localizes with the site of PA accumulation in the seed coat. Key M. truncatula genes along with the precursor transporter MATE1 (involved in PA synthesis) have been isolated and characterized by. Orthologs of BANYULS, which encodes anthocyanidin reductase, have been identified in oilseed rape and its close relatives Brassica rapa and B. oleracea. The transcriptional regulation of flavonoid metabolism is less well understood in legumes and cereals, perhaps because the genes underlying PA synthesis have been lost during domestication, with the result that white-seededness is commonplace in these taxa. Consequently, in contrast to its wild relatives, cultivated barley (similarly to rice and wheat) does not accumulate substantial amounts of PA. The relationship of secondary PA metabolism with both developmental regulation and the stress response has the potential to contribute significantly to future crop improvement and is being investigated by a number of research groups.

5Elucidation of the development of the A. thaliana outer integuments has relied on mutants that produce either less mucilage than the wild type or those which produce mucilage of a different composition. Both regulatory and structural genes have been recognized. The set of WD repeat, bHLH and myb transcription factors that regulate outer integument development partially overlaps with the factors controlling trichome initiation and development, the regulation of anthocyanin production and endothelial development, although the relevant interaction partners are distinct. For example, outer integument differentiation is controlled by the proteins TTG1, myb5/TT2, and TT8/EGL3, which also drive the transcription of ABE1, ABE4, GH, GL2, and mybL2. The A. thaliana model has been informative for understanding the molecular basis of the synthesis of cotton fibers, which arise from the epidermal cells of the outer integument and are distributed all over the seed’s surface. Several of the regulatory genes involved in fiber initiation have proven to be homologs of A. thaliana genes (e.g., TTG1 and GL2) responsible for trichome formation and the differentiation of the outer integument. The current understanding is that a transcriptional myb/bHLH/WD repeat complex is required for this initiation process. A full understanding of the regulatory machinery operating in the epidermal cells will aid in achieving further improvement in a number of cotton seed traits as well as the development of sustainable means of processing seeds and the fibers.

6In many seeds, the epidermal layer of the seed coat generates a cuticle which represents a physical barrier between the seed and its external environment. Neither viruses nor bacteria are able to penetrate an intact mature seed cuticle. The only entry points into a mature seed of this type for a pathogen are the micropyle – which represents the point of entry of the pollen tube – and the funiculus, which links the maternal vascular system to the seed integument. The immature seed coat is less robust, so it offers less protection against pathogen penetration, which can occur via either the ovary wall or the stigma. Mechanically damaged cuticles offer an alternative path for pathogen invasion. Integrity of seed coat surface is extremely important for seed quality and fitness during seed storage or germination, and diverse technologies are available for preserving and enhancing of seed surface.

7An additional layer of protection is provided in certain seeds by the deposition of toxic compounds such as cyanogenic glycosides, terpenoids, and flavonoids. The issue of seed coat chemistry has especial resonance in relation to the presence of glucosinolates in brassicaceous crops. The accumulation of phenolics in plant tissues is considered to be an adaptive response to adverse environmental conditions.

8Since plants lack mobile defender cells, they are forced to rely on the innate immunity of every cell and on the production of signal molecules by invaded cells and their subsequent sensing. The small and highly stable cysteine-rich peptides referred to as defensins actively inhibit pathogen invasion in both plants and animals. Defensins genes induced by pathogen infection have been identified in a number of plant species. Their products are concentrated mainly in the peripheral/bordering cells, as typified in barley and rice, and are released following tissue damage. Defensin production can also be promoted by certain abiotic stress agents, and also by exposing plants to the phytohormones methyl jasmonate, ethylene, or salicylic acid. The expression of defensins in response to a variety of biotic and abiotic stimuli implies the possibility of cross-talk between distinct signal transduction pathways and gene expression programs involved in cellular signaling and growth regulation. Plant defensins have become the focus of a considerable body of biotechnological research.

9The barrier function of the seed coat does not extend to gases, since it is in most cases at least semi-permeable. The seed coat epidermis in the mature seed features no, or at best only scarce, functional stomata. In conjunction with the chemical composition of the cuticle, this implies a rather limited capacity for gas exchange. It was already demonstrated some 40 years ago that most of the gas exchange activity occurring within the pea seed is located in the micropylar region. The diffusivity of carbon dioxide through plant tissue is much higher than that of oxygen, since (unlike oxygen) carbon dioxide is readily soluble in water and so can move from cell to cell in the form of the carbonate ion. The presence of gas-filled intercellular spaces is therefore likely to be essential for translocation of oxygen within the seed. Synchrotron X-ray computer tomography has identified such spaces in the developing seeds of both A. thaliana and oilseed rape in vivo. In the latter species, both the seed coat and the hypocotyl are well supplied with void spaces, unlike the cotyledons, where the spaces are small and only poorly inter-connected (Figure 2). In silico modeling has revealed a three orders of magnitude range in oxygen diffusivity from the seed coat to particular embryonic tissues. The multiple void spaces present in the seed coat suggest that gas exchange is effective within this part of the seed. There is a lack of any interconnectivity with the embryo, so the seed coat void network is likely to be autonomous. Both the seed cuticle and the lipid-containing aleurone layer of the endosperm have been identified as barriers to oxygen exchange, the former between the seed coat and external atmosphere and the latter between the seed coat and the endosperm/embryo. The oxygen pool stored in the voids of oilseed rape seed is consumed about once per minute. Since the developing seed has a high respiratory rate, it requires an additional supply of oxygen to maintain aerobic respiration.

10Oxygen micro-sensor measurements made within the seed of faba bean, pea and soybean, and within the grains of barley, wheat, and maize have established that hypoxia is the norm. In the developing seed, it may be advantageous to keep the oxygen level low, because the bioenergetic efficiency of mitochondria is usually increased at low oxygen levels. Thus, a low internal oxygen concentration in the seed may stimulate carbon use efficiency. Low oxygen levels help to avoid the formation of toxic concentrations of reactive oxygen species, which damage cellular structures and require the expenditure of energy for repair. In maize, the level of expression of detoxification genes (encoding glutathione S-transferase, superoxide dismutase, and ascorbate peroxidase) decreases during grain development, consistent with a reduction in oxygen availability. To summarize, maintaining a low oxygen level within the seed has been proposed to provide a means for the developing seed to control the local level of metabolic activity. Deep within the mature seed, the inhibition of gas exchange can generate a state of near-anoxia, which may help to ensure the remarkable longevity of seeds. While the mechanistic basis of seed longevity is not fully understood, an important component is likely the control of oxidation. Practical methods to prolong seed viability in ex situ gene banks exploit this natural phenomenon by hermetically sealing the seed in order to maintain a high level of carbon dioxide within; this is combined with careful drying down and refrigeration, which help to slow seed metabolism/respiration and suppress oxidation processes.

11The seed coat’s function is simultaneously to protect the embryo and to transmit information regarding the external environment. An impenetrable seed coat may help to keep the embryo safe, but at the same time it would exclude the sensing of environmental cues. The evolutionary solution to this dilemma is to combine certain structural features with appropriate levels of metabolic and photosynthetic activity in the seed coat.

12As plant species vary so much with respect to the distribution and amount of chlorenchyma in their developing seed, it is difficult to make meaningful generalizations regarding seed photosynthesis. However, out of 19 major crop species, only maize grains lack chlorophyll. Both the seed coat and embryo of pea, soybean, oilseed rape and faba bean are photosynthetically active during seed development. The immature caryopsis of barley, wheat, rice and other grasses features a photosynthetically active pericarp. The site of photosynthetic electron transport coincides with that of chlorophyll, as for example in the barley pericarp (Figures 3A,B). When exposed to light, the chloroplastids (Figure 3C) produce sufficient ATP and NAPDH to meet local energy demand. Given the very short half life of both ATP and NADPH, it is likely that little long distance transport occurs from their site of synthesis. Non-photosynthetic plastids within the pericarp depend entirely on an external supply of ATP, just as is the case for other non-photosynthetic tissues. The spatial separation between the endosperm and the photosynthetically active pericarp implies that seed photosynthesis does not make any direct energy contribution to assimilate storage in the endosperm.

13Photosynthetic activity in the seed coat, as in the leaves, fixes carbon dioxide, and generates oxygen. This process is saturated in seeds at a light intensity some fivefold below that applicable for leaves. Oxygen production and carbon dioxide fixation combine to maintain a consistent gaseous environment within the seed. The effect of photosynthetic oxygen evolution exceeding the oxygen demand of the respiring seed coat is an increase in the internal oxygen level, which serves to relieve hypoxic stress and thereby enhances the synthetic activity of the seed. Importantly, the tissues through which nutrients are transported to the endosperm/embryo are oxygen depleted. In the dark, the oxygen level can fall below 0.1% of the ambient atmospheric concentration, but the chlorenchyma layer that surrounds the region ensures that the level of oxygen present is much higher in the light than this (Figures 3D,E). Both nutrient transport to, and storage activity within the endosperm rely heavily on respiratory energy and thus on a steady supply of photosynthetically derived oxygen. Experiments tracking the incorporation of labeled sucrose into starch have shown that the process is stimulated by both light and oxygen, underlining the dependence of storage activity on a supply of oxygen. Similarly, assimilate supply to the dicotyledonous seed is also oxygen-dependent, as shown by phloem unloading experiments.

14The seed coat’s high rate of respiration, along with its low permeability with respect to carbon dioxide, contributes to elevating the seed’s internal level of carbon dioxide. However, high concentrations of carbon dioxide do promote phosphoenolpyruvate carboxylase activity, which serves to encourage carbon dioxide re-fixation and so restricts its loss. Limiting carbon dioxide loss in this way can make an important contribution to the seed’s overall carbon budget. In addition, re-fixation of carbon dioxide is mediated by Rubisco activity during photosynthesis. The seed’s rate of carbon dioxide uptake from the atmosphere is much lower than the leaf’s, in line with both a lower activity of photosynthesis-associated enzymes and a limited rate of metabolic turn-over. Critical factors should be considered such as (1) the low density of stomata on the surface of the developing seed, and (2) the low amount of chlorenchyma. Most relevant experiments have disregarded the re-assimilation of internally produced CO2 and hence probably underestimated the actual sizes of the occurring fluxes. Nevertheless, the generally held conclusion still stands that the contribution of seed photosynthesis to dry matter production (via net CO2 fixation) is low.

15One likely hypothesis regarding the evolutionary significance of retaining photosynthetic capacity in the seed coat suggests that the interception and processing of light by the seed coat gives the seed the means to sense its external environment, which is integrated with the hormonal, metabolic, and other signals brought to the seed through the phloem. Assimilate generated in the leaf is exported into the phloem in the form of sugar. The developing seed can benefit from the capacity to anticipate a burst of sugar arriving via the phloem, since this would facilitate the seed’s rapid adjustment to its synthesis of storage products. Photosynthesis has a marked effect on the entrainment and maintenance of robust circadian rhythms. In this way, the retention of seed photosynthesis can provide a means of tuning the seed’s metabolism to the quantity and quality of the light available to the mother plant.

16Assimilates produced by the mother plant are delivered to the developing seed via the same conduit, the vascular system, which brings hormonal signals and the necessary protein- and RNA-based messages. Collectively, this enables the coordination of physiological and developmental processes at the whole organism level. As the vascular system does not extend beyond the seed coat, the embryo and the endosperm are apoplastically isolated from the mother plant and are therefore somewhat autonomous. Several pathways for nutrient flow are available, depending on seed size and structure. The smallest seeds (orchid seeds can be as small as 200 μm in diameter) have no vascular structure; rather, the zygote forms a haustorium which extends toward the terminus of the mother plant’s vascular system. Slightly larger seeds form a bundle of pro-vascular elements. Medium-sized seeds develop a simple, well developed collateral bundle. Finally, in large-seeded species, the vascular bundle is bulky enough to anastomose, thereby allowing for the distribution of nutrients throughout the seed. In the A. thaliana seed, the vascular tissue terminates at the junction of the funiculus and ovule, and in the maize kernel, the vascular bundle terminates at the placenta–chalazal region (Figure 4A;;; ). In contrast, wheat, barley and rice grains form a vascular system that extends over the whole length of the grain (Figure 4B; ). The vascular architecture of Fabaceae species seeds is highly variable, ranging from a single chalazal vein in the Viciae and Trifolieae to an extensive anastomosed arrangement in the Phaseoleae (Figure 4C;;; ).

17Vascular structures are typically embedded within parenchymatous tissue. Adjacent parenchyma cells are interconnected by plasmodesmata, forming a symplastic continuum (domain). The plasmodesmata within these domains are larger than elsewhere in the seed, which facilitates the movement of small molecules such as sugars and peptides. The maternal symplasm represents the major route for nutrients to reach the seed. In A. thaliana, each integument forms an independent symplasm, which acts as an extension of the phloem. In common bean, faba bean, and pea, assimilate unloading sites are distributed throughout the seed coat parenchyma, with the possible exception of the branched parenchyma. In the small grain crops, the nucellar projection is the focus of a well organized transport route. The cellular architecture of the nucellar projection has been described in wheat and barley. A characteristic feature of tissues adjacent to the nutrient transport route is the presence of multiple symplastic junctions, large intercellular spaces and cell wall invaginations. The cells of the nucellar projection are extended toward the endosperm, thereby directing the flow of nutrients into the seed. With the exception of the crease region, a thick cuticular layer borders the pericarp and encloses the whole endosperm. In rice, two routes have been identified for nutrients to reach the developing grain: one is analogous to the nucellar projection, while the second passes through the nucellar epidermis.

18The structure of the seed impedes the direct visualization of the site of the interaction between maternal and filial tissue. Various dyes and fluorescence- or isotope-labeled substances have been employed to follow nutrient (mainly sucrose) transport. However, this experimental approach has the major disadvantage of being destructive. Invasive methods inevitably risk inducing artifacts with respect to both metabolite distribution and enzymatic activity. Non-invasive technologies, in the form of biosensors or imaging platforms like Foerster resonance energy transfer (FRET), Positron Emissions Tomographie (PET), and nuclear magnetic resonance (NMR) provide potentially superior alternatives. Real-time information on signaling and metabolite levels with subcellular granularity can be obtained in vivo with the help of genetically encoded FRET nanosensors. PET does appear to be an appropriate platform for in planta analysis. When 11C is the target isotope, its spatial resolution of 1.4 mm suits it for the study of long distance translocation. NMR – and especially 13C NMR – is less sensitive than PET, but it delivers a fivefold higher level of in-plane resolution than PET, and can be used for real time monitoring. The dynamic NMR-based imaging of sucrose in barley seed was integrated with flux balance analysis (FBA), which operated with more than 250 biochemical and transport reactions occurring in the cytosol, mitochondrium, plastid, and extracellular space. This approach has helped to unravel the complex biochemical processes affecting sucrose distribution in the grain.

19Some experimental evidence has been obtained to support the view that the delivery of metabolites to the embryo bypasses the endosperm. However, other data suggest that the process is, in fact, mediated by the endosperm, largely because compromised endosperm development is so often associated with aberrant embryo growth. In either case, the inter-generational transfer of materials occurs via the apoplastic space. The specialized cellular structures developed at the tissue margins coordinate nutrient delivery from the seed coat into the seed itself. Transfer cells develop invaginated cell walls, thereby increasing the surface area of their plasma membrane and hence their capacity to transport nutrients. Nutrient transporters such as sucrose transporter 1 and amino acid permease 1 (AAP1; ) are typically present in both maternal and filial cells. Often they appear as tissue-specific isoforms: examples are the tonoplast intristic proteins (TIPs) for water and Siliques Are Red 1 (SIAR1) for amino acids; some can change from efflux to influx mode in response to metabolic signals. The transfer cells positioned on either side of the apoplast act as the gateway for nutrient flow, as demonstrated in vivo by NMR in the barley caryopsis (Figure 4D;; ).

20The maternally located efflux transfer cells are responsible for the release of nutrients into the apoplast, and form cell wall ingrowths which direct the flow toward the seed. The plasma membranes in these cells are enriched with respect to aquaporins, membrane transporters, and channels for sugars, amino acids and peptides, inorganic ions, and other compounds. These efflux cells, like the cells of the barley and wheat nucellar projections, typically undergo programmed cell death (PCD;; ), which contributes to nutrient transfer to the filial tissue. In the maize seed coat placenta–chalazal region, PCD is coordinated with endosperm cellularization and is completed prior to the beginning of the storage phase. In this way, PCD functions as an adaptive process to facilitate the passage of solutes. In barley, the extensive vacuolization of cells in the nucellar projection allows for the transient accumulation of sucrose, which is released together with the complete cell contents to the apoplast after cell disintegration. A defective nucellar projection compromises nutrient flow into the endosperm, resulting in a reduction in final grain size. Although important for the seed’s fate, the identity, and mechanics of efflux constituents and transporters are only poorly understood.

21The influx transfer cells in monocotyledonous species lie on the surface of the endosperm, directly opposite the maternal unloading site. The development and function of these transfer cells have been comprehensively and recently reviewed. In dicotyledonous species, the transfer cells usually face the seed coat. A delay in the trans-differentiation of the embryonic epidermal cells to form transfer cells in the pea mutant E2748 has a negative impact on embryo growth and seed viability. Maize grains defective for the formation of basal endosperm transfer cells exhibit a shrunken kernel phenotype, as exhibited in the mutants reduced grain filling 1, globby1, baseless1, empty pericarp 4, and miniature1.

22The coordinated differentiation of opposing transfer cells requires a functional interaction between them, so presumably relies on an effective signaling mechanism. How this interaction operates is unclear, but a possible sequence of events has been suggested by and. In the dicotyledonous seed, the expanding cotyledon makes contact with the seed coat, after which the innermost thin-walled parenchyma cells are gradually crushed. The stress, akin to wounding, may induce an ethylene burst. In response, a secondary ethylene burst in the adjacent embryo cells could be mediated by the auto-regulated expression of 1-amino-cyclopropane-1-carboxylic (ACC) synthase. The process initiates the trans-differentiation of epidermal cells into transfer cells. Crushing of the seed coat is also coupled with a decrease in the activity of extracellular seed coat-specific invertase, which leads to a local reduction in the level of intracellular glucose. The lowered glucose level, sensed via a hexokinase-dependent pathway, removes the glucose-induced repression of ethylene-insensitive 3 (EIN3) and triggers an ethylene-signaling cascade, driving transfer cell differentiation. As shown in both in vitro and in vivo experiments, transfer cell formation across a wide range of plant species involves an interaction between phytohormones, sugar, and reactive oxygen species. The signals and signaling pathways responsible for the induction of transfer cell formation may be conserved across the monocotyledon/dicotyledon divide. When the promoter of the maize transfer cell-specific transcription factor ZmMRP1 was fused to a GUS reporter gene and inserted into maize, A. thaliana, tobacco, and barley, GUS activity could be identified in regions of active transport between source and sink tissues in each of these species, supporting the idea that the processes involved in transfer cell differentiation are similar across a diversity of plant species, and that differentiation is initiated by conserved induction signals.

23Coordination of seed development clearly requires communication between seed compartments, and in particular a level of feedback between the seed coat and the endosperm/embryo. Transporters localized at the embryo surface seem to be regulated by the metabolite concentrations present in the seed apoplast, but it is unclear how these transporters contribute to coordinating carbon partitioning between the maternal and filial tissues of the seed. For example, storage protein synthesis in the A. thaliana embryo and final seed weight depend on nitrogen availability and are mediated by AAP1, which is expressed in both the embryo and the seed coat. In both the seed coat and the endosperm of the aap1 loss-of-function mutant, amino acid levels are higher than in the wild type, whereas in the embryo, the content of storage proteins and carbohydrate is lower. Similarly, phloem amino acid concentrations regulate nitrogen loading into the oilseed rape seed.

24Nutrient release from the seed coat needs to be precisely tuned via a fast and sensitive mechanism such as, for example, cell turgor, which directly depends on the activity of vacuolar sucrose transporters. A turgor-homeostatic mechanism in the seed coat could sense a loss of solute from the seed apoplast and then could act to balance this by adjusting efflux activity. The growth of the endosperm, therefore, may trigger a feedback signal to the seed coat, which is then transmitted via a calcium signaling cascade to drive cell elongation. Such a mechanism could allow the endosperm to coordinate aspects of seed development.

25Sucrose, hexoses, and amino acids can all provide a regulatory signal. Sugar responsiveness is a prominent feature of genes contributing to the sink strength of developing organs, and provides an important mechanism for sink adjustment to source delivery. A number of genes involved in sucrose metabolism are up-regulated by sugars. As a result, the strongest sink is the one most efficiently up-regulated by the supply of assimilate. A balancing via down-regulation is also feasible. An invertase prominent in regulating sucrose unloading has been proposed to enhance sugar signaling in the context of establishing assimilate sinks. The expression of the myb-like transcription factor ZmMRP-1, a key regulator of transfer cell differentiation, is modulated by various carbohydrates, with glucose being the most effective inducer. ZmMRP1 transcriptionally activates a number of transfer cell-specific genes in the maize endosperm; one of these is Meg1, which encodes a small cysteine-rich peptide localizing to the plasma membrane of differentiating endosperm transfer cells, where it regulates the expression of cell wall invertase 2. The strong maternal influence over placental-like functions is conferred by genomic imprinting, which has been attributed to maternal–filial co-adaptation. Meg1 is one of more than a hundred imprinted genes active in the endosperm, and is the first to have been identified as having a role in regulating the flow of nutrients to the embryo. Meg1 also acts in tripartite (seed coat-endosperm-embryo) interaction and regulates maternal nutrient uptake, sucrose partitioning, and seed weight.

26The developing maternal tissue has an effect on endosperm filling and thus also final seed size. Several genes associated with seed size in A. thaliana are expressed in the seed coat. Among them are the transcription factors ARF2/MNT [which restricts seed size by suppressing cell proliferation in the integuments], AP2, TTG2 and EOD3/CYP78A6, which control cell expansion in the integuments and KLUH/CYTOCHROME P450 78A5, which stimulates cell proliferation in the endothelium. The up-regulation of KLUH increases seed size, produces larger seedlings and increases seed oil content. NARS1 and NARS2 are expressed in the outer integument, acting redundantly to regulate seed shape and embryogenesis; the seed of the nars1 nars2 double mutant are abnormally shaped.

27At least 400 quantitative trait loci (QTL) related to grain size have been identified in rice and candidate genes have been identified for some of these. Dwarf1 is strongly transcribed in the early developing pericarp and only weakly in the endosperm. This gene encodes the α subunit of the heterotrimeric G protein, which is suspected of controlling cell number, since its loss-of-function mutant displays a ubiquitous reduction in cell number. A second candidate gene, gif1, encodes a cell wall invertase required for carbon partitioning during early grain filling. Its transcript is only detectable in the (maternal) vascular tissue, suggesting that its role is associated with sucrose unloading. The expansion of parenchymatous cell layers seen in a faba bean accession (large- versus small-seeded) may reflect the activity of cell wall invertase 1.

28Several factors involved in ubiquitin-related activity have been shown to influence seed size. In rice, a ubiquitous RING-type protein displaying E3 ubiquitin ligase activity (encoded by GW2) negatively regulates grain size by restricting cell division. Its loss-of-function mutant forms an enlarged spikelet hull, which allows for a greater contact area between the endosperm and the seed coat. An uncharacterized protein, encoded by a candidate gene for a QTL for seed width mapping to chromosome 5, interacts with polyubiquitin, and acts to limit grain size, possibly by its involvement in the ubiquitin-proteasome pathway. However, because ubiquitin-related genes are so widely expressed – including within the endosperm – it is unclear whether their function is exclusively under maternal control. The A. thaliana gene DA2 is a homolog of GW2; it acts in the maternal tissue to restrict the growth of the seed. The da1 mutant produced larger and heavier seeds then wild type (“da” means “large” in Chinese; ). The growth-restricting factor DA1 is an ubiquitin receptor which determines final seed size by restricting the period of integument cell proliferation. The gene underlying a major grain length QTL in rice encodes a putative phosphatase 2A-type protein harboring a Kelch-like repeat domain. Its effect is manifested by inducing a higher cell density on the outer surface of the glumes and the ovary.

29The influence of the maternal tissue on caryopsis size has been well documented in cereals, although quite how this is achieved at the molecular and metabolic level remains unresolved. The extensive synteny and conserved gene structure among cereals has allowed much of the knowledge gained from rice to be exploited in crops such as maize, wheat, and barley. In particular, orthologs of GW2 have been identified in both wheat and maize.

30At an early developmental stage, the seed coat in dicots, and the pericarp in monocots accumulate a significant amount of starch (Figure 5). In A. thaliana, oilseed rape, and pea, starch accumulation occurs in the cells of the outer integument during the growth phase. In the A. thaliana seed coat, the most abundant transcript level of the genes encoding starch synthesis enzymes are observed during the pre-globular and globular developmental stages. Starch granules in the chalazal part of the seed coat are smaller and less abundant than in the distal part, a trait which is mirrored by a differential starch synthesizing enzyme transcript profile. In M. truncatula, an abundance of starch granules accumulates transiently in the seed coat from the embryo heart stage all the way up to mid-maturation. Based on the behavior of pea seeds lacking ADP-Glc pyrophosphorylase activity, it appears that transiently produced starch is required for sink acquisition, maximal embryo growth and final seed size. The role of this transient starch is not completely clear. Young maternal tissue may perhaps have evoloved a starch storage function to ensure a sufficient assimilate sink strength, which becomes redundant once the growing seed’s own sink is established. Accumulating assimilate in the form of starch is energetically highly efficient, so it is unsurprising that the transient maternal sink accumulates starch rather than protein or lipid.

31Transient starch is utilized for the growth and development of the maternal tissue, for example, by providing a source of carbohydrate to reinforce the cell wall with pectinaceous mucilage. It may also help support the growth of the endosperm and embryo. In Zingiberales and Caryophyllales species, the nucellus, rather than degenerating, accumulates large amounts of starch, forming a so-called perisperm which persists until the seed is mature. In quinoa and the grain amaranth, the perisperm consists of dead, thin-walled cells completely filled with starch granules, producing a structure which strongly resembles the cereal endosperm.

32The synthesis of transient starch is performed by a similar set of genes as is used in the leaf. Its mode of breakdown in the cereal pericarp is distinct between living and dying cells. In living chlorenchyma cells, it most likely occurs via a pathway similar to that followed in the photosynthesizing leaf; this involves the phosphorylation of the starch granule surface, making it accessible for the degrading enzyme β-amylase. Plastid-localized BAM5, BAM6, and BAM7 β-amylases are thought to produce maltose, acting either at the granule surface or on linear malto-oligosaccharides. The action of iso-amylase 3 on the granule, on the other hand, releases soluble malto-oligosaccharides, which can be metabolized by disproportionating enzyme 1 (DPE1), liberating glucose, and larger malto-oligosaccharides for continued degradation. After its transport to the cytosol, maltose can be further converted to glucose by DPE2. In dying cells, the mode of starch breakdown resembles that occuring in the germinating grain, which requires a combination of α- and β-amylase activity. AMY1 is active in the pericarp and nucellar tissue of a developing grain and is responsible for most of the α-amylase activity seen in germinating grains. A plausible starch degradation pathway in dying pericarp cells involves the joint activity of AMY1 and AMY4. Linear malto-oligosaccharides released by the action of these enzymes should provide an appropriate substrate for β-amylase 2. The molecular identity of the gene/enzyme responsible for the conversion of maltose to glucose remains to be identified.

33Seed coat tissues may also serve as a transient depot for proteins and microelements. In faba bean, the storage protein legumin B is deposited in the seed coat at mid-embryogenesis, while the wheat pericarp and nucellus accumulate significant quantities of calcium, copper, iron, molybdenum, magnesium, manganese, and phosphorus. The physiological significance of this accumulation has not yet been elucidated.

34Because cell division in the maternal tissue ceases soon after fertilization, further enlargement only occurs through cell expansion. The rapid growth of the endosperm and embryo requires the triggering of PCD to remove maternal cells in order to allow seed expansion. In both dicotyledonous and monocotyledonous seeds, the early stages of endosperm expansion are at the expense of the nucellus. After the cereal nucellus has degenerated, the next tissue to undergo PCD is the pericarp, starting from its innermost cell layer. The chlorenchyma is retained in a viable, functional state almost up to physiological maturity. In A. thaliana and the castor oil plant, PCD occurs first in the endosperm and later in the integuments.

35As in animal cells, the molecular basis for PCD in plants relies on caspase-like activity. Although no caspase homologs have been identified in plants, plants do harbor proteases sharing some similarity to animal caspases. Caspase-1-like, caspase-3-like, and caspase-6-like activities have all been detected in the degenerating chayote (Sechium edule) nucellus. Vacuolar processing enzyme (VPE, also referred to as legumain) has caspase-1-like activities, while phytaspase possesses caspase-6-like activity. A seed specific δVPE produced by A. thaliana is present in the two inner cell layers of the seed coat. In a mutant defective for δVPE, PCD is delayed and the seed coat remains thick throughout development. In contrast, in the wild type, the two layers undergo PCD very early during seed development, reducing their thickness by more than 50%. The spatial and temporal patterns of HvVPE4 transcription coincides with the onset of PCD in the barley pericarp. The product of HvVPE2a (also called nucellain), together with those of HvVPE2b, HvVPE2c, and HvVPE2d, are important for the timely degeneration of the nucellus and the nucellar projection. HvVPE2b possesses caspase-1 like activity. The supposed role of the barley VPEs in grain development still requires experimental confirmation. Novel technologies might help to identify the target(s) of VPE.

36A large number of proteases are present in degenerating maternal tissue, some of which may be active components of PCD. The ricinosome, a castor oil plant specific organelle, contains a large quantity of a pro-cysteine endopeptidase (CysEP), which serves to disintegrate the nucellar cells, leaving crushed and folded cell wall residues in the apoplastic space. Nuclear DNA fragmentation has been detected in the nucellus of the castor oil plant, chayote, barley and wheat, as well as in the A. thaliana endothelium.

37The transcription factor OsMADS29 has been described as a regulator of PCD in the rice nucellus. OsMADS29 transcripts are concentrated in the nucellus and the nucellar projection, but are also detectable in the inner layers of the pericarp, in other maternal seed tissues and in the embryo. PCD is slowed in an OsMADS29 knockdown line, leading to a reduction in starch accumulation in the endosperm and the production of shrunken or aborted grain. An alternative role for this transcription factor – in relation to hormone homeostasis, plastid biogenesis and starch synthesis – has been suggested by. OsMADS29 is thought to bind to the promoters of cysteine protease genes. The down-regulation of OsMADS29 suppresses the transcription of VPE genes in the grain. As yet, however, there is no consensus regarding the localization of either its transcript or its gene product, its primary target(s) or its likely function during grain development. The transcription of its barley homolog, HvMADS29, is restricted to the nucellus and the nucellar projection and coincides with that of Jekyll and HvVPE2a. The promoter regions of Jekyll, HvVPE2a, HvVPE2b, and HvVPE2d contain the same CArG-like regions recognized by OsMADS29, which implies that they are all transcriptionally regulated by HvMADS29. Jekyll is a key player in grain development, and is also active in nurse tissues, where it mediates the gametophyte-sporophyte interaction in both the gynoecium and the androecium. Its down-regulation slows PCD in the nucellus and nucellar projection, although the mechanistic basis of this effect is unclear. The Jekyll product, which is unique to Pooideae, is a small, cysteine-rich protein deposited within the intracellular membranes. It has no significant similarity to other proteases or any protein of known function, and has no in vitro protease activity.

38The capacity of the seed coat to limit water loss and to protect against mechanical damage persists beyond seed maturation. The mechanical strength of the seed coat is achieved primarily by the accumulation of sclerenchyma. Cell walls containing lignin, cellulose, and sometimes silica are effective in providing protection against attacks by fungi, insects, and herbivores. Seed coat constituents (e.g., PAs in Brassica napus) impair the digestibility and are being targeted by genetic and molecular approaches to improve nutritional value of seeds.

39The seed coat can also contribute to seed dispersion: some species produce winged seed, where the wing structure is formed by outgrowths of the seed coat, while others produce hairy seed. Some of the compounds found on the seed coat have industrial applications. Under natural conditions, the cotton boll (its fibers are almost pure cellulose) will tend to increase the dispersion of the seeds, and indeed the use of cotton for fabric is known to date to prehistoric times. Genetically modified cotton has increased yield, but further improvements are needed.

40The seed coat, along with the endosperm, is the primary determinant of seed dormancy, which represents a physiological adaptation to environmental uncertainty. Dormancy dictates the environmental conditions required to trigger germination. The acquisition of seed dormancy is under complex genetic control, but it is vital as a means of assuring the survival of natural plant populations. Seed dormancy can be a critical trait for breeders and would represent a prime target for biotechnology intervention, provided that its regulation were better understood.

41A combination of external factors, such as light, temperature, water, and chemicals play an important role in breaking seed dormancy. Many small seeded species, the seeds of which contain little stored energy, are triggered to germinate by exposure to light. In some cases the minimum duration of exposure required can be measured in milliseconds. Phytochromes represent the main vehicle for seeds to sense light. The linkage between the light-regulated trigger and the hormone-mediated induction of germination in A. thaliana has been been explored by. A rapid adaptation to light fluctuation can represent a key competitive advantage in natural plant populations. A particularly striking example of how the seed coat contributes to seed survival is provided by species that have adapted to bushfires. Australian Banksia species are destroyed when burnt, but the fire stimulates the opening of their seed-bearing follicles and promotes the germination of buried seed. The smoke from bushfires contains as many as 5000 different compounds, including a number of substances proven to stimulate germination. While volatiles such as ethylene and nitric oxide are not very persistent in the soil, other smoke compounds (in particular, karrikins, and cyanohydrins) are quite stable in the upper layers of the soil where dormant seeds tend to be found. The seed coat of a mature Banksia sp. seed is permeable to these molecules. The seeds of hundreds of plant species have been tested with many smoke compounds, and the mode of action of some has been elucidated in A. thaliana. It has even been suggested that some of these compounds have been co-opted through evolution as signals for germination.

42During seed development, the seed coat (dicots) and pericarp (monocots) serve a number of functions, most of which have evolved to protect the seed and to promote the development of the embryo and the endosperm within it. The architecture, chemical composition and metabolism of the seed coat work together to ensure effective responses to both biotic and abiotic factors. Nutrients passing from the mother plant to the developing embryo and endosperm must traverse the seed coat, which therefore controls seed development and seed filling. Specialized tissues have developed in a coordinated fashion on either side of the apoplast to direct and facilitate nutrient flow toward the growing embryo and endosperm. The seed coat and the endosperm act together to determine final seed size. The fine-tuning of nutrient flow from the seed coat to their endosperm and embryo is controlled at the genetic, epigenetic, and metabolic level, but how the interplay is achieved in vivo remains to be clarified.

43Photosynthesis in the seed coat provides oxygen to the hypoxic regions deep within the developing seed. The overwhelming proportion of the nutrition supplied to the seed is provided by the leaf of the mother plant, the delivery of which is tied to the circadian rhythm. Adapting the seed’s metabolism to this uneven flow of nutrition is facilitated by the seed’s ability to sense light. In the course of seed development, the maternal tissues undergo PCD, thereby providing both the space and nutrients for the growth of the filial tissue. Finally, an outer seed envelope is built which is important for providing protection for the mature seed, enabling the establishment of dormancy and aiding in seed dispersal.

44The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.