Regulation of potato tuber sprouting
Following tuber induction, potato tubers undergo a period of dormancy during which visible bud growth is inhibited. The length of the dormancy period is under environmental, physiological and hormonal control. Sucrose availability is one prerequisite for bud break. In the absence of sucrose, no bud break occurs. Thus, sucrose is likely to serve as nutrient and signal molecule at the same time. The mode of sucrose sensing is only vaguely understood, but most likely involves trehalose-6-phosphate and SnRK1 signalling networks. This conclusion is supported by the observation that ectopically manipulation of trehalose-6-phosphate levels influences the length of the dormancy period. Once physiological competence is achieved, sprouting is controlled by the level of phytohormones. Two phytohormones, ABA and ethylene, are supposed to suppress tuber sprouting; however, the exact role of ethylene remains to be elucidated. Cytokinins and gibberellins are required for bud break and sprout growth, respectively. The fifth classical phytohormone, auxin, seems to play a role in vascular development. During the dormancy period, buds are symplastically isolated, which changes during bud break. In parallel to the establishment of symplastic connectivity, vascular tissue develops below the growing bud most likely to support the outgrowing sprout with assimilates mobilised in parenchyma cells. Sprouting leads to major quality losses of stored potato tubers. Therefore, control of tuber sprouting is a major objective in potato breeding. Although comparative transcriptome analysis revealed a large number of genes differentially expressed in growing versus dormant buds, no master-regulator of potato tuber sprouting has been identified so far.
KeywordsPotato tuber sproutingDormancyMeristem activationPlant hormone
Indole-3 acetic acid
Potato (Solanum tuberosum L.) is one of the most important crop plants worldwide. Potato tubers are an excellent staple food due to its high nutritional value. This in addition to their relatively easy cultivation makes potato more and more important as a critical crop to feed an increasing world population. Tubers are mainly consumed fresh, generating a constant all year round demand and making long-term storage of tubers after harvest necessary. The maintenance of post-harvest quality is of vital importance to producers and processors. Sprouting is one factor contributing to the quality loss leading to remobilisation of storage compounds, mainly starch and proteins and shrinkage due to loss of water (Coleman 1987; Sonnewald 2001; Börnke et al. 2007). The understanding of the molecular mechanisms and the development of diagnostic tools to predict sprouting are therefore of primary interest to ensure post-harvest tuber quality.
Potato tubers are stem-derived organs formed by shortened internodes and nodes which turn into tuber eyes. Tubers originate from underground shoots, called stolons, by swelling of the stolon tips. This process requires the cessation of diageotropical growth and a change from transverse to longitudinal cell division in pith and cortex (Xu et al. 1998). The bulk of tuber tissue is subsequently formed by cell expansion, randomly oriented cell division (Jackson 1999) and massive deposition of C- and N-assimilates such as starch and storage proteins (Visser et al. 1994; Appeldoorn et al. 1999), making the tuber a strong storage sink (Fernie and Willmitzer 2001). Tuber development is regulated by an interplay between endogenous and environmental signals and is orchestrated by coordinated transcriptional and metabolic changes (Kloosterman et al. 2005, 2008; Ferreira et al. 2010). The process was shown to be controlled by phytohormones including gibberellins (GAs), auxin and strigolactones (SLs) (Carrera et al. 2000; Kloosterman et al. 2007; Roumeliotis et al. 2012; Pasare et al. 2013). However, an important trigger comes from environmental cues. In many potato species, short photoperiods favour tuber initiation, while high temperatures (especially during the night) and high nitrogen levels are inhibitory (Jackson 1999; Abelenda et al. 2011). Under favourable conditions, a mobile tuberisation signal is produced in the leaves and is then transported to the stolons, inducing tuber formation. The nature of the signal has been identified as the potato homologue of the FloweringLocus T (FT), named as StSP6A (Navarro et al. 2011). The regulatory network of tuber induction is now emerging involving additional players which have been described recently (Hannapel 2010; Abelenda et al. 2011; Gonzalez-Schain et al. 2012; Kloosterman et al. 2013).
Coincident with tuber development, meristematic activity in the stolon apex and the nodes ceases completely and the tuber enters a period of dormancy (Burton 1989; Xu et al. 1998; Claassens and Vreugdenhil 2000). Thus, inception of dormancy largely parallels tuber enlargement (Fernie and Willmitzer 2001). Dormancy has been defined in broad terms as ‘the absence of visible growth of any plant structure containing a meristem’ (Lang et al. 1987) and is a physiological adaptation to survive periods of unfavourable environmental conditions. In potato tubers, dormancy occurs only in the tuber buds containing the meristem, the rest of the tuber remains metabolically active (Viola et al. 2007). Potato tubers pass through three phases of dormancy (Suttle 2007). The post-harvest dormancy phase is defined as endodormancy in which growth arrest is caused by endogenous factors and cannot be broken even under otherwise favourable conditions. After a certain time, endodormancy is lost, and tubers are physiologically competent to sprout (Sonnewald 2001). Usually the apical bud becomes dominant and inhibits the outgrowth of other buds which are paradormant. Moreover, sprouting can be inhibited by limiting environmental conditions, e.g. cold which is referred to as ecodormancy (Suttle 2007). The stem-like behaviour of tubers was confirmed in a recent study (Teper-Bamnolker et al. 2012). In addition, the weakening of the apical dominance leading to sprouting of multiple buds during the later stages of development was linked to programmed cell death in this study.
With the onset of sprouting, tubers become a source organ for the growing sprout (Sonnewald 2001). This is accompanied by structural and metabolic changes as well as by an altered level of gene expression (Ronning et al. 2003; Viola et al. 2007; Hartmann et al. 2011). Although our knowledge with respect to molecular changes during tuber dormancy has considerably increased within the last years, the molecular mechanisms triggering tuber sprouting are still unclear. Changes in the meristematic activity are thought to play a key role in sprouting and re-activation of meristem function is assumed to coincide with the end of dormancy. Here, we will summarise the current knowledge of molecular and metabolic processes controlling length of dormancy and onset of sprouting.
Environmental conditions affecting length of tuber dormancy
Besides being under genetic control, length of tuber dormancy is influenced by both pre- and post-harvest environmental factors. Since tuber dormancy is established during tuber formation, it is not surprising that factors influencing tuberisation such as day length, temperature, nutrient and water supply also affect dormancy and sprouting (summarised in Jackson 1999; Claassens and Vreugdenhil 2000; Suttle 2007). Early work reported that potatoes cultivated under short days have a shorter dormancy period than those grown under long-day conditions (Emilsson 1949; reviewed by Claassens and Vreugdenhil 2000). Besides day length, temperature has a strong impact on tuber development. High temperatures during the growing season not only have negative effects on tuber formation and tuber dry matter accumulation, but also cause tuber chain formation, secondary growth and premature sprouting (Bodlaender et al. 1964; Levy and Veilleux 2007). Heat stress during tuber maturation is thought to interfere with the onset of dormancy; the stolon tips resume growth and can form a second tuber under favourable conditions, e.g. if temperature becomes cooler again. Repeated cycles of high and low nitrogen level can also result in the formation of chain tubers (Jackson 1999).
Temperature is also one of the most important physical factors determining the length of dormancy period during storage: within the range of 3–20 °C, dormancy length is inversely proportional to temperature (Wiltshire and Cobb 1996). Other post-harvest conditions such as humidity and the composition of the atmosphere also impair dormancy (see Wiltshire and Cobb 1996; Claassens and Vreugdenhil 2000; Suttle 2007).
In addition, sprout control is achieved commercially by application of chemical or natural compounds (Sonnewald 2001). The synthetic chlorpropham (isopropyl N-chlorophenylcarbamate, CIPC) is the most effective sprout inhibitor which prevents tuber sprouting by interfering with its cell division (Vaughn and Lehnen 1991; Campbell et al. 2010). However, its application raises environmental and consumer concerns. Natural compounds like mint essential oil or caraway and their volatiles have been described as environmentally friendly alternatives to inhibit sprouting (Meigh 1969; Eshel et al. 2009; Teper-Bamnolker et al. 2010). The mode of action of these compounds is under investigation and interested readers are referred to Eshel et al. (2009); Teper-Bamnolker et al. (2010) and Rentzsch et al. (2012) (and ref. therein). Besides inhibition, sprouting can be chemically induced by application of “Rindite” or bromoethane (BE) (Coleman 1983). Both are rapid inducer of dormancy break. BE-induced sprouting was shown to result in similar morphological, physiological and transcriptional changes as natural cessation of dormancy and has been established as one experimental model system to synchronously release tuber dormancy (Law and Suttle 2003, 2004; Destefano-Beltran et al. 2006a; Campbell et al. 2008; Alexopoulos et al. 2009).
Changes in plant primary metabolism
During tuber development, imported soluble assimilates are actively converted into starch and storage proteins. At maturity, between 8.0 and 29.4 % of dry matter is made of starch, and between 0.69 and 4.63 % of storage proteins (OECD 2002). Using [U-14C] glucose labelling, Viola et al. (2007) showed that the starch-synthesising capacity of parenchyma cells declines during maturation, while there is an increased partitioning of labelled glucose into sucrose suggesting that tubers undergo a sink-to-source transition. After the onset of sprouting, the soluble sugar content in the tubers declined until sprouts reached approximately 1 g of dry matter (Viola et al. 2007). Remarkably, induction of starch mobilisation in parenchyma cells was only found during the late stages of sprouting, which correlated with an accumulation of soluble sugars (Viola et al. 2007). These data are consistent with other reports in which decreased sucrose and unchanged starch levels were found in parenchyma cells during storage and the onset of sprouting (Davies and Ross 1984, 1987; Biemelt et al. 2000; Hajirezaei et al. 2003). Activities and transcript abundance of alpha- and beta-amylases were found to increase in the sub-eye regions of tubers with the commencement of sprouting, but not in the tuber parenchyma (Biemelt et al. 2000; Rentzsch et al. 2012), reflecting the increase in starch turnover in the meristematic tissue and that starch degradation is important to maintain sprout growth.
Considering this, sucrose mobilisation and transport have been exploited as target to modify sprouting behaviour. Phloem cell-specific expression of a yeast-derived invertase which cleaves sucrose into glucose and fructose caused a strong inhibition of tuber sprouting (Hajirezaei et al. 2003). While tubers of untransformed control plants developed sprouts after 5 months of storage, transgenic tubers only formed diminutive sprouts which did not exceed a 1–2 mm stage, even after prolonged storage. Interestingly, in these transgenic tubers, starch degradation and respiration were found to be accelerated together with an increased pool of phosphorylated hexoses and glycolytic intermediates. From these results, it was proposed that low sucrose levels in the bud (sink) may act as signal to regulate starch mobilisation in the parenchyma (source) (Hajirezaei et al. 2003). This hypothesis was substantiated by transgenic plants expressing a chimeric sucrose isomerase which catalyses the conversion of sucrose into the non-metabolizable palatinose without affecting the hexose metabolism. Tubers of these transgenic plants were characterised by low sucrose levels and showed an increased starch degradation and respiration during storage (Hajirezaei et al. 2003). Since hexose levels were almost unchanged in these plants, it was concluded that the absence of sucrose in meristematic cells may serve as a signal to initiate reserve mobilisation and respiration. In addition, these data indicated that phloem-restricted sucrose hydrolysis inhibits translocation of sucrose towards the developing sprouts leading to a non-sprouting phenotype (Hajirezaei et al. 2003).
Since sucrose utilisation via sucrose synthase and UDP-glucose pyrophosphorylase is dependent on inorganic pyrophosphate (PPi) (Sonnewald 2001), removal of PPi was used as another approach to interfere with sucrose availability by overexpression of an Escherichia coli pyrophosphatase. Expression of this gene under control of a strong constitutive promoter resulted in a strong delay of tuber sprouting which was thought to be brought about by a reduced phloem loading of sucrose and the impaired utilisation of sucrose in the developing sprout (Hajirezaei and Sonnewald 1999). Sink tuber-specific expression of E. coli pyrophosphatase caused the opposite phenotype, namely accelerated sprouting (Farre et al. 2001). In this case, removal of PPi in parenchyma cells resulted in higher sucrose levels which could be loaded into the phloem system causing higher sucrose levels in meristematic cells (Farre et al. 2001; Sonnewald 2001).
In a recent study, trehalose-6-phosphate (T6P) was shown to affect tuber dormancy (Fig. 1). T6P has emerged as a component of plant’s sugar signalling system (Paul 2007; Debast et al. 2011) and its amount was shown to correlate with sucrose content under natural conditions (Lunn et al. 2006). Artificial manipulation of T6P content in transgenic plants by overexpression of bacterial enzymes had significant effects on tuber dormancy (Debast et al. 2011). Decreased levels of T6P resulted in early tuber sprouting, while increased levels of T6P lead to late sprouting. Assuming that T6P serves as signal metabolite to transmit the actual availability of sucrose, this observation is not consistent with the results obtained. However, assuming that ectopic expression of T6P metabolising enzymes uncouples in vivo sucrose content from T6P levels, the observed phenotypes may be explainable. High T6P levels in heterotrophic tissues will inhibit SnRK1 activity. Thus, reserve mobilisation and energy metabolism will be inhibited. As a consequence, less sucrose will be formed and sprout growth will not be supported. Two lines of evidences support this assumption. Firstly, tubers of transgenic plants expressing SnRK1 antisense transcripts also showed delayed tuber sprouting (Halford et al. 2003). Secondly, low T6P levels in potato tubers resulted in the up-regulation of a number of genes which have been shown to be SnRK1-responsive in arabidopsis leaves (Baena-Gonzalez 2010). Thus, it is tempting to speculate that reduced T6P levels caused an increased reserve mobilisation via SnRK1 signalling, increased sucrose levels and accelerated sprouting, while elevated T6P levels caused the opposite effect (see Fig. 1). From these data, it can be speculated that the reason for the observed sprouting phenotypes is the misinterpretation of the metabolic status of the tuber tissue.
Moreover, Debast et al. (2011) demonstrated an altered gibberellin (GA) and cytokinin (CK) response of the transgenic tubers with modified T6P levels and a changed turnover of abscisic acid (ABA), which correlated with the sprouting phenotype. The potential interaction between SnRK1 and ABA signalling is supported by the induction of ABA 8′-hydroxylase expression, which was found in low T6P tubers together with a reduced ABA content. This led the authors to suggest that induction of ABA catabolism through SnRK1 signalling may cause premature sprouting (Debast et al. 2011) (Fig. 1).
Symplastic isolation was shown in other species to result from callose deposition at plasmodesmata which join neighbouring cells to build a symplastic continuum (Oparka et al. 1999; Rinne et al. 2001). Furthermore, re-establishment of symplastic connections has been associated with callose removal by the action of beta-1,3-glucanases leading to the release of dormancy in perennial trees (Rinne et al. 2001, 2011). Whether modification of plasmodesmata through callose deposition and its removal are factors contributing to the regulation of potato tuber dormancy is presently unclear.
Abscisic acid is required for both initiation and maintenance of tuber dormancy (Suttle and Hultstrand 1994). The significance of ABA as dormancy-related hormone was first recognised by Hemberg (1949). At this time, ABA was named beta-inhibitor complex. Consistently, subsequent studies showed that ABA levels are highest in deeply dormant tubers and decline during storage (Korableva et al. 1980; Biemelt et al. 2000; Destefano-Beltran et al. 2006b). In addition, treatment of microtubers with the ABA biosynthesis inhibitor fluridone reduced the ABA content significantly which was accompanied by a shortened dormancy period (Suttle and Hultstrand 1994). However, exogenous application of ABA to dormant tubers had no remarkable effect, while treatment of non-dormant tubers only transiently inhibited sprout growth (Suttle et al. 2012).
Besides ABA, ethylene also appears to play a critical role in the initiation of dormancy. However, whether there is an interaction with ABA signalling is unknown (Suttle 1998a). Conflicting data have been published concerning its role during later stages of dormancy and sprouting as summarised by Suttle (2004b, 2007). In brief, exogenous application could either shorten or delay the dormancy period depending on the duration of treatment and the concentration applied (Rylski et al. 1974; Prange et al. 1998). Previously, Suttle (2009) reported that neither ethylene application nor stimulation of endogenous biosynthesis was effective in bud break or sprout growth. In contrast, several publications described an increased rate of ethylene production and increased expression of biosynthetic genes with the onset of sprouting (Suttle 2004b, 2008, 2009; Hartmann et al. 2011, and ref. therein). Nonetheless, comparison of sprouting and non-sprouting tubers suggested that ethylene-associated signals may negatively influence sprout outgrowth (Hartmann et al. 2011) (see Fig. 3).
Thus, while ABA and ethylene have been mainly linked with the onset and maintenance of tuber dormancy, GAs and CKs have been associated with release of dormancy and sprouting. Since the mid-1950s, it has been known that application of GA triggers tuber sprouting (Brian et al. 1955; Rappaport 1956; Rappaport et al. 1957). The dormancy-releasing capacity of GA was confirmed more recently by either injecting GA below the apical bud complex or by bathing isolated tuber buds in GA3 solution (Suttle 2004b; Hartmann et al. 2011; Rentzsch et al. 2012). In all these studies, treatment with bioactive GA species was able to terminate dormancy and to stimulate bud outgrowth. First attempts to measure endogenous GA-like substances supported the idea that sprouting is related to an increase in GA level prior to or with the onset of sprouting (Smith and Rappaport 1961; Bialek and Bielinska-Czarnecka 1975). Improved detection methods, however, showed no significant changes, or even a decrease in the amount of GA1, which is the main bioactive GA in potato, and its direct precursors GA19 and GA20 during the dormancy period. A clear increase was only seen when sprouts started to grow vigorously (Suttle 2004a).
Transgenic lines with ectopic expression of the GA biosynthetic gene GA20-oxidase from either potato or Arabidopsis thaliana exhibited a shortened time of dormancy and developed elongated sprouts, confirming the growth promoting activity of GA (Carrera et al. 2000; Hartmann et al. 2011). In contrast, modified expression of endogenous GA2-oxidase gene, whose product is involved in inactivation of bioactive GAs and their precursors (Hedden 2001), did not affect the length of the dormancy period in transgenic potato tubers (Kloosterman et al. 2007). The onset of sprouting was delayed, however, in transgenic tubers expressing a heterologous GA2-oxidase from Arabidopsis (Hartmann et al. 2011) supporting the dormancy-terminating capacity of GA. The observed discrepancy might be due to different expression levels obtained in the different transgenic lines and the promoter used. In the study of Hartmann et al. (2011), the Arabidopsis GA20-oxidase was expressed under the control of either the constitutive CaMV35S or the chimeric STLS1/CaMV35S promoter. The chimeric promoter drives very strong expression during potato tuber storage as compared to the conventional CaMV35S promoter. Thus, it is tempting to speculate that the amount of bioactive GA must exceed a certain limit in responding cells to stimulate dormancy break and sprout outgrowth.
Strikingly, transgenic potato plants expressing the catabolic cytokinin oxidase/dehydrogenase 1 (CKX1) from A. thaliana to lower the CK content did not respond to GA3 application in an in vitro assay. Accordingly, transgenic tubers harbouring the isopentenyltransferase (IPT) gene from Agrobacterium tumefaciens to increase the endogenous CK content promoted GA-mediated sprouting in vitro (Hartmann et al. 2011). Furthermore, CKX1-expressing tubers exhibited a prolonged dormancy period and onset of sprouting was delayed up to 8 weeks compared to wild type (Hartmann et al. 2011). Even though bud break occurred in these tubers and petite sprouts were formed, they failed to develop further. These results support earlier findings that CK plays an essential role in the control of dormancy and sprouting (Hemberg 1970; Turnbull and Hanke 1985a; Suttle 2001, 2008). Suttle (2008) reported that synthetic phenylurea and nitroguanidine CKs were more effective in dormancy termination than the naturally occurring zeatin species because they escape inactivation by endogenous CKX. Moreover, these substances reduced the insensitivity against cytokinin that has been described during the early phases of dormancy (Turnbull and Hanke 1985b; Suttle 1998b), but did not eliminate it. Similarly, transgenic potato tubers which express a bacterial 1-desoxy-d-xylose-5-phosphate synthase showed increased level of trans-zeatin riboside and were characterised by broken dormancy at the time point of harvest, but further elongation of sprouts began only after a lag phase (Morris et al. 2006). The authors presumed hormonal and/or metabolic imbalances as reasons for this phenotype. This is in line with the assumption that metabolic competence has to be achieved (e.g. sucrose availability) for sprouting to commence (Sonnewald 2001). Nonetheless, applying 6-benzylaminopurine (BAP), another synthetic CK, to excised tuber buds in an in vitro sprout release assay stimulated bud break, but not sprout growth. An additional dosage of GA3 was necessary to trigger further sprouting (Hartmann et al. 2011). Together, these results place CK as important player for bud break and initiation of tuber sprouting. Further they indicate the importance of metabolic and hormonal balance for this process and suggest that GA activity requires CK to stimulate meristematic activity and bud break. However, if applied exogenously GA is sufficient and necessary to promote sprout outgrowth (Fig. 3).
Although auxin is a key regulator of plant growth and development, its role during tuber dormancy and sprouting is not well understood and has been poorly investigated. Exogenous application of high concentrations of indole-3 acetic acid (IAA) or 1-naphthaleneacetic acid resulted in an inhibition of sprout growth, while application of low doses of auxin to bud containing tuber slices had a growth stimulating effect (Hemberg 1949, 1985; Suttle 2007). Inconsistent data have been also published concerning changes in endogenous levels of IAA. Bioassay and HPLC-derived data suggested an increase of IAA levels after bud break (Hemberg 1949; Sukhova et al. 1993), indicating no direct role for auxin in dormancy control. Later, Sorce et al. (2000) found a positive correlation between IAA content in tuber buds and loss of dormancy. In a more detailed analysis of different tuber tissues of two cultivars with different dormancy length stored at 3 or 23 °C, Sorce et al. (2009) showed a progressive decline in levels of free and conjugated IAA in tuber buds until sprouting commenced. Parallel immunolocalisation experiments confirmed highest amounts of IAA in the buds with a different distribution in dormant and sprouting tubers. In dormant tubers, IAA was detectable in apical buds and lateral meristems as well as in developing vascular tissues underneath the meristems. However, IAA accumulated only in axillary primordia of sprouting buds (Sorce et al. 2009). From these results, the authors suggested that IAA may activate early differentiation processes, e.g. development of vasculature in the buds which is a prerequisite to terminate dormancy and initiate sprouting (Fig. 3). In fact, auxin was shown to play an essential role in primordium initiation and differentiation of vascular tissue (Carraro et al. 2006; Dettmer et al. 2009; Scarpella et al. 2010). In this context, the view of Sorce et al. (2009) is indirectly supported by transcript profiling data from tubers expressing the A. thalianaCKX1 gene. Besides the strongly delayed sprouting phenotype, these tubers did not develop proper sprouts and showed anatomical disorders. Compared to wild type, genes coding for auxin biosynthesis, transport or signalling components were less induced or regulated in the opposite manner in CKX1-expressing tubers (Hartmann et al. 2011). Together, these results suggested that auxin biosynthesis, transport and signalling may be required for cellular differentiation (such as the vascular tissue) during bud break and outgrowth, but this needs more investigations.
In addition to auxins, strigolactones (SL) emerged as carotenoid-derived plant hormones with a major role in the control of lateral bud outgrowth (reviewed recently by Gong et al. 2012; Ruyter-Spira et al. 2013). Application of the synthetic SL GR24 to excised tuber buds alone had no significant effect on bud growth compared to water, whereas it inhibited the sprout inducing activity of GA and CK when applied together with these hormones (Pasare et al. 2013). Transgenic potato plants with RNAi-mediated silencing of the carotenoid cleavage dioxygenase 8 (CCD8), a key SL biosynthetic gene, revealed that SL are involved in the control of shoot branching and different processes during the tuber life cycle (Pasare et al. 2013). Tubers from these transgenic lines exhibited increased secondary growth and a reduced dormancy indicating a negative control of SL on sprouting. Remarkably, CCD8-RNAi tubers were less responsive to GA3 than wild-type tubers in an in vitro sprout release assay, but responded in a similar manner to CK treatment. The authors discuss this somehow unexpected result by an interaction between SL and GA which needs to be studied in more depth (Pasare et al. 2013). However, taken together, the results indicate that SL inhibited tuber bud growth and may act downstream of CK and GA (Fig. 3).
Cellular and transcriptional changes
Re-activation of meristematic activity precedes tuber bud growth and is accompanied by increased cell division leading to tuber sprouting. Campbell et al. (1996) showed that nuclei isolated from meristematic cells of dormant potato tubers are arrested in G1/G0 phase of the cell cycle and onset of visible sprouting coincided with increased 3H-thymidine incorporation into DNA indicating that cells re-enter cell cycle at G1 phase. This is followed by DNA replication during S-phase. In fact, earlier studies have found that breaking of tuber dormancy is associated with an increase in net DNA and RNA synthesis (Macdonald and Osborne 1988). Recently, a deoxyuridine triphosphatase (dUTPase), which is important for continuous DNA replication, was described as molecular marker to define the switch from dormant to an active tuber meristem (Senning et al. 2010).
Further work revealed that epigenetic changes are involved in regulation of dormancy and linked these to an increased rate of cell division and re-activation of meristematic activity. Thus, an transient decrease in 5′-CCGG-3′ methylation (Law and Suttle 2003) has been observed concurrently with an increased histone (H3.1, H3.2, H4) acetylation (Law and Suttle 2004) in meristems of cold-shifted or BE-treated (which triggers dormancy release) tubers prior to an accelerated RNA and DNA synthesis. Both cytosine demethylation of promoter regions and lysine acetylation of histone proteins are therefore thought to be part of the molecular events which activate transcription and gene expression during the transition from dormant to active tuber meristem cells.
Besides this, different approaches were performed to identify genes differentially expressed during the transition from dormant to sprouting tubers. Bachem et al. (2000) used cDNA-AFLP fingerprinting to identify transcript-derived cDNAs (TDFs) that are specifically expressed during the different stages of the tuber life cycle including the dormancy and sprouting phase. In total, they estimated that about 40,000 genes are expressed during tuber life cycle. The number of TDFs that change during development was found to be highest during tuber growth, lowest during dormancy and raised again during bud break and onset of sprouting. Seventy-five TDFs with changing expression during dormancy and sprouting were isolated and sequenced. However at this time, the majority of the sequences did not show any similarity to known genes, the others were similar to genes coding for homeotic proteins or transcription factors, but not for genes with homology to genes involved in catabolic carbohydrate metabolism (Bachem et al. 2000).
Other studies used large-scale sequencing technologies to generate expressed sequence tags (ESTs) from cDNA libraries specific for different potato tissues or developmental stages (Crookshanks et al. 2001; Ronning et al. 2003; Kloosterman et al. 2008) together with a comparative bioinformatics analysis to identify genes associated with dormancy and sprouting. Ronning et al. (2003) found genes involved in translation such as elongation factor EF1B-alpha and ribosomal proteins among the highest differentially expressed genes during sprouting, consistent with an increased cellular activity.
Alternatively, differential display (Agrimonti et al. 2000) or suppression subtractive hybridisation (SSH) approaches using dormant and sprouting tubers (Faivre-Rampant et al. 2004; Liu et al. 2012) were applied to produce cDNA libraries enriched in genes up-regulated during dormancy release. Agrimonti et al. (2000) identified two genes, referred to as G1-1 and A2-1, whose expression was induced or strongly repressed during transition from dormancy to sprouting. Tubers of transgenic potato plants harbouring an antisense construct for G1-1 exhibited a significant increase in length of dormancy, while reduced expression of A2-1 had no effect on tuber dormancy (Marmiroli et al. 2000).
The SSH study conducted by Faivre-Rampant et al. (2004) yielded 385 differently regulated genes. Annotation and functional grouping indicated high proportion of genes involved in transcription and translation which reflect again the increased biosynthetic activity upon release of dormancy. Special attention was paid to a member of the auxin response factor family (ARF6). ARF6 gene expression was strongly up-regulated on release from dormancy. In situ hybridisation experiments revealed it is highly expressed in the meristem as well as in the procambial and early vascular tissue of sprouting buds, while no signal could be detected in dormant buds. As its transcript level correlated with meristem growth in several other conditions, the authors suggested ARF6 as a marker for meristem activation (Faivre-Rampant et al. 2004). A more recently performed SSH strategy led to the identification of approx. 300 differentially expressed ESTs and the authors described an ADP-ribosylation factor to be co-regulated with tuber dormancy break; however, they did not compare their data with the previously published results (Liu et al. 2012).
The construction of potato EST libraries and the increasing availability of sequence information provided the basis for the design of microarrays as valuable tool for functional genomics. The Institute for Genomic Research (TIGR) developed a 10-K cDNA array which was employed, e.g. Campbell et al. (2008) used it to study transcriptional changes during naturally and chemically (BE) induced cessation of dormancy, where both resulted in similar alterations. Overall, the authors found a greater number of down-regulated genes compared to dormant versus non-dormant tuber meristems. Among them were transcripts coding for storage proteins, such as patatin, for all major groups of protease inhibitors as well as ABA-inducible genes encoding members of the BURP motif containing RD22 family. Their data are indicative for a shift from storage to growth and for a declined ABA content (Campbell et al. 2008). In contrast, transcripts involved in cell division and growth, e.g. like such coding for histone proteins, cyclophilins and oxoglutarate-dependent dioxygenases, increased in their expression.
Since the TIGR 10-K array only represents part of the potato transcriptome, in 2008, a 44-K array was designed in collaboration between the Potato Oligo Chip Initiative (POCI) and Agilent Technologies (Kloosterman et al. 2008). Here, a set of approximately 250,000 EST sequences were assembled into 46,345 unigenes. Subsequently, specific 60-mer oligonucleotides were designed which is the foundation of the 44-K array allowing to study potato gene expression at a much broader level (Kloosterman et al. 2008). This microarray was, for example, used to study transcriptional changes following 3 days of GA3-treatment of wild type and AtCKX1 overexpressing tuber buds, respectively (Hartmann et al. 2011). At this time point, approx. 30 % of wild-type tuber buds had started sprouting, while AtCKX1 tubers did not. The data analysis revealed that in wild-type tuber buds, expression of most cell cycle-related genes was increased which was accompanied by increased expression of genes involved in replication and protein biosynthesis. In addition, expression of transcripts coding for components of the cytoskeleton, cell wall and such which are involved in cell wall modification was found to be exclusively stimulated in wild type, consistent with an increased cell division and proliferation rate during resumption of growth. Further differences between the two genotypes could be assigned to auxin and ethylene signalling events which contributed to the model shown in Fig. 3.
Together, an improved picture of molecular events associated with tuber bud break and sprouting has emerged; however, the order of events is still far from being understood and the key players are not known so far. In 2011, a high-quality genome sequence of a double-haploid potato clone has been published (The Potato Genome Sequencing Consortium 2011) which is an important resource for breeding programs, functional genomics and gene annotation. This together with full genome microarrays and detailed anatomical studies will help in further elucidating the molecular mechanisms underlying bud break and initiation of tuber sprouting.
Work in our laboratory was supported by grants from BMBF (GABI, Biosicherheit), EU (EU-SOL project no. FOOD–CT–2006–016214) and FNR (HotPot). We wish to thank our co-workers D. Hofius, M. Senning, A. Hartmann, S. Ferreira, C. Prasch and S. Reid for their excellent work during the last years. We are grateful to N. Sauer for providing the AtSuc2::GFP construct as well as to M. Melzer and B. Claus for help with confocal microscopy.