GIGANTEA – an emerging story

1GIGANTEA (GI), the unique plant specific nuclear protein, although identified way back as a late flowering mutant (gi) in Arabidopsis thaliana (At), its precise biochemical roles are far from being understood. The genomic organization of GI was evident after it was fine-mapped to chromosome 1 and subsequently, the GI cDNA was isolated. The genomic locus of GI of At consists of 14 exons and encodes for a protein of 1173 amino acids. GI expression is ubiquitous and is detected throughout various stages of plant development indicative of its involvement in several functions summarized in Figure 1. It is interesting to note the ubiquitous expression of GI that reflect upon its pleiotropic roles in multitude of responses ranging from breaking of seed dormancy, hypocotyl elongation, initiating the circadian rhythm in seeds to the setting of fruits in the adult plant. Many of the above listed responses integrate information from the light input and external temperature, making it an interesting but complicated area of plant science.

2Experiments aimed at understanding the abundance of the transcript and the protein are typically carried out in controlled cabinets, where the subjective time of the diurnal cycle are referred as the Zeitgeber time (ZT). Both the GI transcript and GI protein are under the control of diurnal regulation. Under long day (LD) growth cycle of 16 h light and 8 h dark (16 hL/8 hD), the GI mRNA peaks at ZT 10 and shows a trough at ZT 0, while under short day (SD) cycle of 8 hL/16 hD, GI transcript level peaks at ZT 8. The GI protein abundance also follows a similar pattern to its transcript accumulation. The regulation of GI is important for the control of circadian clock and several genes such as FLAVIN-BINDING, KELCH REPEAT, F BOX 1 (FKF1), a blue light photoreceptor, and CYCLING DOF FACTORs (CDFs), which are involved in the transcription of a flowering time regulator CONSTANS (CO; ). In addition, the diurnal regulation of the protein might also play an important role in the diurnal control of stomatal opening.

3In order to assign a function to GI, it was of interest to enumerate its precise sub-cellular localization. Therefore, N-terminal GFP fusion of GI was constructed and transiently transfected in onion epidermal cells. The fluorescence microscopy of the fusion protein for the first time demonstrated that GI is predominantly localized to the nuclei and forms nuclear bodies. Later, the GI protein was also found to be localized in the nucleus of different cell types of transgenic At plants over-expressing GI:GFP. Four clusters of basic amino acids resembling the nuclear localization signal (NLS) in the GI sequence explained its nuclear abundance. GI has been shown to form nuclear bodies of diverse numbers, size, and shape. To understand the molecular composition of GI nuclear bodies, attempts were made to evaluate the co-localization of GI with marker proteins of known sub-nuclear compartments such as heterochromatin bundles, nucleoli, spliceosome, and Cajal bodies. This piece of work demonstrated that GI did not localize to any of the above known nuclear compartments. This suggested that GI might not have role in processes such as biogenesis of rRNA and snRNP, pre-mRNA splicing, and protein degradation. Since these co-localization studies were carried out in Arabidopsis mesophyll protoplasts using a transient over-expression method, it does not mimic the exact physiological environment. Furthermore, the association and dissociation rate of proteins to nuclear bodies has been shown to be affected by specific post-translational modifications. The spatio-temporal mis-localization of proteins can also affect its post-translational modifications. With so many complexities involved, stable transgenic lines expressing fluorescent tagged marker proteins and GI under their native promoters would be an impressive feat to achieve in order to understand the molecular composition of the GI complexes. Understanding the molecular composition of GI nuclear bodies (NBs) at different diurnal time-points would be a valuable asset.

4The formation of GI nuclear bodies is light dependent since, the sequestration of GI into NBs is facilitated by EARLY FLOWERING 4 (ELF4) during the day, thus inhibiting the CO transcription. Likewise, EARLY FLOWERING 3 (ELF3) promotes the interaction of GI and CONSTITUTIVE PHOTOMORPHOGENESIS 1 (COP1) to form NBs which degrade GI in planta. The dynamic association of GI with heterogenous nuclear bodies during the light to dark transition needs to be evaluated. In other words, the question still remains, if GI associates and dissociates in a light dependent manner on a core complex within the nuclei based on its differential post-translational modification status.

5Although studies showed the presence of GI predominantly in the nuclei, in silico analysis predicted the presence of 11 transmembrane domains in AtGI which argues in favor of a possible membrane localization. Furthermore, membrane localized GI possibly has a role in the regulation of ion channels during salt stress and stomatal opening as seen in phototropins. Purified recombinant GI from Escherichia coli when subjected to electron microscopic study, revealed a tetrameric arrangement in vitro. However, its quaternary structure in vivo is still unclear. This multimeric organization of a protein would not only offer more epitopes for interactions with diverse regulators but also would offer additional layers of control on its stability.

6The gi mutants were described as late flowering mutants for the first time. There are several gi mutants described in literature such as gi-1, gi-2, gi-3, gi-4, gi-5, gi-6, gi-11, gi-12, gi-100, gi-200, gi-201, gi-596, and gi-611 (summarized in Table 1; Figure 2). Some of the gi mutants were shown to influence the activity of the circadian clock, while others alter diverse responses. The gi-1 allele, lacking the C-terminal part of GI, was responsible for shortening the period of the clock, while the gi-2 allele, lacking both the C-terminal and the central region of GI, lengthened the period. While the gi-1 mutation shortened the period of CAB2 expression, the gi-2 mutation lengthened the period of CAB2 expression. This suggests that the central region of the protein or the terminal half of the protein most probably fine-tunes the period length of the circadian clock.

7The gi-2 mutant at higher temperature of about 28°C showed longer hypocotyl and flowered earlier in comparison to the plants grown at temperatures of 18 and 22°C. Even though higher temperature were shown to regulate flowering (at 18, 22, 28°C) and hypocotyl elongation (at 22, 28°C) in gi-2 mutant, it was almost equally sensitive toward vernalization as in WT. Vernalization is the exposure of plants to prolonged cold temperature that leads to earlier flowering cue in Arabidopsis. This implies that probably GI regulates flowering using a vernalization-independent pathway.

8The alleles of GI are the result of random mutagenesis or T-DNA insertion which have aided in understanding its various functions. Alleles such as gi-1, gi-2, gi-3, and gi-6 introduce premature stop codon whereas gi-4 and gi-5 most probably alter the C-terminus of the protein due to frame-shift mutations. No GI expression was detected in the gi-11 and gi-201 alleles carrying T-DNA insertion. The gi-100 mutation, originally identified in a red light screen, also contained a T-DNA insertion, but produced a truncated transcript of about 2 kb due to the absence of the 3′ end of GI. The transcript level in gi-1, gi-2, and gi-3 is lower compared to that of gi-4, gi-5, gi-6, and gi-100, which show similar or higher levels compared to their respective WT. The role of GI in blue light dependent hypocotyl elongation was revealed using the gi-200 allele, consisting of a substitution of the serine 932.

9Various deletions in GI sequences and its phenotypes are summarized in Table 1. After analyzing the data depicted in Table 1, it is evident that any deletion in GI mostly causes defects in the flowering time, circadian clock, and control of hypocotyl elongation. In the gi-4 mutant, improper splicing leads to a loss of 90 amino acids from the C-terminus causing late flowering. This deletion also causes the over-expression of its own transcript suggesting that the C-terminal 90 amino acids are required for its auto-regulation and flowering time. The abundance of the gi-4 transcript could be due to increased stability or decreased decay which needs to be verified. Since GI stimulates CO transcription, this C-terminal domain of GI might be acting as an enhancer of CO transcription or involved in the recruitment of activators to the CO promoter.

10The seeds of Wassilewskija (Ws) ecotype expressing CAB:LUC were mutagenized and screened for altered period length. Two novel alleles gi-596 and gi-611 were identified in this screen. In the gi-596 allele, mutation caused by the substitution of the serine residue at 191 position to phenylalanine (S191F) did not affect the flowering-time although the period length of the circadian clock is lengthened and longer hypocotyl was observed under both red and blue light conditions. This suggests that the serine 191 residue might have an important role in photoreceptor signaling. On the contrary, the mutation in gi-611 allele was mapped to the lysine 281. This allele showed significantly early flowering in SDs suggesting that this lysine in WT is involved in decelerating the flowering time. Since the Ws ecotype is a natural null for the high light sensor Phytochrome D, the phenotype observed could be a combinatorial effect of the lack of this photoreceptor and the respective mutations in GI allele. It would be interesting to evaluate if these alleles in Col background would show the similar light dependent effect to rule out the involvement and interaction of PHYD in this process. Both the positions, Lys281 and Ser191 are conserved in the Col-0 and Ler-0 ecotypes and thus, the role of these residues could be confirmed by the expression of the respective GI alleles containing the substitutions in these ecotypes to determine the importance of these mutated residues.

11Defects in the circadian clock components have been found to affect the GI transcription. CIRCADIAN CLOCK ASSOCIATED 1 (CCA1), a core component of the circadian clock, reduces the GI expression by binding to CCA1-binding site on GI promoter. GI transcript, thus accumulates toward the middle of the day, when CCA1 expression is repressed by TIMING OF CAB EXPRESSION 1 (TOC1). The rhythmicity of GI transcript level is lost in elf3 mutant in continuous light (LL) suggesting that ELF3 might also regulate the GI mRNA abundance. Since CCA1 and ELF3 have been proposed to physically interact to control flowering time and hypocotyl elongation, it would be interesting to investigate the coordinated involvement of these two proteins in the regulation of GI transcription. Clock proteins, such as, LIGHT-REGULATED WD 1 and 2 (LWD1 and LWD2) also affect the GI expression pattern, since in lwd1lwd2 double mutant GI transcript is most abundant at ZT 6 instead of ZT 10. The two proteins being very similar (∼90% identity) possess functional redundancy, evident from single mutants being phenotypically similar to WT. Another clock associated gene, TIME FOR COFFEE (TIC) is also known to regulate the rhythmicity of GI in Arabidopsis. In tic mutants, GI transcript level is lower and the peak is shifted ∼4 h earlier than in WT plants. Since in both the lwd1lwd2 and tic mutants the GI expression is shifted to ZT6, it suggests that the activities of both the proteins might be required for the repression of the GI transcription in the morning. pseudo-response regulators (PRRs), namely, PRR5, PRR7, and PRR9 also have been proposed to regulate GI expression and therefore, flowering time via the CO-FT module. Epistatic analysis and mutant combinations between LWD1/2, PRRs, and TIC would be beneficial to explain the additive roles of these genes products and the genetic hierarchy of the genes regulating the inhibition of GI expression. The expression of GI at the wrong time of the diurnal cycle is known to cause flowering time defects in At. These mutants might behave as late flowering due to the untimely expression of GI. Although a lot is known from the transcript analysis, the work at the protein level is far from being understood due to the unavailability of a GI anti-serum that could detect the endogenous GI protein. The detailed post-translational regulation of GI is explained in the Section “Post-Translational Regulation of GIGANTEA.”

12Several studies have demonstrated that light quality and quantity influence GI transcription, although systematic studies involving changes in the light fluence and wavelength to evaluate GI expression is yet to be carried out. In Arabidopsis, upon transition to night, GI mRNA level decreases with a half-life of about 1 h irrespective of the photoperiod. A significant light dependent down-regulation is also detected in the legume Medicago truncatula suggesting a similar mechanism might coordinate light sensing with transcriptional activity. GI mRNA accumulation pattern in both Arabidopsis and M. truncatula showed a secondary peak at ZT 2 under SDs as well as LDs. This peak could be the result of an acute response to light. A similar peak of GI mRNA at ZT 2 has also been documented in plants grown under blue light. The role of blue light in the regulation of this early secondary peak of GI needs to be thoroughly examined using mutants that are affected in blue light signaling. This would clarify if the peak at ZT 2 is due to photoreceptors or secondary signaling components involved in blue light signaling. The peak expression of GI is delayed by approximately 4 h in plants grown in low red:far-red (R:FR) light conditions in comparison to plants grown in white light condition. This indicated that the photoreceptors and their activity are fine-tuning the timing and quantity of the GI transcript. The accumulation of the GI protein in the morning around ZT 3–4 and its consequence in plant development has not been studied yet, that needs to be evaluated in depth.

13Besides light, temperature too has been found to regulate GI expression. Warmer temperature of 28°C up-regulates GI mRNA level as compared to the cooler temperatures of 12°C at dawn. The night time repression of GI transcription was shown to be temperature dependent and regulated by evening complex (EC) night time repressor constituted of ELF3, ELF4, and LUX ARRHYTHMO (LUX;; ). The EC night time repressor was revealed to bind to the GI promoter through LUX binding site (LBS).

14GIGANTEA has been proposed to regulate its own expression, since the mutants, gi-1 and gi-2, have lower expression of the GI alleles, approximately 40 and 20% of the WT transcript, respectively. But this auto-regulatory role of GI transcription is contradictory, since, gi-4 and gi-6 lines show ∼30% higher expression of GI compared to its WT. This effect could be either due to the difference in the ecotypes or differential regulation of the transcript stability. Another question worth investigating would be the abundance of the mutant proteins produced in each mutant, which would require a functional GI antiserum. The positive or negative auto-regulatory role suggests that mutations at different residues in the coding sequence can influence the abundance of transcriptional enhancers or repressors, affecting GI expression.

15Over-expression of GI leads to the constitutive accumulation of the GI transcript throughout the photoperiod. Despite its constant expression level, GI protein follows a cyclic pattern of accumulation in both LDs and SDs. This is suggestive of the degradation of the GI protein. GI was found to be ubiquitinated upon dusk, a pre-requisite for its degradation via the 26S proteasome mechanism. In the dark phase, nuclear GI abundance has been shown to be regulated by the E3 ubiquitin ligase activity of COP1 and ELF3. The interaction between COP1 and GI is ELF3 dependent, where ELF3 serves as an adaptor protein. The shuttling of COP1 between the nucleus and the cytoplasm is regulated by light. COP1 being nuclear localized in the night phase makes it competent for COP1–ELF3 mediated degradation of GI through 26S proteasome.

16Upon heat shock GI is SUMOylated. It has been proposed that SUMOylation prevents the degradation of GI, thus enhancing its abundance. GI accumulation has been correlated with earlier flowering under heat stress. The identification of SUMOylation and ubiquitination sites in GI that alter its stability and degradation could be of pivotal importance in manipulating flowering time of crop plants. Current knowledge on the transcriptional and post-translational regulation of GI is presented schematically in Figure 3.

17GIGANTEA plays multiple roles throughout plant development. Its functions in processes such as light signaling, circadian clock regulation, flowering time control, chlorophyll accumulation, sugar metabolism, and stress tolerance have been discussed below.

18Photoreceptors such as phytochromes, cryptochromes, UV-light receptor, and phototropins help plants to sense variations in the light quality, quantity, and direction. The red and far-red light photoreceptors, phytochromes, are encoded by a multigene family, PhyA–E in Arabidopsis. While PhyA is the far-red light receptor, PhyB–E function as red light receptors with PhyB playing a predominant role. They mediate very-low-fluence responses (VLFRs), low-fluence responses (LFRs), and the high-irradiance responses (HIRs), with reference to the photon flux density. Like phyB-9 mutant, gi-100 also shows elongated hypocotyl when grown under saturated red light. Neither the genes nor the proteins abundance of PhyA and PhyB are influenced in gi-100. Therefore, GI was suggested to function downstream of PhyA and PhyB. Mutation in GI leads to decreased VLFR under FR light suggesting its role in PhyA signaling. The gi mutants showed reduced seed germination and cotyledon unfolding in FR light conditions. These phenotypes are rescued by over-expression of GI. This suggested that GI might have a positive role specifically in PhyA mediated VLFR. GI also has a role in regulating flowering in low R:FR ratio which might be attributed to PhyA signaling. Both PhyA and PhyB form NBs like GI. It would be interesting to determine if Phys and GI are present in the same sub-nuclear complexes and the localization of GI in the NBs alters the Phy-mediated functions.

19The gi mutants showed longer hypocotyl in comparison to WT under blue light. Earlier, it had been suggested that GI may be either a positive regulator of TOC1 or act parallel to it for the regulation of hypocotyl elongation. Since only gi not toc1 mutants show the longer hypocotyl in blue light, it can be inferred that GI does not regulate TOC1 for hypocotyl elongation.

20The circadian clock controls many processes depending on the length of the day and night cycle in an organism. In plants, the rhythmic expressions of various genes are influenced by the circadian clock, thereby regulating functions such as elongation of hypocotyl, petioles and inflorescence stem, movement of cotyledon and leaf, and flowering time. CCA1, LATE ELONGATED HYPOCOTYL (LHY), and TOC1 are the core components of circadian oscillator in plants. In 2005, the clock was proposed to be an interlocking network of proteins working in a feedback loop. According to the new model of clock, while the morning elements LHY and CCA1 repress TOC1 transcription, the evening element TOC1 down-regulates LHY/CCA1 accumulation, differing with the earlier observations.

21To understand the circadian rhythm in Arabidopsis, the ESPRESSO Quantitative Trait Loci (QTL) was generated from the cross between Ler and Cvi ecotypes. Ler and Cvi ecotypes were suggested to comprise of an even distribution of alleles involved in the shortening and lengthening of period, since the progeny of their cross generated lines which had period length both longer and shorter than the parents. GI was identified as one of the genes that could be responsible for regulating the rhythms of cotyledon movement. The gi mutants have diverse circadian periods than WT concluding that GI has a role in period length regulation. Mutation in GI affects CHLOROPHYLL A/B-BINDING PROTEIN 2 (CAB2) gene expression which is also under the control of circadian clock.

22Soon after a day of imbibition of seeds, GI is required for initiating the rhythmicity of the circadian clock. Mutations in the GI locus affect the CCA1 and LHY gene expression in both LDs and SDs conditions. A recent study proposed that both the nuclear and cytosolic GI are required to positively and negatively regulate LHY expression, respectively, that fine-tunes the clock function. Over-expression or mutations of CCA1 and LHY disrupted the GI expression. Accordingly, the double mutant of LHY and CCA1 showed early abundance of GI transcript. It suggests that GI operates in a feedback loop as a component to maintain the rhythmicity and period length of the clock.

23The established LHY/CCA1-TOC1 module of the clock could not explain the experimental data like the time difference of about 12 h between LHY/CCA1 abundance in morning and TOC1 accumulation in evening. It was therefore proposed that LHY/CCA1-TOC1 module comprises of other components. One of the components was predicted to be GI, whose expression followed the same pattern as predicted by the in silico analysis and was subsequently experimentally confirmed. Further work suggested that GI alone would not be able to regulate the observed time difference. TOC1 in turn is regulated by GI along with ZEITLUPE (ZTL), an F-box protein. ZTL is a blue light photoreceptor which is stabilized by its interaction with GI and Heat Shock Protein 90 (HSP90). Together the ZTL-GI complex control TOC1 level.

24Temperature compensation is an important characteristic of the circadian clock to maintain the rhythm over a range of environmental temperature. GI was recognized as a candidate regulating temperature compensation effect, especially at higher temperatures. Since fluctuations in the temperature regulate the abundance of GI transcript, it could be plausible that GI and temperature sensing mechanism crosstalk and feedback each other.

25Arabidopsis thaliana dawn and dusk, GI regulates the clock rhythm along with ELF4. GI was also required for iron-deficiency induced long circadian clock rhythm. Reduced depolymerization of actin filament caused the period of the circadian clock to shorten, as evident from the shortened period of GI expression. Since GI expression is under the control of the circadian clock, GI accumulation pattern has been exploited to screen for novel clock mutants. Many components that mediate between GI and the clock are still to be unraveled. The role of GI in the regulation of the clock documented till date is summarized in Figure 4.

26GIGANTEA is a major mediator between the circadian clock and the master regulator of photoperiodic flowering time control, CO. GI upregulates CO transcription, thereby accelerating time required to flower. showed that a novel mutant, gi-3, is epistatic to CO and FLOWERING LOCUS T (FT) way back. Mutation in GI led to a decrease in the accumulation of CO mRNA without affecting its cycling phase compared to its WT that led to delayed flowering. Mutants in the GI locus or over-expressors of GI did not discriminate day-length for flowering. Accordingly, gi mutants were later flowering and over-expressors were earlier in both LDs and SDs.

27During dawn, CO transcription is repressed by the combinatorial activity of the DOF transcription repressors bound to the CO promoter. In LDs, the expression of FKF1 and GI coincide at ZT10. Therefore, toward the middle of the day the accumulation of GI along with FKF1 forms a complex competent to degrade the DOF factors. This elevates the CO transcription, thereby leading to FT expression. While in SDs, since FKF1 accumulates 3 h after GI peaks, it does not allow the formation of the degradation complex, therefore leading to a low abundance of CO transcript. This photoperiod pathway where GI regulates FT expression in a CO-dependent manner is schematically depicted in Figure 5. GI regulates the abundance of FKF1, which is involved in the proteasomal degradation of proteins. Post-transcriptionally, GI also controls the sub-cellular level of CYCLING DOF FACTOR 2 (CDF2; ). FKF1 belongs to a family of F-Box proteins containing two other candidates – LOV KELCH Protein 2 (LKP2) and ZTL. The blue light dependent interaction between GI and FKF1 is mediated by the LOV (Light, Oxygen, or Voltage) domain of FKF1 and the amino-terminal of GI in vivo. The gi-100 mutant is later flowering than the F-Box triple mutant fkf1 ztl-4 lkp2-1. This might be due to the presence of GI in fkf1 ztl-4 lkp2-1, which down-regulates the abundance of CDF transcripts, or the presence of an additional layer of control by GI bypassing the triple F-Box module.

28There are at least two independent mechanisms through which GI regulates FT expression independent of CO. While the first mechanism involves microRNA, the second mechanism is through the binding of GI to the FT promoter. The microRNA based control involves miRNA172, which is positively regulated in the presence of GI. The miR172 inhibits the expression of TARGET OF EAT1 (TOE1), an APETALA 2 (AP2)-related transcriptional repressor of FT. In the recent past, expression of GI specifically in the mesophyll or vascular tissue was carried out. This rescued the late-flowering phenotype of gi-2 under both day length conditions and two different temperatures of 16 and 23°C. The expression of GI in mesophyll and vascular tissue was done using tissue specific promoters LIGHT-HARVESTING COMPLEX B2.1 (pLhCB2.1) and SUCROSE TRANSPORTER 2 (pSUC2), respectively. While expression pattern of GI under the control of pLhCB2.1 is altered and peaked at ZT 0, GI expressed under the phloem specific promoter led to the over-expression of the transcript with peak at ZT 10. The FT transcript level was up-regulated without an increase in CO mRNA in both day-length conditions. GI was shown to binds to the FT transcriptional repressors such as SHORT VEGETATIVE PHASE (SVP), TEMPRANILLO 1 (TEM1), and TEMPRANILLO 2 (TEM2), and their specific target regions within the FT promoter in the mesophyll, thereby relieving the repression and promoting FT transcription. The degradation of the FT transcriptional repressors or the unavailability of their binding sites on the FT promoters due to the presence of GI could lead to the abundance of the FT transcript. FT expressed in the vascular tissue normally triggers flowering. Since GI expressed in mesophyll accelerated flowering, elevating the FT level in vasculature, the signal from mesophyll GI most likely induces CO transcription in vasculature. Alternatively, the GI could be transported to the vascular tissues and induce the photoperiod module which needs to be investigated.

29Expression of 35S::GI:GFP in gi-3 plants complemented the late flowering phenotype of gi-3. On the contrary, expressing the 35S::GFP:GI in gi-3 caused later flowering compared to the background lines indicating that the N-terminal fusion of GI might be either non-functional or might not be imported into the nucleus. In the transgenic line expressing C-terminal fusion, the fusion protein was localized to the nucleus and formed NBs. In an independent study, transgenic plants expressing glucocorticoid receptor (GR) fusion of GI flowered with ∼20 leaves less when treated with dexamethasone, compared to its untreated control which flowered with ∼55 leaves under LDs. In 15 day old seedlings, the induction of flowering time genes like CO and FT took place ∼28 h after dexamethasone treatment causing early flowering. This indicates that cytoplasmic retention of GI most probably delays time to flower. Mutation in GI is epistatic to mutation in ELF4 and together regulate CO expression. Recent studies showed that ELF4 sequesters GI into nuclear bodies, thereby preventing GI to associate with the CO promoter. It would be interesting to know the nature of the GI nuclear bodies and the components there in, using biochemical approach followed by mass spectrometric analysis.

30GIGANTEA interacts with N-terminal tetracopeptide domains of SPINDLY (SPY), a plant O-linked β-N-acetylglucosamine transferase, and antagonizes its activity, thereby, promoting flowering. Acetylglucosamine transferases have role in the addition of acetylglucosamine residues to proteins, which often competes with phosphorylation. This suggests that sugar modification may function as an important event in flowering time regulation. The known pathways through which GI regulates flowering are summarized in the Figure 6.

31Besides flowering time, circadian clock, and light signaling regulation, GI has been implicated in other processes such as, sucrose signaling, starch accumulation, and stress tolerance. The control of cotyledon movement, transpiration, and hypocotyl elongation responses have been shown to be attributed to the concerted activity of SPY and GI. The precise nature of this interaction is still unclear. However, GI functions antagonistically to SPY. The interaction of GI with SPY and ELF4 independently regulates hypocotyl length, where mutation in ELF4 and SPY are epistatic to gi-2.

32GIGANTEA has been demonstrated to play a role between sucrose signaling and the circadian clock while grown in DD. Plants entrained in LD when shifted to DD, maintained the rhythmic GI expression exclusively in the presence of sucrose suggesting light independent control of GI rhythmicity. Although contradictory evidence on role of sucrose on GI expression has been reported, sucrose seems to affect the GI expression through SENSITIVE TO FREEZING6 (SFR6) locus. More precise experiments are required to unravel this mechanism. In the leaves of Arabidopsis, starch accumulation is elevated in the gi mutants. On the contrary, presence of multiple copies of GI led to starch accumulation in the progeny of a cross between A. thaliana and A. arenosa, suggesting the antagonistic role of GI in these plants.

33The gi-3 mutants showed higher tolerance capacity to redox cycling agent, paraquat, and H2O2. Tolerance against paraquat is counteracted by the exogenously applied polyamines such as spermidine, spermine, and putrescine. Paraquat treatment upregulated endogenous levels of putrescine in gi-3 and WT. Since exogenous application of polyamines is effective for the resistance, the mechanism of the transporters during this stress needs attention. Oxidative stress due to herbicide imazethapyr has been shown to increase GI abundance and cause earlier flowering by ∼4 days. The mechanism behind higher tolerance to oxidative stress mediated by GI is still unclear.

34showed that gi mutants, gi-3, gi-4, gi-5, and gi-6, have more chlorophyll accumulation in comparison to WT in presence of paraquat. Even treatment with nitric oxide (NO) reduces the GI mRNA abundance and increases the chlorophyll content. In both the cases above, lower abundance of functional GI can be correlated to higher accumulation of chlorophyll. The role of GI in regulating the chlorophyll content needs to be studied in mutants and over-expressors of GI. Chlorophyll accumulation in allotetraploid, obtained by a cross between A. thaliana and A. arenosa, is higher than the WT individuals. The starch and chlorophyll accumulation in allotetraploids is exactly opposite in comparison to that seen in A. thaliana. The reverse trend might be due to post-transcriptional silencing posed by the presence of multiple homologous sequences of GI transcript, essentially a co-suppression phenomenon.

35Dynamin, a GTPase having role in vesicle recycling during endocytosis, was found to interact with TAP tagged GI in rice. Although mutation in dynamin gene did not have any effect on the flowering time, it showed aerial rosette phenotype in Arabidopsis. In Arabidopsis, GI has been found to be involved in setting of fruits. No significant association of the GI haplogroup was detected with days to flower, petiole length, and inflorescence height. A significant association was observed between one haplogroup with fruit set, producing 14% more fruit than other haplogroups. Such studies in the crop plants could help in increasing the yield.

36GIGANTEA mRNA levels increases about five- to eightfold in the cold treated Arabidopsis plants suggesting that GI is a cold-responsive gene. The flowering time of gi mutants was further delayed when exposed to low temperature compared to WT. C-repeat Binding proteins (CBFs) have been known to regulate various genes responsive to cold and are implicated in cold stress tolerance. On the contrary,, it was revealed that GI regulates cold acclimation through CBF-independent pathway. The ability to tolerate and acclimatize toward cold is reduced in gi mutants suggesting the protective role of GI in cold tolerance.

37Recently, the role of GI under salt stress was documented. Although, salt stress did not affect the GI expression, it affected the GI protein stability in pGI::GI-HA transgenics. It seems plausible that there is a mechanism at the post-translational level that regulates GI abundance. GI also regulated the activities of the proteins involved in the salt stress tolerance. It interacts with Salt Overly Sensitive 2 (SOS2) directly and inhibits the activity of SOS1, a Na+/H+ anti-porter. Therefore, GI is a negative regulator of salt tolerance and is degraded during salt stress. According to a recent model, plants under salt stress would flower later than when grown in normal growth conditions reasoned for the degradation of GI.

38In At and other plants, the tolerance to higher salinity, enhanced cold, and sustained drought were manifested by the increase of sub-cellular level of abscisic acid (ABA). Recent reports indicated that GI has role in ABA-dependent drought escape tolerance. It suggests that the GI regulation of salt and cold stress tolerance could very likely be ABA-mediated. Drought stress up-regulates GI transcription and in turn, increases the abundance of miR172E variant. WRKY DNA binding protein 44 (WRKY44) was found to be suppressed by GI in drought stress and interact with TOE1. GI-miR172-WRKY44 were proposed to be in the same pathway possibly associated with drought stress tolerance. On the same line of thinking, the light dependent GI-mediated stomatal opening response could be ABA mediated. GI also has a role in wall in-growth deposition in phloem parenchyma transfer cells in A. thaliana in response to high light and cold stress.

39GIGANTEA homologs in prokaryotes, fungi, mosses, or animals have not been reported as yet. GI homolog has been shown to be absent in the green unicellular alga Ostreococcus tauri. Evolution of GI has been correlated with the evolution of higher plants from liverwort onward, although being absent in mosses. The evolution of GI can be proposed to have taken place alongside the origin of land plants. The role of GI in light signaling, circadian clock control, and flowering time regulation seems to be conserved across the plant kingdom, as inferred from the various studies to understand the role of GI homologs in Arabidopsis. GI homologs from the non-flowering and flowering plants have been summarized below.

40The GI-FKF1 interaction and function has been recently shown to be conserved in the liverwort Marchantia polymorpha. The LOV domain of FKF1, which has been found to be required for the interaction with GI, contains a conserved cysteine residue in AtGI and MpGI important for its blue light dependent functions. GI-FKF1 module has been proposed to be important for the transition of plants from water to land and the evolution of vascular system. The Marchantia polymorpha ortholog of GI, MpGI, has been shown to partially rescue the late flowering phenotype of Arabidopsis gi mutant suggesting the functional conservation of GI across the plant kingdom. The FKF1 homologs have been shown to be present in A. thaliana (AtFKF1, AtZTL, and AtLKP2), Oryza sativa (OsFKF1, OsZTL1, and OsZTL2), Glycine max (GmFKF1, GmZTL1, and GmZTL2), Triticum aestivum (TaFKF1 and TaZTL), Allium cepa (AcFKF1 and AcZTL), Mesembryanthemum crystallinum (McFKF1 and McZTL), and Selaginella moellendorffii (SmFKF; ). The GI counterparts in the above mentioned species are also conserved. This shows that GI-FKF1 module has been conserved since the primitive time and thus might be have been important in shaping the development of higher plant. This light perceiving module needs to be studied in detail to understand the evolution of various functions and residues along with putative domains required to carry out these functions in plants. The conserved interaction of GI with FKF1 has been shown to be conserved in soybean.

41GIGANTEA ortholog of Picea abies, PaGI and AtGI share 58% identity and 72% similarity. Natural variations in GI have been correlated to clinal variations in the different populations of close relative of the Scandinavian Norway spruce. Over-expression of PaGI in WT Arabidopsis did not show any phenotypical changes. However, when PaGI was over-expressed in gi-2 mutant, it partially rescued the late flowering phenotype and flowered at the same time as WT plants suggesting that PaGI and AtGI are functionally conserved to large extent. The strength of the over-expression has neither been verified at the gene expression level nor the protein accumulation level and therefore needs to be confirmed.

42GIGANTEA homolog in Barley was identified using BLAST searches and later confirmed by Southern hybridization analyses. Only one homolog was detected in barley. Barley GI (HvGI) has ∼94 and ∼79% similarity with OsGI and AtGI, respectively. Barley, being a long-day plant, its GI expression followed the pattern documented for AtGI. Characteristically, in SDs, the peak of expression was noticed about 6–9 h after dawn whereas, in LDs, the peak is shifted to 15 h after dawn. The mutation in HvELF3 (mat-a.8), a 4 bp deletion causing frame shift and premature stop codon, was found in the barley cultivar Mari. This mutation led to the up-regulation of HvGI transcription and was found to be the reason for early flowering phenotype in this cultivar. Although, post-translational interaction between AtELF3 and AtGI is known, no evidence is there in Arabidopsis suggesting the transcriptional regulation of GI by ELF3.

43The AtGI homolog of L. gibba, LgGIH1, a LD plant, plays a pivotal role in its circadian clock control, since the LgGIH1 knockdown resulted in the arrhythmic gene expression phenotype in plants. Earlier reports suggested that AtGI and LgGIH1 followed similar expression pattern in both LD and LL conditions. The function of GI and ELF3 homologs are shown to be conserved between Arabidopsis and L. gibba.

44Maize is a SD plant, which has two diurnally regulated GI homologs called gigantea of Z. mays 1a and 1b (gi1 and 2) due to tetraploidy events and genome evolution expressed in leaves. Among the two homologs, the gigantea1 transcript was highly expressed. Mutation in gi1 caused early flowering in LD but had lesser effects in SD. The gi1 mutation also increases plant height and alters the timing of the vegetative phase. The early flowering phenotype of gi1 mutant was due to the conserved pathway involving the up-regulation of CO-like flowering regulatory gene called CO of Z. mays1 (conz1) and FT-like floral activator gene named Z. mays centroradialis8 (zcn8).

45GIGANTEA ortholog of B. distachyon (BdGI) is rhythmically regulated by the circadian clock and up-regulated by both cold and dark. BdGI was identified by BLAST search followed by Southern hybridization analysis. The BdGI transcript level was found to be oscillating in both SD and LD conditions, like AtGI. While the lowest transcript level in both SD and LD was at ZT 0, the peak in SD was at ZT 8 and in LD was at ZT 12. BdGI shares 65% identity with AtGI. BdGI, like AtGI, is a nuclear localizing protein and interacts with COP1 and ZTL proteins as evident from the yeast two-hybrid assays. BdGI complements the late flowering phenotype of Arabidopsis gi-2 mutant suggesting the conserved function of GI in monocots and dicots. While PhyC does not show a pronounced effect in the LD model Arabidopsis, it causes late flowering in this temperate grass. In phyC mutants, GI expression is almost undetectable. The low GI expression could explain the lower abundance of the homologs of CO and FT. The delayed flowering phenotype suggests that the photoperiodic flowering pathway through GI is conserved in grasses as in Arabidopsis.

46Rice and Arabidopsis GI share 67% similarity and the NLS are quite conserved between OsGI and AtGI. GI expression pattern was similar in both rice and At and similarly, OsGI acts as a positive regulator of Hd1 (CO homolog of rice; ). It controls the rhythm of nearly 27000 genes in rice. When gi mutants are grown in field conditions, sucrose, and starch content increases, chlorophyll content decreases, stomatal conductance increases, panicle, and spikelet number increases and fertility was reduced. OsGI was shown to be involved in ETR2 (ethylene receptor)-dependent late flowering phenotype and starch accumulation thus, regulating the developmental transition based on the availability of energy.

47GIGANTEA ortholog was shown to be closer to eudicot GI sequence than the monocot sequences.

48Wheat is a LD plant and has been shown to have an ortholog of AtGI, referred as TaGI1. TaGI1 has ∼81 and 63% identity with OsGI and AtGI, respectively. The TaGI1 follow rhythmic pattern of expression similar to that of Arabidopsis and over-expression of TaGI1 complements late flowering phenotype of gi-2 mutant Arabidopsis. TaGI was also associated with “earliness phenotype” of wheat which helps in its adaptation and increase in yield in varied environmental conditions.

49A crassulacean acid metabolism plant, Mesembryanthemum crystallinum, also showed a rhythmic expression of the orthologs of GI, McGI. The ortholog was identified using BLAST search and later isolated and sequenced. McGI expression peaks at ZT 9 similar to AtGI.

50PnGI protein shares 70 and 67% identity with AtGI and OsGI protein, respectively. PnGI mRNA is also circadian regulated like the other GI orthologs. Over-expression of PnGI led to altered period length affecting the expression pattern of downstream genes. Pharbitis nil is a SD plant, and like OsGI, PnGI inhibits the expression of PnFT (FT homolog of morning glory).

51LATE BLOOMER 1 (LATE1) is the AtGI ortholog in pea, a LD plant, and follows a rhythmic pattern of expression as seen in Arabidopsis. LATE 1 was shown to be regulating the pea homologs of Arabidopsis circadian clock genes. Apart from its role in flowering time and circadian clock regulation, LATE1 has been implicated in Phy-B dependent seed de-etiolation in red light. LATE1 was found to regulate circadian clock gene expression in constant light and dark. In LD and SD, LATE1 was shown to control a mobile signal that regulates the flowering time.

52In another instance, expression of antisense AtGI gene, under the constitutive 35S promoter, led to delayed bolting in LDs, proving that GI has an important role in photoperiodic flowering time control in this plant. The bolting and flowering time was delayed by 17 and 18 days, respectively, with respect to WT plants.

53Glycine max, a SD plant, has two GI orthologs – GmGIa and GmGIb. Both the GmGI sequences have nearly 70–91% identity to eudicot and monocot genes. Like OsGI, GmGI regulated GmFT paralogs. GmGI has been shown to have role in soybean seed maturity. GmGI loss of function leads to early flowering as in the model SD rice plant. Interestingly, a recent study in soybean suggested that there are three AtGI homologs in the soybean genome unlike previously suggested two orthologs GmGIa and GmGIb. The third form is a result of alternative splice form of GmGIa, resulting in GmGIα and GmGIβ. The GI orthologs were diurnally regulated and differentially expressed in different tissues adding up to a more complex regulation. GmGI proteins have the conserved NLS and localize to nucleus. GmGI proteins have been shown to interact with orthologs of FKF1 in soybean suggesting that function most likely is conserved.

54Tomato is a day neutral plant. GI was shown to be up-regulated and inhibit tomato seed germination thereby promoting seed dormancy under FR condition in the presence of functional PhyA. On the contrary, in Arabidopsis, loss of function of GI led to elevated dormancy. In other members of the Solanaceae such as potato and tobacco, photoperiodic control of GI was also shown to be operational.

55The conserved diurnal regulation of GI in different plants described above suggests the prevalence of an important transcriptional machinery as well as the GI promoter. The availability of GI antiserum would help to understand the regulation of GI in these crop plants. The localization and the stability of GI in most of these plants are still to be addressed. While few of the interaction with proteins such as orthologs of ELF3, COP1, ZTL, and FKF1 are shown to be conserved, the function of these complexes needs to be disclosed in various species.

56GIGANTEA seems to be a very important plant protein involved in various processes, from developmental regulation to metabolic flux. Despite its pivotal roles, it is surprising that GI null mutants are not lethal. Being a large protein, it might satisfy to function in several pathways summarized, yet to be fully understood. It would be a great challenge to understand and connect the functional roles of GI at different developmental stages. Although GI is a multifunctional protein, the role of its various functional domains are still in darkness. A functional antiserum against a conserved domain of GI that would detect the endogenous level of protein across species and in multiple mutational background would be very useful. The lack of such an antiserum possesses a serious bottleneck delaying the understanding of its abundance, regulation at the protein level and regulatory functions like the GI-FKF1 module across the plant kingdom. Despite this problem, several elegant experiments have been published where researchers have attempted to understand its role using transgenic plants expressing tagged versions of GI. Although time-consuming, these are the impressive feats that place GI mechanistically in a network of photoperiod control pathway.

57The role of GI in flowering time regulation, circadian clock control, and light signaling is still being pursued. But less-known functions such as sucrose signaling, chlorophyll accumulation, oxidative stress resistance demand more attention. More functions of GI are beginning to be documented. Recently, the emerging role of GI in salt tolerance has been demonstrated, which indicates that we are still not saturated in understanding the various functions GI. It would be interesting to understand how GI regulates so many functions before going into the complex cross talk between them it can fine tune. The lower plant moss Physcomitrella patens does not have a GI ortholog but still carries out most of the developmental aspects except flowering. It is very interesting to note that they do have CO-like genes, therefore the evolution of GI function is still an interesting area and demands further attention.

58The 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.