Characterization of an Iron-dependent Regulatory Sequence Involved in the Transcriptional Control of AtFer1 and ZmFer1 Plant Ferritin Genes by Iron*

Jean-Michel Petit, Olivier van WuytswinkelDagger, Jean-François Briat, and Stéphane Lobréaux§

From the Laboratoire de Biochimie et Physiologie Moléculaire des Plantes, CNRS UMR 5004, Agro-M/INRA, 34060 Montpellier Cedex 1, France

Received for publication, July 5, 2000, and in revised form, November 3, 2000



    ABSTRACT
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS
DISCUSSION
REFERENCES

In eukaryotic cells, ferritin synthesis is controlled by the intracellular iron status. In mammalian cells, iron derepresses ferritin mRNA translation, whereas it induces ferritin gene transcription in plants. Promoter deletion and site-directed mutagenesis analysis, combined with gel shift assays, has allowed identification of a new cis-regulatory element in the promoter region of the ZmFer1 maize ferritin gene. This Iron-Dependent Regulatory Sequence (IDRS) is responsible for transcriptional repression of ZmFer1 under low iron supply conditions. The IDRS is specific to the ZmFer1 iron-dependent regulation and does not mediate the antioxidant response that we have previously reported (Savino et al. (1997) J. Biol. Chem. 272, 33319-33326). In addition, we have cloned AtFer1, the Arabidopsis thaliana ZmFer1 orthologue. The IDRS element is conserved in the AtFer1 promoter region and is functional as shown by transient assay in A. thaliana cells and stable transformation in A. thaliana transgenic plants, demonstrating its ubiquity in the plant kingdom.



    INTRODUCTION
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS
DISCUSSION
REFERENCES

Metals are essential for all living organisms but are toxic at high concentrations. Therefore, metal homeostasis requires regulatory circuits to coordinate metal uptake and storage (1). Such mechanisms involve metal sensing proteins that transduce the signal within the cell to modulate gene expression. These proteins often act as regulatory factors, binding RNA or DNA cis-elements to promote or repress gene expression (1, 2). Among these metals, iron is one of the most abundant and is highly reactive as a pro-oxidant in Haber-Weiss reactions to generate free radicals (3). Furthermore, aerobic organisms have to overcome iron insolubility and then maintain iron in a bioavailable form (4). Plants, due to their immobility, need to tightly regulate iron homeostasis to prevent both iron toxicity or deficiency (5). Recently, genes involved in iron uptake in plants have been cloned: fro2, encoding a root ferric reductase (6), and irt1, encoding a putative ferrous transporter (7). Inside the plant cell, a particular class of plastid-localized proteins, the ferritins, are able to store iron in a safe and bioavailable form (8). Ferritins are ubiquitous proteins found in bacteria, animals, and plants, and, upon assembly, able to store up to 4500 iron atoms (4). Ferritin gene regulation has become a model to study iron-regulated expression both in the plant and animal kingdoms. In animal cells, ferritin synthesis is mainly regulated at the translational level in response to iron (2), whereas in plants transcriptional control has been demonstrated in soybean cells (9). In maize, iron overload induces accumulation of both ferritin mRNA and protein subunits (10, 11). Two nuclear maize ferritin genes have been characterized and named ZmFer1 and 2 (12). The ZmFer2 gene is regulated by a cellular pathway involving the plant hormone abscisic acid (ABA),1 whereas ZmFer1 is regulated by an ABA-independent pathway (13). Using derooted plantlets and maize cell suspension cultures, we have shown that this gene is regulated by both iron and redox signals (13). Indeed, ZmFer1 mRNA increase of abundance is induced by hydrogen peroxide treatments, and the iron-induced accumulation of this transcript is abolished in the presence of N-acetylcysteine (NAC), an antioxidant agent. The accumulation of ZmFer1 mRNA induced by both H2O2 and iron treatments were inhibited in the presence of the Ser/Thr phosphatase inhibitors okadaic acid and calyculin A (13), suggesting the involvement of dephosphorylation events in the transduction pathways regulating ZmFer1 gene expression. To further characterize the regulation of the ZmFer1 maize ferritin gene, we have developed a transient expression assay in maize cells. Using this system, a 2.2-kbp DNA fragment of the ZmFer1 gene was shown to be sufficient to regulate reporter gene expression in response to iron, with the same characteristics as observed for the endogenous ZmFer1 gene regulation (13).

In this paper, this transient expression assay was used to identify an Iron-Dependent Regulatory Sequence (IDRS) essential for the regulation by iron of the maize ZmFer1 and the Arabidopsis thaliana AtFer1 ferritin genes. Stable transformation of A. thaliana plants was performed to demonstrate the functionality of this element in planta.


    EXPERIMENTAL PROCEDURES
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS
DISCUSSION
REFERENCES

Cell Cultures and Transient Expression Assays-- Maize BMS (Black Mexican Sweet) cells were cultivated as described (13). A. thaliana cells (gift from Dr. Scheel) were cultivated at 24 °C under constant shaking at 170 rpm, in 100 ml of MS medium (14), containing 50 µM iron-EDTA. Subcultures were made every 2 weeks using 7.5 ml of cell suspension. For iron-starved cell cultures, 10 ml of 14-day-old cell culture were transferred to 90 ml iron-free medium. Iron treatments were performed as described (13).

Eight-day-old iron-starved BMS or Arabidopsis cells were transformed by particle bombardment as previously described (13). For Arabidopsis cells the gun vacuum was set to 30 mbar and the helium pressure to 3.5 bars. The pRD109 and pAHC18 plasmids were used as internal standards as described previously (13).

Gel Shift Assays-- Maize cell nuclear extracts were prepared as described by Zhou et al. (15). Oligonucleotide sequences used in these experiments are described below in Fig. 3B. The DNA probe was end-labeled, and gel shift assays were performed as described in Villain et al. (16).

Cloning of the AtFer1 Gene-- AtFer1 cDNA (17) was used to screen an A. thaliana genomic library (18). Positive bacteriophage DNA was prepared by polyethylene glycol precipitation (19), and the genomic DNA fragment was subcloned in pUC18 and sequenced.

Plasmid Constructs-- All the constructs for transient expression assays were made using standard recombinant DNA techniques (19) and sequenced. Oligonucleotides are written in the 5' to 3' orientation. An NsiI/SacI fragment containing 1600 bp of ZmFer1 promoter was subcloned into PstI/SacI-digested pRD109 to obtain p1600. EcoRI digestion of p1600 and religation gave pPL. The HindIII/NcoI fragment of p1600 was introduced in pBI320X (20) to obtain p495. p124, p64, and p27 were obtained by subcloning corresponding PCR fragments restricted with ClaI and EcoRI into p495 previously cut with ClaI and EcoRI. Primers used to generate PCR fragments were primers 1 (cccatcgatggacgcctccaccatccag) and 4 (gaattctgcgcgtgggtagtgg) for p124, primers 2 (cccatcgatgctccctccgccttctcc) and 4 for p67, and primers 3 (cccatcgatgtctccaatctgctaccccc) and 4 for p27. To obtain p124luc the ClaI/NcoI fragment from p124 plasmid was subcloned in pSLluc+de. pSLluc+de was constructed by removing the EcoRI site from the plasmid obtained after subcloning the luc+ coding sequence from the pSP-luc+ vector (Promega) in the EcoRI/NcoI-digested p59Luc (21). Site-directed mutagenesis was performed to obtain pmTC1, pmTC2, and pmTC12, using the Altered Sites II in vitro mutagenesis system (Promega) and primers 5 (atatttctggatggccatggcgtccatcgatac) and 6 (gcggagggagcgcgccatgggctcgtggcggggc). Mutagenesis of the GC, SHS, G box, and CAAT box sequences were made using the two-step PCR method as described previously (22). The primers used were 1, 7 (ggtagcagattggagacccatggacggctgagatttggag), 8 (ctccaaatctcagccgtccatgggtctccaatctgctacc), and 4 to generate pmGb; primers 1, 9 (gattggagacacgtggaccatggagatttggagaaggcgg), 10 (ccgccttctccaaatctccatggtccacgtgtctccaatc), and 4 to generate pmSHS; primers 1, 11 (gagcgcgtggagggctcgccatgggcgggggactggggag), 12 (ctccccagtcccccgcccatggcgagccctccacgcgctc), and 4 to generate pmGC; and primers 1, 13 (gcgtgggggtagcaccatggagacacgtggacggctgagat), 14 (atctcagccgtccacgtgtctccatggtgctacccccacgc), and 4 to generate pmCAATb. All mutagenized promoter fragments were subcloned in the ClaI/EcoRI-digested p124luc. AtFer1 PCR fragments were digested with EcoRI and NcoI and subcloned in the pBI320X, using primers 17 (ccggaattcggatgtagcacgaggccgccac) and 15 (cgtggccatggttggaaaatgtagaagagg) for pIDRSWT; primers 18 (ccggaattcggatgtagcacgaggggatcccacggcccctacatc) and 15 for pmIDRS-1; and primers 16 (ccggaattctttcatatccaccctccacg) and 15 for pDelta IDRS. To generate pmIDRS-2, DNA fragment amplified with primers 19 (ccggaattccattggatgtagccatgggggatcccacggc) and 15, using pmIDRS-1 as template, was subcloned in the EcoRI/BamHI-digested pmIDRS-1. For the gain-of-function constructs, the minimum 35S promoter was amplified using primers (catcgatgacgtaagggatgacgcacaatcc and cgaattctcctctccaaatgaaatgaacttcct) with p35Sluc as template and subcloned in the ClaI/EcoRI-digested p124luc to give pGFluc. Oligonucleotides (cgacccgcccgccacgagccctccacgcgctat and cgatagcgcgtggagggctcgtggcgggcgggt) were annealed and concatemerized. Monomer, dimers, and trimers were selected and subcloned in the ClaI-digested pGFluc. An AtFer1 1400-bp promoter region was amplified using primers 15 and 20 (ccggaattcccatatctctcgagaaaggatagag), digested with EcoRI and NcoI, and subcloned in pBI320X (pAt1400IDRS). To generate the pAt1400m*IDRS, a two-step PCR approach was performed as described (22) using primers 15, 20, 21 (ggggccgtgggatcccccatggctacatccaatgggatag), and 22 (ccggaattccattggatgtagccatgggggatcccacggc), and the PCR fragment was subcloned in pBI320X.

Transgenic A. thaliana-- The constructs At1400IDRS and At1400 m*IDRS were excised by XhoI-SacI digestion and subcloned into a pMOG 402 binary vector. The resulting plasmids were introduced into Agrobacterium tumefasciens MP90 strain (23). These bacteria have been used to transform A. thaliana using the flower dip method (24).

Transgenic seeds were surface-sterilized and spread onto Petri dishes containing MS/2 solid medium (14) and 50 µM iron-EDTA. Germination was synchronized by placing dishes for 2 days at 4 °C. Subsequently, plants were transferred in a growth chamber under the following conditions: 21 °C/18 °C, 16 h/8 h, day/night, 150 µE.s-1.m-2. After 10 days, plantlets were transferred onto iron-free MS/2 solid medium for 4 days. Then, the aerial parts of the plants were excised and incubated for 24 h onto MS/2 liquid medium containing 500 µM iron-citrate or no iron. Protein extracts were prepared, and reporter gene activity was measured as previously described (13). Protein concentration was determined according to the Bradford method (25).


    RESULTS
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS
DISCUSSION
REFERENCES

Analysis of ZmFer1 Promoter Deletions in Response to Iron-- In a previous study (13), we have set up a transient expression assay, using particle bombardment-mediated transformation, to study ZmFer1 maize ferritin gene regulation. This system enabled us to show that a 2.2-kbp fragment of the ZmFer1 gene fused to the beta -glucuronidase (GUS) reporter gene mimics the regulation of the endogenous gene. An 8-fold increase of GUS activity was measured in response to iron overload (13, see pSL5 in Fig. 1). Furthermore, iron-induced expression of the ZmFer1-GUS fusion gene was inhibited by the antioxidant agent NAC, and the Ser/Thr phosphatase inhibitor OA. These results are in agreement with data obtained by Northern blot analysis of the ZmFer1 gene expression. The ZmFer1-GUS fusion pSL5 contained 1.6 kbp of the promoter sequence and the region spanning from exon 1 to 3 (13). To localize cis-acting elements involved in the iron-dependent regulation of the ZmFer1 ferritin gene, we have performed a deletion analysis of the 2.2-kbp ZmFer1 fragment mentioned above. Intron sequences were required to observe a significant level of expression of the construct in maize cells (13). This was in agreement with our general knowledge that introns are essential for the expression of many genes from monocotyledonous plants (26). These intron sequences act mainly by stimulating the basal level of gene expression. However, it could not be ruled out that intron sequences present in the pSL5 construct play a role in the iron-dependent regulation of the fusion gene. To clarify this point, ZmFer1 intron sequences were substituted by an intronic region of the rice actin gene, which has been shown to strongly enhance reporter gene expression when present in a chimeric construct (27). Furthermore, we have previously demonstrated that this rice actin gene DNA fragment did not contain iron-regulated sequences (13). This switch from maize ferritin to rice actin intron sequences results in a strong increase of expression of the construct in the absence of iron, although the promoter sequence was the same (pSL5 and p1600 in Fig. 1). Iron treatment of the cells lead to a 4.5-fold increase in GUS activity (Fig. 1, p1600). This slight decrease from 8- to 4.5-fold of the induction factor appears to be a result of the intron sequence replacement. This phenomenon could be linked, in part, to the strong stimulation of gene expression in the presence of the rice intron sequences. However, the expression of the construct remains inducible by iron overload, suggesting that essential sequences for this regulation are not located within introns. The p1600 construct still contains 61 bp of the ZmFer1 5'-untranslated region. Deletion of this sequence up to the previously identified transcription initiation sites (12) did not affect the pattern of expression of the construct (data not shown). Therefore, a promoter deletion analysis was performed, starting from the p1600 fusion gene containing 1600 bp of ZmFer1 promoter sequence (Fig. 1). Reduction of the promoter length from 1600 to 495 or 124 bp results in a decrease from 4.5- to 2.5-fold induction in response to iron (Fig. 1). Such a decrease could be linked to the presence of regulatory sequences participating to the iron-dependent regulation of ZmFer1 gene. These deletions had no effect on the level of expression in low iron conditions and demonstrate that essential iron response elements are localized upstream of -124 bp. The reduction of promoter size from -124 bp to -64 bp lead to a more drastic effect. The expression level in low iron conditions increased to the iron-induced level of the -124-bp construct, and stimulation by iron was abolished. A further deletion from -64 to -27 bp did not change this pattern of expression. The promoterless construct (pPL) does not support reporter gene expression. Therefore, the 60-bp region spanning from -124 to -64 appears to contain essential regulatory sequences for iron-induced expression of ZmFer1 maize ferritin gene. Furthermore, our results suggest that this region would be involved in the repression of ZmFer1 expression in low iron conditions.



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Fig. 1.   Effect of promoter deletions on the iron stimulated expression of ZmFer1-GUS fusions in a transient assay. Constructs correspond to a fusion between the GUS reporter gene and deletions of the ZmFer1 gene promoter fused to ferritin introns or rice actin introns. 8-day-old maize BMS cells were cotransformed by two plasmids: a ZmFer1-GUS fusion gene and the pAHC18 as internal control, and treated as described previously (13). +1 corresponds to the first T of the TATA box. Values are the mean of three independent transformations from one representative experiment, out of at least three. The error bars indicate standard deviations.

Site-directed Mutagenesis of the ZmFer1 Promoter Region-- To further analyze and localize the cis-acting elements implicated in this regulation, a site-directed mutagenesis approach was used. This approach was performed on a -124-bp ZmFer1 promoter, which represents the minimal promoter to maintain an iron-induced expression of the chimeric gene. This fragment was fused to rice actin introns as mentioned above and to the luciferase reporter gene. A 3.3-fold increase in luciferase activity was measured in response to iron treatment, when this construct was analyzed by transient expression in BMS cells (Fig. 2B, p124Luc). This confirms the results obtained with the GUS gene as reporter (Fig. 1).



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Fig. 2.   Localization of an Iron-dependent Regulatory Sequence by site-directed mutagenesis analysis of the -124 ZmFer1 promoter region. A, partial nucleotide sequence of the -124-bp DNA fragment of ZmFer1 promoter. The putative regulatory sequences are boxed and their names indicated. Stars indicate the mutated bases in the various constructs used for transient expression (see B). B, effect of promoter mutations on iron-activated expression of the ZmFer1 gene in a transient assay. White boxes represent the target sequences for mutation. Black boxes represent mutated sequences. BMS cells were transformed and treated as described in Fig. 1 except that the plasmid used for luciferase activity standardization was pRD109, which constitutively expresses the GUS reporter gene.

Within the 124 bp of ZmFer1 promoter, some putative regulatory sequences were identified by sequence comparison for preferential mutagenesis as follows. A sequence named TC2 was found only in the ZmFer1 promoter, at positions -72 to -66, and not in ZmFer2 promoter (Fig. 2A). These two promoters share significant sequence identity in their proximal region (12), but ZmFer2 is regulated by an ABA pathway and not by the iron-dependent pathway studied in this paper (13). TC2 sequence mutagenesis led to a 3.3-fold increase of luciferase activity under low iron conditions, and iron stimulation of expression was reduced to a 1.4-fold increase (Fig. 2B, pmTC2). The ZmFer1 promoter region contains another sequence similar to the TC2 element, named TC1, localized at position -119 bp (Fig. 2A). TC1 sequence mutation alone did not affect the iron-induced regulation of the reporter gene (Fig. 2B, pmTC1). However, a double mutation of TC1 and TC2 resulted in enhanced basal expression of Luc and absence of induction by iron (Fig. 2B, pmTC12). These data suggests that, in the absence of a functional TC2 element, the TC1 sequence could partially substitute for TC2, whereas this sequence does not play a major role in the wild type ZmFer1 promoter. Sequences flanking the TC2 sequence were also analyzed to define more precisely this putative cis-acting element. The region upstream of TC2 was of particular interest, because mutations in the sequence called GC (Fig. 2A) lead to a pattern very similar to the TC2 mutant (Fig. 2B, pmGC). This result extends the regulatory region to both TC2 and GC sequences. This DNA fragment of 16 bp, which appears to be essential for the ZmFer1 ferritin gene regulation by iron, was named Iron-Dependent Regulatory Sequence (IDRS).

The ZmFer1 promoter region contains a CAAT box sequence in position -23 (Fig. 2A). This element has been described as a general cis-acting element, but can also be involved in specific responses. Indeed, ferritin H gene transcriptional control by heme in Friend Leukemia cells is mediated by a CCAAT element (28), and this sequence plays also a role in the transactivation of genes in response to antioxidant treatment in a human colorectal cancer cell line (29). Mutation of the CAAT box sequence present in the ZmFer1 promoter did not affect the expression pattern of the fusion gene in low or high iron conditions (Fig. 2). The Gbox element (CACGTG) (Fig. 2A) is a common regulatory sequence in plant gene promoters involved in many environmental stress responses (30). Mutagenesis of the ZmFer1 promoter Gbox revealed this sequence not to be required for the iron-dependent regulation of the ZmFer1 maize ferritin gene. Transcriptional regulation of soybean ferritin gene has been clearly demonstrated by nuclear run-on experiments (9). The corresponding gene has been cloned (31), and we have compared the promoter sequences of this soybean ferritin gene and ZmFer1. Interestingly, a conserved region (Fig. 2A, SHS), distinct from the IDRS element, was found in the proximal region of these two promoters. However, mutational analysis of this sequence in a transient expression assay revealed that this sequence is not involved in ZmFer1 gene regulation by iron in maize cells (Fig. 2B, pmSHS).

By a combined approach of promoter deletion and site-directed mutagenesis, we have, therefore, been able to localize an essential region for ZmFer1 regulation by iron, which we have named IDRS.

The IDRS Element Is Not Involved in the Antioxidant or Okadaic Acid Inhibition of ZmFer1 Ferritin Gene Expression-- We have previously shown, by Northern blot experiments and transient expression in maize cells, that the iron-induced expression of ZmFer1 gene is inhibited by NAC or OA (13). In the presence of NAC, the pSL5 ZmFer1-GUS fusion expression was strongly reduced in both untreated and iron-treated cells, but an increase of GUS activity was still induced by iron. Such results suggested that antioxidant agents could affect the level of expression of this gene, rather than the iron-dependent activation of ZmFer1 gene. Therefore, it was interesting to determine whether these effects are mediated by the IDRS element. To address that question, p124Luc, pmTC12, and pmGC (see Fig. 2A) construct expression was analyzed by transient expression in the presence of NAC or OA (data not shown). These experiments revealed that OA and NAC inhibitions of ZmFer1 gene expression are not mediated by the IDRS, which appears to be specific to the iron response. Regulatory elements, distinct from the IDRS, are therefore required to mediate the antioxidant effect at the promoter level.

Characterization of the Iron-dependent Regulatory Sequence-- To further characterize the IDRS element, gain-of-function experiments were performed to establish whether this sequence is sufficient to confer iron-dependent regulation to a minimal promoter. A construct containing a -80-bp 35S CAMV promoter sequence fused to rice actin intron sequences, and the luciferase reporter gene was prepared. The IDRS element was cloned upstream of this construct, conserving the distance between this regulatory sequence and the TATA box as in ZmFer1 gene. The IDRS fragment corresponds to the ZmFer1 promoter region from -88 to -62 bp and was cloned in 1, 2, or 3 copies. For each construct, a significant level of expression was measured, but no iron-dependent regulation was observed (data not shown). Increasing the fragment length to -124 to -62 of the ZmFer1 promoter led to the same result. These data suggest that some additional elements are required to establish the iron regulation or that a specific chromatin context is essential and not reproduced in the fusion gene.

To determine if the IDRS element could effectively bind nuclear transcription factors, gel shift experiments were performed. For this purpose, a double-stranded deoxyoligonucleotide corresponding to the IDRS was used (Fig. 3B). This probe was incubated in the presence of nuclear extracts prepared from maize cells treated or not by iron (Fig. 3A). In both low or high iron conditions, only one complex was observed (Fig. 3A). The signal was more abundant after iron treatment, but a signal was also clearly detectable when iron level was low (Fig. 3A, lane 2). Addition of 1 µM iron citrate in the protein extract from iron-depleted cells, or beta -mercaptoethanol as a reducer, or diamide as an oxidant in both extracts, had no effect on the observed complex (data not shown). To address the specificity of this complex, the reaction was performed in the presence of a range of molar excess of cold probe. A dose-dependent decrease of the binding was detected (Fig. 3A, lanes 4-7). In contrast, in the presence of a 100-fold molar excess of nonspecific DNA, which did not contain IDRS, no effect on DNA binding was observed. Therefore, a nuclear protein, or protein complex, specifically binds the IDRS element in vitro. Site-directed mutagenesis of the ZmFer1 promoter enabled us to establish that base changes within IDRS affect the chimeric ZmFer1-Luc gene regulation in vivo. To investigate if such mutations alter the binding of nuclear proteins to the IDRS in vitro, a competition experiment was performed in the presence of different double-stranded oligonucleotides containing three base substitutions compared with the WT sequence (Fig. 3B). When the binding reaction was performed in the presence of oligonucleotides M1 to M3, a partial inhibition of binding was detected, but the complex was still clearly observed (Fig. 3A, lanes 9-11). Oligonucleotides M4 and M5 resulted in less inhibition of binding of nuclear protein(s) to the labeled IDRS (Fig. 3A, lanes 12 and 13). These mutations correspond to the 3'-part of the IDRS, the region mutated in pmTC2 construct in Fig. 2. Therefore, mutations in this sequence lead to a loss of iron-dependent regulation in vivo, and binding in vitro. These experiments confirm that the IDRS is specifically bound by nuclear protein(s) consistent with its in vivo ability to regulate reporter gene expression in response to iron.



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Fig. 3.   Specific binding of maize nuclear protein(s) to the IDRS. Gel shift assays (A) were performed using 10 µg of nuclear extracts from BMS cells untreated or treated for 2 h with 5 mM iron citrate. Extracts were incubated with 0.06 ng of double-stranded end-labeled IDRS probe. Competition assays were performed with wild type or mutated unlabeled oligonucleotides shown in B, or nonspecific unlabeled oligonucleotides.

The IDRS Element Is Involved in the Iron-regulated Expression of the AtFer1 Ferritin Gene-- Maize is a graminaceous plant and shares with this group some specificities in iron metabolism. A phytosiderophore-mediated uptake of iron by the roots has been described in this plant group, whereas it does not exist in non-graminaceous monocotyledonous or dicotyledonous plants (32). This raises the question of whether the IDRS element could also play a role in iron-regulated expression in non-graminaceous plants. To address that question, we have investigated the regulation of AtFer1 ferritin gene from A. thaliana, a dicotyledonous plant. It has been previously shown, using AtFer1 cDNA as a probe in Northern experiments, that this gene is regulated by an ABA-independent pathway, and iron-induced accumulation of AtFer1 mRNA is inhibited in the presence of NAC (17). These features match with ZmFer1 gene regulation and suggest that AtFer1 would be the A. thaliana ferritin gene orthologous to ZmFer1. We have cloned the AtFer1 ferritin gene encoding the previously identified AtFer1 cDNA (GenBankTM accession no AF229850). This gene contains an exon/intron structure similar to known plant ferritin genes. A sequence comparison between the proximal region of AtFer1 and ZmFer1 promoters is presented in Fig. 4A. This alignment reveals three major blocks of identity. One corresponds to the Gbox sequence, which is not involved in the iron-dependent regulation of ZmFer1 gene (see above). A second region of similarity was revealed close to the putative TATA box of both promoters (Fig. 4A, block II). The third block corresponds to 14 bp with high similarity between the two promoters and corresponds to the IDRS element. This region matches exactly with the ZmFer1 IDRS base substitutions analyzed by gel shift (Fig. 3B), which affect the binding of nuclear proteins to the IDRS (Fig. 3A). To determine whether this sequence corresponds to a functional IDRS in the AtFer1 gene, a transient expression assay was set up using particle bombardment-mediated transformation of Arabidopsis cell suspension cultures. AtFer1 promoter deletions were fused to the GUS reporter gene and introduced into cell cultures. The pIDRS-WT construct contains 100 bp of the AtFer1 promoter and the putative IDRS element. A 6-fold increase in GUS activity was measured in the transient expression assay in response to a 500 µM iron citrate treatment (Fig. 4). When the AtFer1 promoter sequence was reduced from -100 to -61 bp, deleting the IDRS, an increase of GUS activity in low iron conditions was detected, and the response to iron treatment was eliminated. This result is similar to the data obtained by deleting the ZmFer1 IDRS (Fig. 1). Using the pIDRS-WT construct, site-directed mutagenesis of the AtFer1 IDRS was performed. In the pmIDRS-1 construct, the 3' region of the IDRS was mutagenized, corresponding to the ZmFer1 TC2 mutations (Fig. 2) and M4 - M5 in the gel shift assay. The complete IDRS was mutated in the pmIDRS-2 construct. Transient expression analysis of these plasmids revealed a pattern similar to what is observed by the IDRS deletion. Site-directed mutagenesis of block II had no significant effect on the iron-dependent regulation of the construct (data not shown). Therefore, the IDRS is essential for the iron-dependent regulation of both AtFer1 and ZmFer1 ferritin genes, in transient assays.



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Fig. 4.   Involvement of an Arabidopsis sequence similar to ZmFer1 IDRS in AtFer1 gene regulation in response to iron. A, aligned nucleotide sequences of the ZmFer1 and AtFer1 promoters. Stars indicate mutated bases in the constructs used in transient expression analysis. B, effect of promoter deletions and IDRS mutations on the iron-stimulated expression of AtFer1-GUS fusions in a transient assay. The white box represents the IDRS. Each cross represents mutations of sequences similar to the GC or TC2 sequences of the ZmFer1 gene as described in Fig. 2. Arabidopsis cells were transformed as described in Fig. 1 except that the plasmid used for the standardization of GUS activities was the p35Sluc.

Because stable transformation of A. thaliana plants is a routine procedure, in contrast to maize transformation, we decided to verify whether the IDRS was essential for the iron-mediated derepression of AtFer1 gene expression in transgenic A. thaliana plants. The approach consisted of transforming A. thaliana with 1400-bp AtFer1 promoter sequence fused to the GUS reporter gene, wild type or mutated at the IDRS. The effect of the mutation was evaluated by measuring the GUS activity in transformed plants treated or not with iron. A 17-fold derepression of the AtFer1-GUS fusion in response to iron treatment was observed in the case of the wild type construct (At1400IDRS in Fig. 5), whereas the IDRS mutation (At1400 m*IDRS in Fig. 5) led to a derepression factor of 1.8-fold. This 9.5-fold decrease mediated by the IDRS mutation is due to the increasing GUS activity in the iron-untreated plants, as reported above in transient assays using shorter promoter sequences. The GUS activity remains unaffected by the IDRS mutation in iron-treated plants compared with the wild type construct. Similar results were obtained by transient assay of the same constructs using A. thaliana cell suspension cultures (data not shown). Furthermore, as a negative control, a mutation of the block II sequence (Fig. 4A) within the 1400-bp promoter was performed. This mutation had no effect on the GUS expression, either in transgenic plants or in transient cell assay (data not shown). Therefore, these results, obtained in stable transformed plants as well as in transient cell assays, show that the IDRS is a major element of the iron regulated expression of the AtFer1 gene. They also indicate that the IDRS effect can be similarly observed on a promoter sequence of 1400 or 100 bp (see pmIDRS2 in Fig. 4).



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Fig. 5.   IDRS-mediated iron-dependent regulation of AtFer1-GUS fusion in A. thaliana transgenic plants. A. thaliana was transformed using an AtFer1-GUS fusion containing 1400 bp of promoter sequence mutagenized (At1400 m*IDRS) or not (At1400IDRS) at the IDRS. Ten-day-old plantlets were starved for iron for 4 days and then treated for 24 h in culture medium containing 500 µM iron citrate or no iron. Protein extracts were prepared, and GUS activities were measured. Derepression factor corresponds to the ratio between GUS activities from iron-treated plants to control untreated plants. Values correspond to representative results out of three experiments on three independent transgenic lines.



    DISCUSSION
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS
DISCUSSION
REFERENCES

Using promoter deletion and site-directed mutagenesis analysis, we have identified a cis-regulatory element, IDRS, essential for ZmFer1 maize ferritin gene iron regulation. This element does not match with known regulatory sequences identified in plant promoters like the Metal Regulatory Element for example, nor with such elements from yeast or animals (33). IDRS is required for iron-dependent regulation of both ZmFer1 and AtFer1 genes, illustrating its broad functionality in the plant kingdom. It is important to notice that the IDRS is not only essential in transient assays using cell suspension cultures but also in stable multicellular transformants such as transgenic A. thaliana plants (Fig. 5). Gain-of-function experiments failed to demonstrate that IDRS is sufficient to confer iron-dependent regulation, suggesting that other elements are necessary. However, promoter sequence analysis of ZmFer1 and AtFer1 ferritin genes coupled to transient expression analysis showed that IDRS was the only conserved sequence essential for iron regulation. Furthermore, the first evidence of iron transcriptional regulation of a plant ferritin gene was obtained with soybean (9). The corresponding gene was cloned (31) and contains an IDRS element within its promoter at position -121 to -108. Very recently, it has been reported that the expression of a GUS reporter gene fused downstream of this soybean promoter was repressed under low iron conditions, in agreement with our findings (34). The soybean promoter sequence suggested to be involved in this transcriptional repression is different from the IDRS sequence. It is, however, important to notice that this soybean regulatory region is not conserved in AtFer1 and ZmFer1 promoter sequences. Also, the result by Wei and Theil (34) does not exclude a role of the soybean IDRS in iron control of ferritin gene expression in this plant species.

Our results suggest that the IDRS element is involved in ferritin gene repression at low iron concentrations. This could require a specific chromatin conformation to allow IDRS bound protein(s) to interact with the transcription initiation complex or to limit the TATA box access for example. Then, if the IDRS fusion to the 35S CAMV minimal promoter fails to reproduce such a correct conformation, the IDRS activity could not be revealed.

In plant and animal cells, a common regulatory scheme of ferritin genes by iron is emerging. Low iron conditions repress ferritin synthesis, at the translational level in animals (2), and at the transcriptional level in plants. In animals, a cis-element called Iron Responsive Element (IRE), localized in the 5'-untranslated repeat of ferritin mRNA, binds Iron Regulatory Proteins (IRPs). When iron level is low, IRPs occupy IRE and prevent the initiation of mRNA translation (2). Two types of IRPs, IRP1 and -2, have been characterized. IRP1 enables integration on the IRE of at least two different signals: the iron and the redox status of the cell. IRP1 binding is stimulated by iron deficiency or by H2O2 treatment. Iron could have a direct effect on the protein, whereas the H2O2 signal would require a transduction pathway (35). We have also described such an integration of iron and redox signals for ZmFer1 maize ferritin gene regulation (13). In this case, iron treatment promotes ferritin synthesis, whereas antioxidant agents like NAC or glutathione inhibit ferritin synthesis. However, in contrast to animal cells for which such responses are targeted to the same molecule, IRP1, the redox signal in plants is not mediated by the IDRS, which is specific to the iron response. These results suggest that other(s) regulatory sequence(s) in ZmFer1 mediate(s) the antioxidant response. This integration of redox and iron signals within the ferritin promoter could allow adjustment of the ferritin level and protection of the cell according to the free iron concentration and the redox status of the cell.

IDRS implication in the transcriptional regulation of ferritin genes by iron led us to search for this element in other gene promoter sequences. Because iron uptake and storage need to be coordinated, some iron-dependent regulatory mechanisms are required to modulate gene expression implicated in these processes. In animal cells, the IRE sequence regulating ferritin mRNA translation is also localized in the 3'-untranslated repeat of the transferrin receptor mRNA (2). In low iron conditions, the binding of IRPs on the IRE stabilizes the transferrin receptor transcript and allows the synthesis of the corresponding protein. Therefore, the same regulatory sequence enables the adjustment of iron storage and iron uptake capacity of the cell. Searching for IDRS in plant sequence data bases using BLAST and FASTA programs (36, 37), we have found no sequences similar to IDRS in the promoter regions of genes that could be involved in plant iron uptake, like fro2 (6), irt1 (7), or the Nramp gene family (38, 39). Iron could also regulate genes implicated in the protection against oxidative stress such as superoxide dismutases or catalases. Again, we did not find the IDRS in these genes. The A. thaliana genome is now almost completely sequenced, and we have found some sequences similar to IDRS. However, they were not localized in promoter regions, or were present in unidentified sequences.

Gel shift experiments show that IDRS is able to bind nuclear protein(s) in vitro, and these data correlate with in vivo functional assays. The mechanistic significance of the apparent increase of binding to the IDRS under iron overload remains to be worked out. The molecular characterization of the protein(s) interacting with the IDRS will allow the elucidation of the mechanisms involved in the repression of ferritin synthesis during low iron conditions, and the derepression by iron, of ZmFer1 and AtFer1 ferritin genes.


    ACKNOWLEDGEMENTS

We acknowledge Dr. D. Scheel (IPF, Halle, Germany) for providing the A. thaliana cell line. We are grateful to Dr. Cathy Curie (Laboratoire de Biochimie et Physiologie Moléculaire des Plantes (BPMP), Montpellier, France) for giving the 35S-Luc and p59Luc plasmids. We are indebted to Dr. Frédéric Gaymard (BPMP, Montpellier, France) for providing the A. thaliana genomic library. We thank Céline Forzani (BPMP, Montpellier, France) and Dr. Tim Tranbarger (BPMP, Montpellier, France) for critical reading of this manuscript.


    FOOTNOTES

* This work was supported by the CNRS (Program Biologie Cellulaire: du Normal au Pathologique Grant 96003).The costs of publication of this article were defrayed in part by the payment of page charges. The article must therefore be hereby marked "advertisement" in accordance with 18 U.S.C. Section 1734 solely to indicate this fact.

The nucleotide sequence(s) reported in this paper has been submitted to the GenBankTM/EMBL Data Bank with accession number(s) AF229850.

Dagger Present address: Génétique Moléculaire des Plantes, Université de Picardie Jules Verne, 80039 Amiens Cédex, France.

§ To whom correspondence should be addressed: Tel.: 33-4-9961-2323; Fax: 33-4-6752-5737; E-mail: lobreaux@ensam.inra.fr.

Published, JBC Papers in Press, November 22, 2000, DOI 10.1074/jbc.M005903200


    ABBREVIATIONS

The abbreviations used are: ABA, abscisic acid; NAC, N-acetylcysteine; OA, okadaic acid; BMS, Black Mexican Sweet; MS, Murashige and Skoog medium; GUS, beta -glucuronidase; IRE, iron-responsive element; IRP, iron-responsive protein; IDRS, iron-dependent regulatory sequence; CAMV, cauliflower mosaic virus; bp, base pair(s); PCR, polymerase chain reaction; SHS, soybean homologous sequence.


    REFERENCES
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS
DISCUSSION
REFERENCES


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