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The Journal of Immunology, 1999, 163: 120-129.
Copyright © 1999 by The American Association of Immunologists

CD28-Mediated Regulation of mRNA Stability Requires Sequences Within the Coding Region of the IL-2 mRNA

Jack A. Ragheb, Mary Deen and Ronald H. Schwartz1

Laboratory of Cellular and Molecular Immunology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD 20892


    Abstract
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
Using sequence-tagged genomic reporter constructs, we investigated the contribution of IL-2 sequences to CD28-mediated regulation of mRNA stability. We find that CD28 signaling acts transiently to stabilize the IL-2 mRNA following T cell activation. Such stabilization requires sequences within both exon 2 and the coding region of exon 4. Unexpectedly, CD28 signaling at later times enhances the decay of the IL-2 mRNA. This CD28-dependent decay of IL-2 mRNA requires sequences localized between exon 3 and the stop codon. Our findings demonstrate that the coding region of the IL-2 mRNA contains previously undefined CD28-responsive sequence elements that are critical for the regulation of mRNA stability.


    Introduction
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
Costimulation through CD28 during T cell activation exerts a profound influence on the outcome of TCR engagement (1, 2, 3, 4, 5). Failure to receive a costimulatory signal can result in an unresponsive state termed anergy or in cell death (6, 7). Signaling through CD28 modulates these outcomes by its effects on the expression of a number of genes. One of the most important and well studied is the IL-2 gene. A CD28-responsive element has been identified within the IL-2 promoter (8). This sequence has variously been reported to consist of either a composite c-Rel/AP-1 site (9, 10) or an NF-AT/AP-1 site (11). A search for enhancer elements outside of the 300-bp 5' regulatory region failed to identify any significant activity (12). In addition to its well recognized effects on transcriptional initiation (13), CD28 costimulation enhances cytoplasmic IL-2 mRNA stability (14, 15). The IL-2 mRNA, like many cytokine and protooncogene mRNAs, contains several copies of an AU-rich sequence (AUUUA) element (ARE)2 within its 3' untranslated region (UTR) (16). Under conditions of constitutive gene expression, deletion of these sequences has been associated with increased levels of mRNA or cytokine secretion (17, 18, 19, 20). In heterologous systems, the ARE has been found to shorten the t1/2 of mRNA in a cis-dominant fashion (21). It has been widely assumed that this sequence element also represents the CD28-responsive element within the IL-2 mRNA (22). A number of binding proteins have been identified that interact with the ARE or closely related sequences, but their relevance to CD28 costimulation remains unestablished (23, 24, 25, 26, 27, 28).

In this paper, we use sequence-tagged IL-2 genomic constructs to show that there is a transient posttranscriptional CD28 response that acts primarily, directly or indirectly, to counter the destabilizing effect of the IL-2 mRNA 3' UTR. At later times, however, acting through sequences within the coding region of the mRNA, CD28 signaling actually enhances IL-2 mRNA decay. Based on a series of internal deletion mutants, we find that CD28-mediated IL-2 mRNA stabilization requires sequences within both exon 2 and the coding region of exon 4, but is largely independent of exon 3. In contrast, CD28-dependent decay of IL-2 mRNA requires sequences localized between exon 3 and the stop codon.


    Materials and Methods
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
Reporter constructs

To create a sequence-tagged reporter construct (IL2X), the IL-2 sequences in a full-length genomic pUC 18 clone were shuttled into the pGL2-basic backbone after removal of the luciferase gene and all downstream SV40 sequences from pGL2-basic. The IL-2 clone was tagged by introducing an XhoI linker (no. 1073, New England Biolabs, Beverly, MA) at the SacI site at position 216 in exon 1 after blunt end repair of the site. The nucleotide numbering is based on the full-length mRNA sequence (GenBank accession no. X01772). Insertion of this linker maintains the IL-2 open reading frame while resulting in a 2-aa insertion (L, E) and 2 aa substitutions (E->A and L->G). This finding was confirmed by dideoxy DNA sequencing of the construct (U.S. Biochemical, Cleveland, OH). A neomycin-resistance expression cassette from the plasmid pMC1neo poly(A) (Stratagene Cloning Systems, La Jolla, CA) was cloned downstream of the IL-2 sequences in the same transcriptional orientation as the IL-2 gene.

The IL2XBC and IL2XAC constructs were generated from the parental IL2X as follows. To produce IL2XBC, the IL2X genomic clone was cut at the unique ClaI site in intron B and the unique EcoRV site in intron C and recircularized following blunt end repair of the cut ends. IL2XAC was created by deleting the fragment between the ApaLI sites present in introns A and C.

The parent of IL2X24 is a sequence-tagged IL-2 genomic construct, IL2X2 that differs from IL2X in that it contains a PCR-generated polylinker sequence just upstream of the IL-2 stop codon. To generate IL2X24, the parent was linearized at the unique SnaBI site immediately upstream of the stop codon. The sequences between the 3' terminus of exon 2 and the SnaBI site were deleted following partial digestion with BspMI, blunt end repair of the molecule, and insertion of a poly stop linker (no. 1062, New England Biolabs) between the repaired restriction sites to regenerate an in-frame stop codon upon recircularization.

The IL2XpA construct was generated as follows. A KpnI fragment containing the 3' portion of the IL-2 gene was first subcloned into pBluescript (Stratagene). Using standard PCR and recombinant DNA techniques, an XhoI restriction site was introduced just upstream of the IL-2 stop codon in the subclone. The SV40 late poly(A) region from the pSI vector (Promega, Madison, WI) was cloned into this plasmid as a SalI-BamHI fragment between the introduced XhoI site and a flanking BamHI site in pBluescript. This results in a Q->R substitution of the COOH terminal codon in the native IL-2 sequence and in an insertion of 24 codons before the new stop codon in the SV40 3' UTR. This was confirmed by dideoxy DNA sequencing of the construct. The 3' portion of the IL-2 gene, now containing the SV40 late poly(A) region substituted for the IL-2 3' UTR and poly(A) signal, was shuttled back into IL2X to generate IL2XpA.

To generate the {Delta}IL2XpA construct, the pBluescript subclone of the 3' portion of the IL-2 gene was linearized at the MunI site within exon 3 and the site was filled in; next, the plasmid was cut at a flanking BamHI site in pBluescript. The SV40 late poly(A) region from the pSI vector (Promega) was cloned into this plasmid as a SmaI-BamHI fragment between the filled-in MunI site and the flanking BamHI site. This results in an insertion of seven codons between codon 116 in the native IL-2 sequence and the new stop codon in the SV40 3' UTR. This was confirmed by dideoxy DNA sequencing of the construct. The 3' portion of the IL-2 gene, now containing the SV40 late poly(A) region substituted for sequences downstream of position 384 in exon 3, was shuttled back into IL2X to give {Delta}IL2XpA.

Cell culture, transfection, and stimulations

A.E7 is a normal CD4+ Th1 mouse T cell clone that recognizes the pigeon cytochrome c (PCC) peptide 81–104 (29). These cells do not grow continuously; they must be induced to proliferate by exposure to PCC in the context of I-Ek. Proliferation is transient, and the cells subsequently enter a resting state. Resting A.E7 cells are passed by stimulation for 48 h with irradiated B10.A splenocytes at a 10:1 ratio of splenocytes to A.E7 with 5 µM whole PCC (Sigma, St. Louis, MO). The cells were subsequently diluted 1/20 into fresh medium (ER10) consisting of 40% RPMI 1640, 50% modified Eagle’s MEM in HBSS, and 10% FCS (Biofluids, Rockville, MD) with 10 U/ml mouse rIL-2 (R&D Systems, Minneapolis, MN) and left undisturbed for 10–14 days at 37°C in a 5% CO2 atmosphere (30). Stable transfectants of A.E7 with the various sequence-tagged reporters were obtained by electroporation as described below. After stimulation with splenocytes and PCC, cells were harvested on a Ficoll gradient and resuspended in RPMI 1640 with 20% FCS at 4 x 107 cells/ml. One-half ml of cells was added to 50 µg of linearized DNA on ice in a 4-mm gap cuvette (BTX, San Diego, CA); electroporation was performed with a BTX 600 electroporater at 275 V, 720 {Omega}, and 3000 µF. Immediately afterward, cells were diluted ~30-fold into fresh ER10 with 20 U/ml IL-2 and incubated overnight at 37°C in a 5% CO2 atmosphere. Cells were then Ficoll gradient-purified and resuspended in fresh ER10 at 2.5 x 104 cells/ml with 20 U/ml mouse rIL-2 and 0.3 mg/ml G418 (Life Technologies, Gaithersburg, MD). Following 7–10 days of drug selection, surviving cells were restimulated with splenocytes and PCC and reselected in G418 as described above. This process was repeated until the cells were able to expand >=10-fold under selective conditions. At this point, frozen stocks were made of the pools of stable transfectants; working cultures of the transfectants were reinitiated from these frozen stocks after four to six passages.

Ab stimulation of the stable transfectants was conducted following Ficoll gradient purification of resting cells and resuspension in fresh ER10 at 1 x 106/ml. Abs were titrated and used at a concentration that elicited maximal IL-2 secretion from the A.E7 cells. A total of 2 ml of cells was added per well of a 6-well Costar plate (Costar, Cambridge, MA) that had been coated overnight at 37°C with the purified anti-TCRß Ab H57-597, 6 µg/ml in PBS (31). H57-597 was partially purified from an ascites preparation by ammonium sulfate precipitation. An ascites preparation of the anti-CD28 mAb 37.51 (a gift of Dr. J. Allison, University of California, Berkley, CA) was added (at a final concentration of 1:200) directly to the costimulated cell samples. Cells were stimulated for the indicated length of time, after which supernatants were harvested and filtered for a determination of IL-2 concentration by a CTL-L bioassay (32) or by ELISA (R&D Systems).

RNA isolation and quantitation

Cytoplasmic RNA was prepared by lysis of the cells in situ with a Nonidet P-40-based lysis buffer (Qiagen, Santa Clarita, CA) containing 30 U/ml RNase inhibitor (5'-3', Inc., Boulder, CO). Pelleting of the nuclei by centrifugation, denaturation of the supernatant in a guanidinium isothiocyanate buffer, and subsequent binding and elution of RNA from a silica gel membrane in a 96-well format using a vacuum manifold were completed according to the manufacturer’s instructions (Qiagen). Total RNA was prepared by lysis of the cells in situ using a guanidinium isothiocyanate buffer. Genomic DNA was sheared by centrifugation of the lysate through a QIAshredder column (Qiagen). Subsequent purification steps were conducted as described for cytoplasmic RNA. As an additional precaution, for those primer pairs that do not distinguish between mature mRNA and DNA (IL2XAC and IL2X24), RNA was digested with RNase-free DNase I (Boehringer Mannheim, Indianapolis, IN) for 20 min at 37°C according to the manufacturer’s instructions (Qiagen) while bound to the silica gel membrane before the wash and elution steps of the protocol.

RT-PCRs were coupled and performed in the same tube using 10–100 ng of total RNA in 1x TaqMan EZ buffer, 2.5 mM manganese acetate, 300 µM of each dNTP, and 100 U/ml of recombinant Thermus thermophilus DNA polymerase in a total volume of 25 µl (Perkin Elmer Applied Biosystems, Foster City, CA). The reverse transcriptase (RT) step was primed with the IL-2-specific primer 5'-TTCAATTCTGTGGCCTGC-3' and conducted at 60°C for 30 min, preceded by a 75°C/10 min denaturation step. Amplification of the sequence-tagged IL-2 mRNAs (IL2X, IL2XpA, and {Delta}IL2XpA) was accomplished through the use of a sequence-tag specific forward primer 5'-TCGAGGGCCTGAGCA-3' and the same IL-2-specific back primer used in the RT step. The back primer spans an exon/intron junction and will not amplify genomic DNA or unspliced RNA (data not shown). The PCR step consisted of 40 cycles of 94°C/15 s -> 60°C/60 s preceded by an initial 95°C/1 min denaturation step. Detection of the amplicon was achieved by dequenching a 6-carboxyfluorescein (6-FAM) 5'-labeled IL-2-specific probe (5'-CCCAGGATGCTCACCTTCAAATTTTA-3'). In solution, fluorescence from the probe is quenched by the presence of another fluorochrome (the quencher) that is covalently attached to the blocked 3' end of the probe. During amplification, the probe hybridizes to the template between the forward and back primer pair. As the primer is extended, the 5' -> 3' exonucleolytic activity of the advancing polymerase degrades the hybridized (but not unbound) probe. This releases the quenched 6-FAM fluorochrome bound to the 5' end of the probe from the quencher at the 3' end of the probe. The released fluorescence was measured with an ABI7700 Sequence Detection System (Perkin Elmer Applied Biosystems) (33).

The IL2XBC mRNA was detected by RT-PCR as described for IL2X, with the excepton that a different IL-2 specific back primer (5'-TGTTG TAAGCAGGAGGTACATAGTT-3') was used which was also used to prime the RT step. The IL2XAC mRNA was detected and quantitated as described for IL2XBC, except that the coupled RT-PCR was performed in a single tube using Moloney murine leukemia virus RT (0.25 U/µl) and AmpliTaq Gold DNA polymerase (0.025 U/µl) in 1x TaqMan buffer A, 5.5 mM magnesium chloride, and 300 µM of each dNTP in a total volume of 25 µl (Perkin Elmer Applied Biosystems). The RT step was conducted at 48°C for 30 min followed by a 95°C/10 min denaturation step. PCR consisted of 40 cycles of 94°C/15 s -> 58°C/60 s.

The IL2X24 mRNA was detected and quantitated as described for IL2XAC, except for the use of primers, a probe, and an amplification temperature of 60°C. The IL-2-specific back primer 5'-TTGTTGAGAT GATGCTTTGA-3' was used in the RT and PCR steps. The sequence-tag specific forward primer 5'-ATGGACCTACAGGCCCT-3' and the probe 5'-CCTGCTCAGGCCCTCGA-3' were used in the PCR.

Detection and discrimination of the endogenous IL-2 mRNA from the sequence-tagged mRNAs were accomplished through the use of a forward primer specific for the endogenous IL-2 mRNA (5'-ATGGACCTACAG GAGCT-3') and a different IL-2 back primer (5'-CGCAGAGGTCCAAGTT-3'). The RT-PCR conditions and the probe used in the reactions were the same as described above for IL2X.

H-2K mRNA was used as an internal reference. The RT step was primed with the H-2K-specific primer 5'-GGGCTCAGGCAGCC-3' or 5'-GTGATGTCAGCAGGGTAGAAG-3'. PCR was conducted with either the H-2K-specific forward primer 5'-AGAAGTGGGCATCTGTGG-3' or 5'-CCGCGCACAGATTCC-3' and the corresponding H-2K-specific back primer used in the RT step. Detection of the amplicon was achieved by dequenching a 6-FAM-labeled H-2K-specific probe (5'-TTGGGAAG GAGCAGTATTACACATGC-3' or 5'-CAAAGGCCCATGTGACCCGT -3') as described above. RT-PCR conditions were exactly the same as those described above.

Standard curves were generated for H-2K, IL-2, and sequence-tagged IL-2 mRNAs with total RNA from the appropriate cells costimulated with anti-CD28 for 4 h. The log of the total RNA (nanograms) plotted vs the threshold cycle number is a linear function; threshold cycle number is defined as the amplification cycle number at which the fluorescence emitted is >10 SDs above the average baseline fluorescence (usually the amount of fluorescence measured between cycles 3 and 15). In general, the standard curves were linear over the range of 5 pg to 100 ng of total RNA. The relative amount of mRNA in the unknown samples was determined from the standard curves. All samples were assayed in triplicate, and the arithmetic mean amount of IL-2 or sequence-tagged IL-2 mRNA was corrected for the amount of H-2K mRNA present. The corrected values were then normalized and plotted as a function of time. Normalization was usually to the corrected amount of mRNA in the 3-h sample stimulated with anti-TCR alone. In the one instance in which the amounts of IL2X and IL2XpA mRNA are directly compared, a correction is also made for the difference in transgene copy number between these stable transfectants. Transgene copy number was determined by quantitative PCR. In most of the experiments in which cyclosporin A (CSA) was added, the 3-h timepoint also represented the "zero time" from which mRNA decay was measured. In some of these experiments, there was a delay in the onset of CSA action as assessed by a failure to observe a drop in the level of IL-2 mRNA within 30 min of CSA addition in cells stimulated with anti-TCR alone (data not shown). In those cases the mRNA t1/2 was determined from the point after which mRNA decay was first observed in anti-TCR-stimulated cells (i.e., 30 min). When CSA was added at 2 h, the data were normalized to the 2-h timepoint because it represented the zero time for measuring mRNA decay. In those experiments in which there was not a 3-h timepoint, the data were normalized to the following timepoint. When the decay of the endogenous IL-2 mRNA and the IL-2 reporter mRNA are directly compared in the same CD28-costimulated cells, the data are normalized to the amount of mRNA in the untreated CD28-costimulated sample at 3 h. Because different primers are used to detect the endogenous IL-2 and the IL-2 reporter mRNAs, a direct comparison of the amount of these mRNAs cannot be made. Thus, each mRNA is normalized to its respective control. Normalization to the CD28-costimulated sample, rather than to the sample stimulated with anti-TCR alone, was done to highlight the similarity (or difference) in the CD28-mediated stability of the endogenous IL-2 mRNA and the reporter mRNAs. Using Excel software (Microsoft, Redmond, WA), mRNA t1/2 were calculated on the basis of a linear exponential decay process using a least squares fit of the data.


    Results
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
IL-2 reporter constructs

To perform a genetic analysis of CD28-mediated regulation of IL-2 mRNA levels and to observe processes that might alter nuclear posttranscriptional events, we generated a series of sequence-tagged IL-2 genomic reporter constructs (Fig. 1Go). The construction of these reporters is described in detail in Materials and Methods. The wild-type reporter, IL2X, contains 1.9 kb of 5' and 1.5 kb of 3' flanking sequences in addition to the IL-2 exons and introns. Deletion mutants were generated by removing sequences between introns (IL2XBC and IL2XAC), between exons (IL2X24), or from the 3' end (IL2XpA and {Delta}IL2XpA) of IL2X. We specifically chose to use an IL-2 promoter-driven reporter construct for our studies to selectively block IL-2 transcription with CSA during our measurement of mRNA t1/2 (34, 35, 36). Actinomycin D (Act D), a global inhibitor of transcription, was not used because of its previously reported effect on the stabilization of IL-2 and other mRNAs (15, 34, 37, 38). Although the presence of a CSA-resistant CD28 pathway for IL-2 production has been reported in human T cells, such a mechanism does not appear to be operational in mouse T cells (39, 40). Thus, when CSA is added at the beginning of T cell activation in the presence of maximal TCR and CD28 costimulation, IL-2 (and IL2X) expression is completely blocked (data not shown). The mRNA produced from the sequence-tagged IL-2 transgene was discriminated from the endogenous IL-2 mRNA and quantitated by using real time RT-PCR with a fluorescence-based detection system (33).



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FIGURE 1. Structure of IL-2 reporter constructs. The DNA structure of the constructs is shown. Open boxes numbered 1–4 are IL-2 exons. Solid lines are introns or flanking genomic sequences. Letters A, B, and C indicate the introns. Closed boxes represent the late SV40 3' UTR and poly(A) signal. The relative position of the start codon (ATG), stop codon (TAA or TGA), and mRNA instability element (ATTTA) are shown. The sizes of the various DNA components in the schematic are not proportional.

 
CD28 costimulation enhances IL-2 mRNA reporter levels

Examination of the temporal expression of IL2X mRNA reveals that its level in CD28-costimulated cells is increased both early and late in the time course relative to the IL2X mRNA level in cells that have been stimulated with anti-TCR alone (Fig. 2GoA). This pattern is similar to that observed previously for the native IL-2 mRNA in these cells (15). To assess the contribution of mRNA stabilization to the increased level of IL2X mRNA in CD28-costimulated cells, IL-2 transcription was blocked by the addition of CSA after 3 h of stimulation with or without anti-CD28 Ab. In the presence of CSA, IL2X mRNA levels decline rapidly in cells that are stimulated through the TCR alone (Fig. 2GoB, {blacksquare}). In cells that were costimulated with anti-CD28 Ab, IL2X mRNA exhibits a biphasic decay curve following the addition of CSA, remaining stable for ~2 h before declining (Fig. 2GoB, •). In three independent experiments, IL2X mRNA decayed with a mean t1/2 of 33 min (SEM = 3 min) in CD28-costimulated cells following the initial 2-h period of stability. In cells stimulated with anti-TCR alone, the mean t1/2 was 21 min (SEM = 5 min). The somewhat slower rate of decay in costimulated cells presumably reflects a small residual effect of CD28 signaling on mRNA stability. Previously, more detailed studies had shown that IL-2 mRNA decay exhibits complex kinetics that are best fit by a logistic decay curve (15). For simplicity, in this study we have calculated mRNA t1/2 on the basis of a linear exponential decay process using a least squares fit of the data. The relative level of IL2X mRNA (•) parallels that of the endogenous IL-2 mRNA ({blacktriangleup}) in the same CD28-costimulated cells treated with CSA at 3 h, demonstrating the fidelity of this reporter system (Fig. 2GoC).



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FIGURE 2. Temporal expression of IL2X mRNA. The DNA structure of the IL2X construct is shown at the top of the figure. mRNA values are the arithmetic average of triplicate samples. Error bars show the SEM. Where error bars are not visible, the size of the bar was smaller than the figure symbol. A, A.E7 cells stably transfected with the IL2X reporter were stimulated with anti-TCR Ab alone ({square}) or in combination with anti-CD28 Ab ({circ}). Results shown are from one representative experiment of five performed. B, A.E7 cells stably transfected with the IL2X reporter were stimulated with anti-TCR Ab alone ({square}) or in combination with anti-CD28 Ab ({circ}) for 3 h before the addition of CSA. Subsequently, RNA was harvested at the indicated times from untreated (open symbols) and CSA-treated (filled symbols) cells. In these experiments, the amount of IL2X mRNA in CSA-treated, anti-TCR samples after 5 h fell below the linear range of the standard curve or was not detectable and is not shown. The results shown are from one representative experiment of three performed. The same results were obtained with three independently established pools of stably transfected cells. C, Relative level of the endogenous IL-2 mRNA ({blacktriangleup}) in the same CSA-treated, anti-CD28-stimulated samples shown in B. The relative IL2X mRNA values from B (•) are displayed for comparison. The endogenous IL-2 mRNA and IL2X mRNA values in this panel are normalized to their respective untreated 3-h control.

 
mRNA coding sequences are required for responsiveness to CD28 costimulation

To explore the possibility that CD28-regulatory elements exist within the body of the IL-2 mRNA, we created internal deletions of the IL2X construct. The first of these, IL2XBC, deletes between introns B and C, removing exon 3. The mRNA produced from this construct displays a steady-state temporal profile similar to that of the wild-type construct (Fig. 3GoA, open symbols). IL2XBC mRNA is also stabilized in CD28-costimulated cells that have been treated with CSA (Fig. 3GoA, •). The degree of stabilization, however, is not quite as great as that of the wild-type mRNA. Although the level of wild-type IL-2 mRNA typically does not change during the first 2 h of CSA treatment in CD28-costimulated cells, the IL2XBC mRNA decays with an average t1/2 of 245 min (n = 2, SEM = 36 min) between 3 and 5 h. The decay of IL2XBC mRNA, compared with that of the endogenous IL-2 mRNA ({blacktriangleup}) in the same CD28-costimulated cells, is shown in Fig. 3GoB. Like IL2X, following an initial 2-h period of stability in the presence of anti-CD28, the IL2XBC mRNA decays at a rate (t1/2 = 39 min) similar to that of the endogenous IL-2 mRNA. These results demonstrate that exon 3 does not contain sequences that are essential for CD28-mediated stabilization of the IL-2 mRNA.



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FIGURE 3. Temporal expression and stability of IL2XBC mRNA. The DNA structure of the IL2XBC construct is shown at the top of the figure. See the legend to Fig. 1Go for details. mRNA values are the arithmetic average of triplicate samples. Error bars show the SEM. Where error bars are not visible, the size of the bar was smaller than the figure symbol. A, A.E7 cells stably transfected with the IL2XBC reporter were stimulated with anti-TCR Ab alone ({square}) or in combination with anti-CD28 Ab ({circ}) for 3 h before the addition of CSA. Subsequently, RNA was harvested at the indicated times from untreated (open symbols) and CSA-treated (filled symbols) cells. Results shown are from one of two experiments performed. B, Relative levels of the endogenous IL-2 mRNA ({blacktriangleup}) and the IL2XBC mRNA (•) in the same CSA-treated, anti-CD28-stimulated samples as shown in A. The endogenous IL-2 mRNA and IL2XBC mRNA values in this panel are normalized to their respective untreated, anti-CD28-stimulated, 3-h control.

 
Deletion of exon 2 along with exon 3 in the IL2XAC construct dramatically diminishes CD28-mediated mRNA stabilization. The IL2XAC mRNA in CD28-costimulated cells treated with CSA (Fig. 4Go, A and B, •) does not exhibit an initial 2-h window of mRNA stability, as is seen with the parental IL2X mRNA and the mutant IL2XBC mRNA. That the IL2XAC construct is responsive to CD28 signaling, however, is apparent early on, as demonstrated by the steady-state profile of this mRNA (Fig. 4GoA, open symbols). Decay of the IL2XAC mRNA in cells treated with anti-TCR alone (Fig. 4GoA, {blacksquare}) approximately parallels that seen in CD28-costimulated cells. The average (n = 3) t1/2 in cells treated with anti-TCR alone is 21 min (SEM = 4 min), which is the same as that of IL2X. The average t1/2 of the IL2XAC mRNA in CD28-costimulated cells during the initial 2 h following the addition of CSA is 40 min (SEM = 2 min), in contrast to the 245 min t1/2 of IL2XBC. That this alteration in the CD28-mediated stabilization of IL2XAC mRNA is a consequence of the sequences that have been deleted from this construct is illustrated by comparing the decay of IL2XAC mRNA with that of the endogenous IL-2 mRNA in the same cells. Although the relative level of the endogenous IL-2 mRNA (Fig. 4GoB, {blacktriangleup}) remains unchanged between 30 and 120 min following the addition of CSA, IL2XAC mRNA decays with a t1/2 of 37 min in this experiment (Fig. 4GoB, •). These results demonstrate that sequences within exon 2 are required for CD28-mediated mRNA stabilization and that exons 1 and 4 are not sufficient.



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FIGURE 4. Temporal expression and stability of IL2XAC mRNA. The DNA structure of the IL2XAC construct is shown at the top of the figure. See the legend to Fig. 1Go for details. mRNA values are the arithmetic average of triplicate samples. Error bars show the SEM. Where error bars are not visible, the size of the bar was smaller than the figure symbol. A, A.E7 cells stably transfected with the IL2XAC reporter were stimulated with anti-TCR Ab alone ({square}) or in combination with anti-CD28 Ab ({circ}) for 3 h before the addition of CSA. Subsequently, RNA was harvested at the indicated times from untreated (open symbols) and CSA-treated (filled symbols) cells. In these experiments, the amount of IL2XAC mRNA in CSA-treated, anti-TCR samples after 5 h fell below the linear range of the standard curve or was not detectable and is not shown. Results shown are from one representative experiment of three performed. B, Relative levels of the endogenous IL-2 mRNA ({blacktriangleup}) and the IL2XAC mRNA (•) in the same CSA-treated, anti-CD28-stimulated samples are shown. The mRNAs are normalized to their respective untreated, anti-CD28-stimulated, 3-h control. A.E7 cells stably transfected with the IL2XAC reporter were stimulated with anti-TCR Ab alone or in combination with anti-CD28 Ab for 3 h (0 timepoint) before the addition of CSA. Subsequently, RNA was harvested at the indicated times.

 
To determine the contribution of coding sequences within exon 4 to CD28-mediated mRNA stabilization, sequences between the 3' boundary of exon 2 and the stop codon in exon 4 were deleted to generate the IL2X24 construct. As observed for the IL2XAC mRNA, the steady-state profile of the IL2X24 mRNA demonstrates that this construct is responsive to CD28 signaling (Fig. 5GoA); however, there is again no initial period of mRNA stabilization in CD28-costimulated cells (Fig. 5GoB). In cells treated with CSA and anti-TCR alone, the average (n = 4) t1/2 of IL2X24 mRNA is 34 min (SEM = 2 min). This is longer than that of IL2X, indicating that IL2X24 mRNA may be slightly more stable in the absence of costimulation. The average t1/2 of the IL2X24 mRNA in CD28-costimulated cells during the first 2 h following the addition of CSA is 55 min (SEM = 4 min), in contrast to IL2X, which does not decay during the same interval. The slightly longer t1/2 of the IL2X24 mRNA relative to that of IL2XAC in CD28-costimulated cells probably reflects the enhanced intrinsic stability of this mRNA. Nonetheless, comparison of the decay of IL2X24 mRNA with that of the endogenous IL-2 mRNA ({blacktriangleup}) in the same CD28-costimulated cells between 30 and 120 min following the addition of CSA clearly shows that the failure to stabilize the IL2X24 mRNA is due to a deletion of sequences within this construct (Fig. 5GoB). These results demonstrate that sequences within the coding region of exon 4 are also required for CD28-mediated mRNA stabilization and that exons 1 and 2 and the 3' UTR are not sufficient.



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FIGURE 5. Temporal expression and stability of IL2X24 mRNA. The DNA structure of the IL2X24 construct is shown at the top of the figure. See the legend to Fig. 1Go for details. mRNA values are the arithmetic average of triplicate samples. Error bars show the SEM. Where error bars are not visible, the size of the bar was smaller than the figure symbol. A, A.E7 cells stably transfected with the IL2X24 reporter were stimulated with anti-TCR Ab alone ({square}) or in combination with anti-CD28 Ab ({circ}). Results shown are from one representative experiment of six performed. B, A.E7 cells stably transfected with the IL2X24 reporter were stimulated with anti-TCR Ab with or without anti-CD28 Ab for 3 h (0 timepoint) before the addition of CSA. Subsequently, RNA was harvested at the indicated times. The relative level of IL2X24 mRNA in CSA-treated cells stimulated with anti-TCR Ab alone ({blacksquare}) or in combination with anti-CD28 Ab (•) is shown. The relative level of the endogenous IL-2 mRNA ({blacktriangleup}) in the same cells is also shown. In this panel, the IL2X24 and IL-2 mRNAs are normalized to their respective untreated, anti-CD28-stimulated, 3-h control. Results shown are from one representative experiment of four performed.

 
CD28 signaling regulates mRNA instability conferred by the 3' UTR and upstream sequences

In several systems in which IL-2 or an IL-2 reporter are constitutively expressed, mRNA stabilization is associated with deletion of the 3' UTR. Experiments with the c-fos mRNA, which like IL-2 contains AUUUA elements within its 3' UTR, have shown that the influence of the 3' UTR on mRNA stability is affected by the level and mode of gene expression (17, 37). To determine in our inducible system the contribution of the IL-2 3' UTR to the observed changes in IL2X mRNA levels, we substituted the 3' UTR and poly(A) signal from the SV40 late region for the 3' UTR and poly(A) signal of IL-2 in our genomic construct. In the absence of the IL-2 3' UTR, this construct (IL2XpA) continued to exhibit significant responsiveness to anti-CD28 (Fig. 6GoA), the magnitude of which was greatest at early timepoints. In cells stimulated through the TCR alone, IL2XpA mRNA (Fig. 6GoA, –{square}–) reaches higher steady-state levels and persists much longer than does IL2X mRNA (Fig. 6GoA, --{square}--). Furthermore, IL2XpA mRNA levels achieved by TCR stimulation alone reach and even exceed at later times the levels of IL2X mRNA obtained with CD28 costimulation (Fig. 6GoA, --{circ}--). The dramatic difference in the temporal profile of the IL2X and IL2XpA mRNAs in cells stimulated with anti-TCR alone illustrates the destabilizing effect of the native 3' UTR on IL-2 mRNA. That this difference is due to enhanced mRNA stability is demonstrated by the decay curve for IL2XpA mRNA in TCR-stimulated cells treated with CSA (Fig. 6GoB, –{blacksquare}–). IL2XpA mRNA levels remain unchanged for 240 min following the addition of CSA, in contrast to IL2X mRNA, which decays with a t1/2 of 20 min (Fig. 6GoB, --{blacksquare}--). Only later (after 7 h) does the IL2XpA mRNA begin to decay (t1/2 = 124 min), but at a rate considerably slower than that of IL2X.



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FIGURE 6. Temporal expression of IL2XpA mRNA. The DNA structure of the IL2XpA construct is shown at the top of the figure. See the legend to Fig. 1Go for details. mRNA values are the arithmetic average of triplicate samples. Error bars show the SEM. Where error bars are not visible, the size of the bar was smaller than the figure symbol. A, A.E7 cells stably transfected with the IL2X (dashed line) or the IL2XpA (solid line) reporter were stimulated in parallel with anti-TCR Ab alone ({square}) or in combination with anti-CD28 Ab ({circ}). mRNA levels were normalized to the amount of 4 h IL2XpA mRNA in the presence of anti-TCR Ab alone. The relative amounts of IL2X and IL2XpA mRNA were corrected for the 1.5-fold difference in transgene copy number in the transfectants (data not shown). Results shown are from one representative experiment of three performed. B, A.E7 cells stably transfected with the IL2XpA reporter were stimulated with anti-TCR Ab alone for 3 h before the addition of CSA. Subsequently, RNA was harvested at the indicated times from untreated ({square}) and CSA-treated ({blacksquare}) cells. Results shown are from one representative experiment of three performed. For comparative purposes, results from an independently performed experiment with the IL2X reporter (shown in Fig. 2GoB) are reproduced in this panel (dashed line) after correction for differences in transgene copy number. C, A.E7 cells stably transfected with the IL2XpA reporter were stimulated with anti-TCR Ab alone ({square}) or in combination with anti-CD28 Ab ({circ}) for 3 h before the addition of CSA. Subsequently, RNA was harvested at the indicated times from untreated (open symbols) and CSA-treated (filled symbols) cells. Results shown are the average of two independently performed experiments. D, A.E7 cells stably transfected with the IL2XpA reporter were stimulated with anti-TCR Ab alone ({square}) or in combination with anti-CD28 Ab ({circ}) for 2 h before the addition of CSA. Subsequently, RNA was harvested at the indicated times from untreated (open symbols) and CSA-treated (filled symbols) cells. Results shown are from a single experiment.

 
Unexpectedly, the IL2XpA mRNA in cells treated with CSA after 3 h of CD28 costimulation (Fig. 6GoC, •) was less stable than in CSA-treated cells that had been stimulated through the TCR alone. In CD28-costimulated cells, the level of IL2XpA mRNA shows little change during the first 2 h following the addition of CSA, but subsequently decays with an average (n = 3) t1/2 of 144 min (SEM = 14 min) between 5 and 8.5 h. In cells stimulated with anti-TCR alone and treated with CSA (Fig. 6GoC, {blacksquare}), the average t1/2 of the IL2XpA mRNA is 244 min (SEM = 18 min) for the same interval. Under both sets of stimulation conditions, IL2XpA mRNA decays rapidly after 8.5 h, with a t1/2 = 30 min. Addition of CSA at 2 h following stimulation gave similar results (Fig. 6GoD). Under these conditions, the apparent mRNA t1/2 in cells stimulated with anti-TCR alone (Fig. 6GoD, {blacksquare}) is 286 min from 4 to 7 h vs 118 min in costimulated cells (Fig. 6GoD, •) during the same interval. Again, there is subsequently a more rapid rate of decay after 7 h. These results suggest the presence of an additional mRNA instability element upstream of the 3' UTR that is manifest only in CD28-costimulated cells.

To explore this new component of mRNA instability further, we deleted sequences between nt 384 in exon 3 and the stop codon in IL2XpA. This resulted in an mRNA ({Delta}IL2XpA) that exhibits a steady-state temporal pattern similar to its parent (IL2XpA), exhibiting an early rise in response to anti-CD28 and a prolonged plateau of mRNA levels (Fig. 7GoA, open symbols). In addition, the stability of the {Delta}IL2XpA mRNA in CSA-treated cells stimulated with anti-TCR alone (Fig. 7GoB, {blacksquare}) was similar to that of the IL2XpA parent (Fig. 6GoB, {blacksquare}). In CD28-costimulated cells, however, {Delta}IL2XpA mRNA (Fig. 7GoB, •) did not display the accelerated decay rate observed with the IL2XpA mRNA between 5 and 8 h. To demonstrate that this difference is not due to variability between experiments, we measured the mRNAs in IL2XpA and {Delta}IL2XpA stable transfectants that were stimulated, harvested, and assayed simultaneously. After the addition of CSA at 3 h to anti-CD28-costimulated cells, the level of {Delta}IL2XpA mRNA (Fig. 7GoC, •) remained unchanged between 5 and 8 h, whereas the IL2XpA mRNA (Fig. 7GoC, {blacktriangleup}) decayed, with a t1/2 of 105 min during the same interval. These experiments map an element necessary for CD28-dependent instability to the sequences between nt 384 in exon 3 and the stop codon of the IL-2 mRNA.



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FIGURE 7. Temporal expression and stability of {Delta}IL2XpA mRNA. The DNA structure of the {Delta}IL2XpA construct is shown at the top of the figure. See the legend to Fig. 1Go for details. mRNA values are the arithmetic average of triplicate samples. Error bars show the SEM. Where error bars are not visible, the size of the bar was smaller than the figure symbol. A, A.E7 cells stably transfected with the {Delta}IL2XpA reporter were stimulated with anti-TCR Ab alone ({square}) or in combination with anti-CD28 Ab ({circ}). Results shown are from one representative experiment of six performed. B, A.E7 cells stably transfected with the {Delta}IL2XpA reporter were stimulated with anti-TCR Ab alone ({square}) or in combination with anti-CD28 Ab ({circ}) for 2 h before the addition of CSA. Subsequently, RNA was harvested at the indicated times from untreated (open symbols) and CSA-treated (filled symbols) cells. Results shown are from one representative experiment of five performed. C, A.E7 cells stably transfected with the IL2XpA or the {Delta}IL2XpA reporter were stimulated with anti-TCR Ab in combination with anti-CD28 Ab for 3 h before the addition of CSA. Subsequently, RNA was harvested at the indicated times. The relative amounts of the IL2XpA ({blacktriangleup}) and the {Delta}IL2XpA (•) mRNAs in CSA-treated, anti-CD28-stimulated samples normalized to their respective untreated 3-h controls are shown. Results shown are from one representative experiment of three performed.

 

    Discussion
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
Stabilization of cytoplasmic IL-2 mRNA is a well recognized but not fully elucidated consequence of CD28 costimulation. Although cytokine mRNA 3' UTR sequences have long been known to impart instability to a heterologous mRNA, it was only recently that the same sequences were implicated in responsiveness to CD28 signaling (20, 21). In that system, the first IL-2 exon was also required and neither the CD28 unresponsive c-fos 3' UTR nor, surprisingly, the CD28 responsive GM-CSF 3' UTR could substitute for the IL-2 3' UTR (20). Those findings indicate that there is either tremendous specificity in the proteins that presumably interact with the 3' UTR or that sequence-specific interactions between the 5' and 3' UTRs of a given mRNA are necessary for stabilization. Using an inducible sequence-tagged genomic IL-2 reporter, we demonstrate that additional sequences within the coding region of the IL-2 mRNA are required for stabilization of the mRNA in CD28-costimulated cells. Our results, which are summarized in Fig. 8Go, indicate that sequences within both exons 2 and 4 are required for CD28 responsiveness and that exons 1 and 4 are not sufficient. The latter conclusion is also supported by our observation that a rabbit ß-globin reporter containing the IL-2 5' and 3' UTR is unresponsive to CD28 signaling (data not shown).



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FIGURE 8. CD28-responsive elements within IL-2 mRNA. The structure of the IL-2 mRNA is shown. Open boxes numbered 1–4 correspond to the IL-2 exons. The positions of the start codon (ATG), stop codon (TAA), and RNA 3' UTR instability element (ATTTA) are shown. The location of the various CD28-responsive elements identified within the IL-2 mRNA are shown below the IL-2 mRNA map. These conclusions are based on the constructs studied in this paper, whose properties are summarized in the table below the figure, and on those of Chen et al. (20).

 
The requirement for multiple, topographically separated sequences in the IL-2 mRNA to participate in CD28-mediated stabilization indicates that a higher order RNA structure may be involved in the process. A similar proposal has been made for the IL-11 mRNA, the phorbol ester-induced stabilization of which has also been found to require sequences dispersed throughout the transcript (41). Such structures could be the consequence of RNA-RNA interactions or could be secondary to protein-protein interactions between trans-acting factors that bind to disparate regions of the mRNA. We are currently working to distinguish between these possibilities and to identify RNA binding proteins that are specific to the CD28 pathway.

The transient nature of CD28-induced IL-2 mRNA stabilization and its rather abrupt cessation suggest that this is a tightly regulated process. Control of this process is thus probably mediated by a rapidly reversible mechanism, such as protein phosphorylation. It has been reported that activation of the c-Jun NH2-terminal kinase (JNK) is up-regulated by CD28 (42). Furthermore, inhibitors of JNK activation reduce the CD28-mediated stabilization of IL-2 mRNA, suggesting that JNK is involved in this CD28 pathway (20). Chen et al. found that both a portion of the first IL-2 exon and the 3' UTR were required for JNK-dependent stabilization of a constitutively expressed chimeric IL-2 reporter mRNA in the presence of Act D (20). Deletion of the 5' UTR from the exon 1 IL-2 sequences of the chimeric reporter, however, only partially reduced mRNA stability, while completely abolishing JNK-dependent stabilization.

This last observation, along with the partial blockade of IL-2 mRNA stabilization by inhibitors of JNK, suggests that at least two mechanisms are involved in the CD28-induced stabilization of the IL-2 mRNA. One of these involves JNK and is blocked by inhibitors of JNK activation, such as CSA (42). The other(s) is independent of JNK and resistant to CSA. The use of CSA to selectively block IL-2 transcription in our experiments may consequently have resulted in a blockade of the JNK-dependent component of CD28-induced mRNA stabilization. Therefore, our observation that coding region sequences in exons 2 and 4 are required for CD28-mediated IL-2 mRNA stabilization may represent a sequence requirement that is specific to the CSA-resistant component of mRNA stabilization (Fig. 8Go). Alternatively, this sequence requirement may reflect other differences in the experimental systems used, such as the use of constitutive vs inducible promoters or the presence of foreign sequences and tandem 5' UTRs in the reporter of Chen et al. (20).

We chose not to use Act D in our experiments because of its previously reported stabilization of IL-2 and other mRNAs (15, 34, 37, 38, 43). A comparative analysis of Act D and CSA in human PBLs demonstrated that IL-2 mRNA decayed in CSA-treated cells with the same kinetics that were observed upon mitogen withdrawal. By contrast, IL-2 mRNA levels remained unchanged over the same time interval in Act D-treated cells (34). Others, however, have reported IL-2 mRNA decay in the presence of Act D (14, 20). Collectively, these studies suggest that there are also at least two components of IL-2 mRNA decay: one that is blocked in the presence of Act D and another that is unaffected by Act D. These two components of IL-2 mRNA decay may be differentially affected by CD28 costimulation. The enhanced decay of IL-2 mRNA in Act D-treated cells that also receive CSA suggests that this is the case (20).

Our results also indicate that there are two IL-2 mRNA instability sequence elements that are influenced by CD28 signaling in CSA-treated cells (Fig. 8Go). The principal element resides within the IL-2 3' UTR and presumably is the AUUUA sequence that had been found there previously. Determination of the mRNA levels produced from the inducible IL2XpA and {Delta}IL2XpA genomic constructs supports previous results in which a constitutively expressed IL-2 cDNA construct with a partial IL-2 3' UTR and a rabbit ß-globin poly(A) signal produced higher levels of IL-2 protein (18). Taken together, these results indicate that the instability conferred by the IL-2 3' UTR is not dramatically influenced by the mode of gene expression. One cannot conclude from this, however, that CD28 responsiveness is independent of the mode of gene expression.

Sequence instability elements have also been identified outside the 3' UTR of several mRNAs (37, 41, 44, 45). The existence of a second sequence element outside of the IL-2 mRNA 3' UTR that confers instability is suggested in our studies by the enhanced decay of the IL2XpA mRNA in CD28-costimulated cells relative to cells stimulated through the TCR alone, and by the insensitivity of the {Delta}IL2XpA mRNA to this effect. The latter demonstrates that the CD28-induced instability observed with the IL2XpA mRNA is not simply due to the presence of an SV40 3' UTR or poly(A) signal and localizes a sequence element necessary for this instability to the region between nt 384 in exon 3 and the stop codon (Fig. 8Go).

Precedence for CD28 down-regulatory rather than up-regulatory signaling comes from an examination of the expression of the {alpha} inhibitor of NF-{kappa}B (I{kappa}B{alpha}), CCR5, and Nil-2a levels in response to CD28 signaling (46, 47, 48). In our A.E7 T cell system, we have also observed a down-regulation of mouse CCR5 mRNA in response to CD28 costimulation (data not shown). Whereas CD28-induced IL-2 mRNA stabilization is detectable as early as 2 h and is over by 5 h, CD28-induced mRNA decay, which is mediated through coding region elements, is not apparent until after 5 h. These kinetics suggest that CD28-induced IL-2 mRNA stabilization may be counterregulated by a late acting, CD28-induced decay mechanism. The instability conferred by the IL-2 coding region element is small (2-fold) relative to that caused by the 3' UTR. Nonetheless, the effect of the second element is readily apparent in the absence of the 3' UTR, but remarkably, only in cells that have been CD28 costimulated. The dire biological consequences of a 2-fold change in mRNA t1/2 have recently been demonstrated for TNF-{alpha}. In this case, mice lacking an RNA binding protein that interacts with the ARE of the TNF-{alpha} mRNA develop a spectrum of autoimmune diseases that is entirely attributable to the alteration in TNF-{alpha} mRNA t1/2 (25).


    Acknowledgments
 
We thank Mark Pineda for excellent technical assistance and Drs. Ronald Germain, Luciano D’Adamio, and Kuan-Teh Jeang for critical reading of the manuscript and helpful discussions. We also thank Dr. Brigitte Huber for the IL-2 genomic clone.


    Footnotes
 
1 Address correspondence and reprint requests to Dr. Ronald H. Schwartz, Laboratory of Cellular and Molecular Immunology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD 20892-0420. E-mail address: Back

2 Abbreviations used in this paper: ARE, AU-rich sequence element; UTR, untranslated region; PCC, pigeon cytochrome c; 6-FAM, 6-carboxyfluorescein; CSA, cyclosporin A; Act D, actinomycin D; JNK, c-Jun NH2-terminal kinase; RT, reverse transcriptase. Back

Received for publication November 4, 1998. Accepted for publication April 9, 1999.


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M. Sanchez-Lockhart, E. Marin, B. Graf, R. Abe, Y. Harada, C. E. Sedwick, and J. Miller
Cutting Edge: CD28-Mediated Transcriptional and Posttranscriptional Regulation of IL-2 Expression Are Controlled through Different Signaling Pathways
J. Immunol., December 15, 2004; 173(12): 7120 - 7124.
[Abstract] [Full Text] [PDF]