Nucleic Acids Research, 2000, Vol. 28, No. 5 1120-1125
© 2000 Oxford University Press
The tetracycline-responsive promoter contains functional interferon-inducible response elements
Heinrich-Pette-Institut, Martinistraße 52, D-20251 Hamburg, Germany
Received November 15, 1999; Revised and Accepted November 23, 1999.
| ABSTRACT |
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Tetracycline (tet)-responsive expression vectors allow controlled inducible expression of proteins in mammalian cells. This system is widely used for experimental research both in vivo and in vitro. In our attempts to use this system to study the antiviral effect of IFN
on hepatitis B virus, we discovered an unexpected feature of the tet-responsive promoter (tet promoter) of the currently available expression vectors. IFN
was found to stimulate tet promoter activity after transient transfection in a dose- and cell type-dependent manner. By sequence inspection, an IFN
-stimulated response element (ISRE)-like sequence was identified in the linker regions located between the heptameric tet operator sequences. Gel shift assays revealed binding of IFN-stimulated gene factors to these sequences, indicating that they mediate the IFN
-mediated promoter stimulation. These data demonstrate an unexpected feature of the tet-responsive expression system which needs to be taken into acount when using this system for analysis of cytokine functions in vitro and in vivo. The data also imply that the tet promoter-based expression system can be rendered non-responsive to IFN
by mutagenesis of the ISREs and this may be essential when considering gene therapy in vivo. | INTRODUCTION |
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The tetracycline (tet)-responsive expression system generated by Gossen and Bujard (1) provides a genetic tool for controlled gene expression in eukaryotic cells that is highly appreciated in the scientific community, as illustrated by a correspondingly huge number of research articles. The inducibility of this system is based on regulatory elements of the Tn10 encoded tetracycline resistance operon of Escherichia coli (2). For generation of an inducible tet-responsive transactivator (tTA) the tet repressor of Tn10 of E.coli was fused to the transactivating domain of virion protein 16 (VP16) of herpes simplex virus (1). This fusion protein binds to the tetracycline-responsive operator (tet operator) region inserted as a heptamer separated by linker sequences and placed immediately upstream of a minimal CMV promoter. Mediated by the VP16 domain, the binding of tTA to the tet operators results in activation of the promoter (designated from here on as the tet promoter). In the presence of tet, tTA does not bind to the tet operator and therefore the promoter is inactive, whereas withdrawal of tet allows its activation. Thus, the promoter activity can be reversibly switched on and off, which allows controlled expression of an individual gene in vitro and in vivo (36). Besides exploitation of this expression system for the study of gene function in complex genetic environments, many attempts have been initiated to apply this system to gene therapy (79).
Inducible viral RNA synthesis, which can be switched off at specific times when using the tet system, offers an excellent opportunity to study post-transcriptional mechanisms in virushost interactions. We have recently demonstrated that IFN
inhibits hepatitis B virus (HBV) gene expression at two levels at least, one of which involves post-transcriptional degradation of RNA and the other leads to a reduction in replicative intermediates and/or core protein (10). The aim of our current study was to characterize the corresponding mechanisms using the tet system. HBV is a small (3.2 kb) enveloped DNA virus, the replication of which involves reverse transcription of a pregenomic RNA (11). Reverse transcription of the pregenomic RNA takes place within nucleocapsids in the cytoplasm. Nucleocapsids containing replicative DNA intermediates are either shuttled to the endoplasmic reticulum and there converted to mature virions for transport out of the cell or to the nucleus for the establishment of a pool of covalently closed circular DNA (12). The circular DNA in the nucleus serves as template for transcription of the pregenomic and subgenomic RNAs, which initiate at different promoters on the circular genome but share a common 3'-end.
World wide, there are more than 300 000 000 people suffering from chronic HBV infection. Treatment of chronic HBV carriers with IFN
is one of the few effective interventions for patients with hepatitis B. It results in an efficient reduction in the viral load in only 1020% of treated patients and rarely, if at all, in complete virus elimination. So far, the mechanisms induced by IFN
responsible for the reduction in viremia in responding patients are still elusive. IFN
is known to induce a so-called antiviral state in treated cells that interferes with viral infection (13). The antiviral state is principly mediated by the induction of IFN-inducible genes (14). Gene induction involves binding of IFN
to a specific cell surface receptor followed by tyrosine phosphorylation of the receptor, of cytoplasmic protein tyrosine kinases Tyk2 and Jak1 and of latent cytoplasmic transcription factor subunits called STATs (signal transducers and activators of transcription) (1520). The STATs then assemble to form functional IFN-stimulated gene factors (ISGF) which translocate into the nucleus. Within the nucleus the ISGFs specifically interact with IFN-stimulated response elements (ISRE) located within the promoter region of IFN
-inducible genes. So far, three major ISGF complexes, ISGF1, ISGF2 and ISFG3, have been characterized which bind ISRE and regulate the expression of IFN
-inducible genes. Binding of ISGF2 and ISGF3 to ISRE mediates positive transcriptional regulation, and ISGF1 is currently believed to act negatively on ISGF2 (20). Binding of ISGFs can be detected by gel mobility shift assays, for example with a labeled ISRE oligonucleotide derived from the promoter of IFN-stimulated gene 15 (ISG15) (21).
Here we describe the identification of functional ISREs located within the tet promoter region which renders the promoter IFN
responsive in transiently transfected cells. The data reveal a novel feature of the tet promoter, which needs to be taken into account when using this inducible expression system and limits its use in studies on cytokine functions.
| MATERIALS AND METHODS |
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Plasmids
Plasmid ptetHBV (22) was kindly provided by Dr Christoph Seeger. This plasmid contains a more than full-length HBV genome in which synthesis of the pregenomic RNA is under control of the tet promoter. For our experiments this plasmid was modified by converting the start codon of the HBV preS1 envelope protein encoding gene from ATG to ACG. This was achieved by PCR-mediated oligo-directed mutagenesis. Correct mutagenesis was verified by sequencing of the amplified region. This plasmid was designated ptetHBV-M1T.
Plasmid pHBV-dimer contains a HBV head-to-tail dimer DNA of subtype ayw cloned via the EcoRI site (23). All HBV RNAs derived from this plasmid are transcribed under control of the authentic viral promoters. Plasmids pUHD15-1, which expresses the tTA, and pUHC13-3, which codes for the luciferase gene of Photinus pyralis, expression of which is under control of the tet promoter, were kindly provided by Dr M. Gossen (1).
Cell culture and transfection procedure
Human HuH7-, U2-OS and 293 cells were maintained as monolayers in Dulbeccos modified Eagles medium supplemented with 10% fetal calf serum. All plasmid DNAs used for transfection were purified by ion exchange chromatography and were transfected using the transfection reagent Fugene 6 (Roche Diagnostics, Mannheim, Germany) according to the supplied protocol. Cells (5 x 105 cells/2.5 cm well) were transfected with 1 µg of ptetHBV-M1T, pHBV-dimer or pUHC13-3 and 0.2 µg pUHD15-1. At different times after transfection tet-regulated expression was turned off by addition of 2 µg/ml tet (Sigma, Deisenhofen, Germany) to the medium. Twenty-four hours after turn off by addition of tet, IFN
-2b (1.000 IU/ml, Intron A; Essex Pharma, Munich, Germany) was added to the medium and cells were harvested for analysis at the times indicated.
Purification of HBV DNA from intracellular core particles and HBV RNA
Total RNA was prepared by use of an anion exchange procedure (RNeasy; Qiagen, Hilden, Germany) according to the supplied protocol. For isolation of intracellular HBV DNA, cells were washed with ice-cold PBS and lysed in 0.5 ml lysis buffer (50 mM TrisHCl, pH 7.4, 1 mM EDTA, 1% Nonidet P-40) per 2.5 cm well. Nuclei were pelleted by centrifugation for 1 min at 14 000 r.p.m. in a table top centrifuge. The supernatant was adjusted to 10 mM MgCl2 and treated with 100 mg/ml DNase I for 30 min at 37°C for digestion of non-encapsidated viral DNA. DNase I digestion was stopped by adding EDTA to a final concentration of 25 mM. Proteins were digested with 0.5 mg/ml proteinase K in 1% SDS for 2 h at 37°C. Nucleic acids were purified by phenol/chloroform (1:1) extraction and ethanol precipitation after adding 20 µg tRNA.
Southern and northern blot analysis
DNA isolated from cytoplasmic core particles was separated on a 1.5% agarose gel. Twenty micrograms of total RNA were separated on a 1.5% agaroseformaldehyde gel. DNAs and RNAs were blotted onto Hybond N nylon membranes (Amersham International, Little Chalfont, UK) and hybridized with a 32P-labeled gel-purified full-length HBV fragment. Probes were generated using a random primed labeling kit (Amersham International). Blots were exposed to Fuji imaging screens and quantified with a Fujix BAS 2000 Bio-imaging Analyzer (Fuji, Tokyo, Japan) and by TINA software (Raytest, Straubenhardt, Germany). Signal intensities were quantified within the linear range.
Protein extracts and gel mobility shift assay
Nuclear protein extracts were prepared as described previously (24). Briefly, after cell lysis on ice for 10 min, nuclei were collected by centifugation in a table top centrifuge for 1 min at 4°C (14 000 r.p.m.), resuspended in high salt buffer and incubated on ice for 20 min. After centrifugation for 10 min at 4°C (14 000 r.p.m.) the supernatant containing the soluble nuclear proteins was recovered. Protein content was determined according to Bradford (25). For gel mobility shift assays 5 µg of nuclear proteins were preincubated for 5 min at room temperature with 4 µg of poly(dI-dC) and 100 ng of unrelated single-strand oligonucleotide (5'-GGT TGT TGA TTA TCA TTG AGA TTC CCG AG-3') in 25 µl of 20 mM HEPES (pH 7.9), 50 mM NaCl, 1 mM MgCl2, 0.1 mM EGTA, 0.5 mM dithiothreitol, 0.1% Nonidet P-40 and 10% glycerol. After addition of 32P-labeled double-stranded ISG15 oligonucleotide (20 000 c.p.m., corresponding to ~2 fmol) and incubation for 20 min at room temperature, DNAprotein complexes were analyzed on 6% acrylamide (80:1) gels run in 0.5x TBE. For competition unlabeled double-stranded oligonucleotides were used at 5-, 50- and 500-fold molar excess.
Double-stranded oligonucleotides used as probe and/or as competitor in gel mobility shift assays (upper strand): ISG15, 5'-GGG AAA GGG AAA CCG AAA CTG AAG CC-3'; Tet-ISRE, 5'-TGA TAG AGA AAA GTG AAA GTC GAG TTT ACC AC-3'; random oligo, 5'-GAT ATA GAT TCT GAT TTT GGA GAA GAG TCT CTC TTT GAT CTG TTC CTC TCA GA-3'.
Luciferase assay
Quantification of luciferase activity in transfected cells was performed by use of the Promega luciferase assay system (Promega, Madison, WI) and a Microlumat LB96P (Berthold, Wildbad, Germany) according to the manuals supplied.
| RESULTS AND DISCUSSION |
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Tetracycline-mediated control of synthesis of HBV replicative intermediates in a transient transfection system
In order to study whether IFN
leads to a direct reduction in mature replicative intermediates, we needed a system which allows controlled expression of these molecules. After accumulation of mature replicative intermediates further synthesis should be prevented before addition of IFN
. We reasoned that this aim could be achieved by using the tet-controlled expression system and by preventing envelopment of the core particles and their secretion (26). Therefore, we used plasmid ptetHBV-M1T which allows tet-controlled expression of the pregenomic HBV RNA from which no preS1 protein can be synthesized (see Materials and Methods). First, we tested whether synthesis of replicative intermediates can be regulated tightly by tet after transient transfection of human hepatoma HuH7 cells, which are known to replicate the virus. Therefore, the amount of intracellular replicative DNA intermediates produced in HuH7 cells treated with and without tet before co-transfection of the plasmids ptetHBV-M1T and pUHD15-1 was determined by Southern blotting. There were large amounts of replicative DNA intermediates in HuH7 cells when grown in the absence of tet and hardly detectable levels when tet was present (Fig. 1). Quantitative analysis of the signals with a bioimager indicated an induction factor of about 100. These data demonstrate that production of replicative intermediates can be well, though not 100% tightly, controlled by tet in this transient transfection system.
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IFN
enhances synthesis of replicative intermediates and pregenomic RNA after tet promoter switch off by tetNext we tested whether IFN
treatment of the transfected cells leads to a reduction in mature replicative DNA intermediates, similar to as described recently for HuH7 cells transiently transfected with a dimer of HBV DNA without foreign inducible promoter control. In order to analyze this, HuH7 cells were transfected with the tet promoter-controlled HBV construct and synthesis of pregenomic RNA was allowed for 3 h in the absence of tet. Synthesis of the pregenomic RNA was then switched off by addition of tet for the remaining time of the experiment. Twenty-four hours after switch off of pregenomic RNA synthesis, most of the pregenomic RNA was reverse transcribed, as was evident by northern blotting (data not shown), and synthesis of new intracellular intermediates was minimal. Therefore, IFN
was added at this time point and then the amount of replicative intermediates was analyzed by Southern blotting 48 h later, in both IFN
-treated and non-treated cells. Surprisingly, in cells treated with IFN
the levels of replicative intermediates were significantly higher than in non-treated cells (Fig. 2). This was observed reproducibly in three independent experiments (data not shown). In contrast, HuH7 cells transfected with the HBV dimer DNA had significantly reduced levels of intracellular replicative intermediates after IFN
treatment, as expected (10). In order to test whether the IFN
-mediated increase in intracellular replicative intermediates in the tet system is due to enhanced levels of pregenomic RNA, we analyzed the viral transcripts by northern blotting 24 and 48 h after IFN
addition. At both time points the ratio of pre-genomic RNA to envelope RNA was clearly enhanced in cells treated with IFN
(Fig. 3). As the envelope mRNA is constitutively expressed whereas the pregenomic RNA is under control of the tet promoter, these data suggest that the tet promoter is either activated by IFN
or the half-life of the pregenomic RNA is selectively increased by IFN
.
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The tet promoter contains a functional ISRE
In order to investigate whether the IFN
-mediated enhanced pregenomic RNA levels in cells transfected with the tet promoter-controlled HBV construct may be due to activation of the tet promoter, we first searched for a potential ISRE element in the tet vector. Computer-based sequence analysis revealed sequences with striking homology to the consensus sequence of ISRE in the tet promoter, diverging only at the very 5'- and 3'-ends of the region (Fig. 4). This ISRE-like sequence does not overlap with the tTA binding site in the operator sequences but is exclusively part of the linker sequence separating the tet heptameric operators (1).
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To determine whether the ISRE-like region represents a functional ISRE, gel mobility shift assays were performed. Nuclei of HuH7 cells treated or not for 4 h with IFN
were isolated and incubated with a 32P-labeled double-stranded ISG15 ISRE oligonucleotide as bait for IFN-stimulated gene transcription factors. Thereafter, DNAprotein complexes were analyzed on an acrylamide gel. As expected, an increase in DNAprotein complexes was detected in nuclei of IFN
-treated cells compared to untreated cells (Fig. 4, lanes 1 and 2). Specificity of the DNAprotein complexes was tested by addition of increasing amounts of unlabeled ISG15 oligonucleotide to the nuclear extract from IFN
-treated cells. Addition of unlabeled ISG15 oligonucleotide competed in a dose-dependent manner with the labeled ISG15 oligonucleotide (Fig. 4, lanes 35). The highest ratio of unlabeled to labeled ISG15 oligonucleotide (500-fold) led to almost complete competition and disappearance of the DNAprotein complex (Fig. 4, lane 6). Similar efficient competition was observed with increasing amounts of the unlabeled tet ISRE (Fig. 4, lanes 68), while an unlabeled random oligonucleotide did not compete with the labeled ISG15 ISRE (Fig. 4, lanes 9 and 10). These data clearly demonstrate that the ISRE-like sequence of the tet promoter can bind IFN-stimulated transcription factors and suggest that it confers IFN
-stimulation of the tet promoter.
IFN
-stimulated tet promoter activity is cell line specific and independent of the tet transactivator
To further characterize IFN
-induced stimulation of the tet-responsive vector system, its dependence on IFN
dosage, tTA and type of cell line was determined. As a reporter gene we used the luciferase gene under control of the tet promoter (plasmid pUHC13-3) to exclude any influence of HBV DNA sequences. First, we tested whether the reporter gene construct is tet responsive in HuH7 cells. Therefore, pUHC13-3 and pUHD15-1 were co-transfected into HuH7 cells. This resulted in an ~800-fold induction of luciferase activity in untreated cells compared to cells treated with tet as determined 24 h after transfection (data not shown). The effect of IFN
dose (01000 U/ml) on tet promoter stimulation was analyzed in HuH7 experiments using the same tet promoter switch on and off parameters as in Figure 2. Approximately 2-fold increased tet promoter activity was observed with an IFN
dose as low as 50 U/ml, approximately 4-fold stimulation at a dose of 200 U/ml and a 3-fold stimulation with 1000 U/ml (Fig. 5A). These data indicate that the tet promoter is increasingly stimulated by IFN
at low dosage and stimulation levels off or even decreases slightly when using higher IFN
concentrations.
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To determine whether IFN
-induced stimulation depends on the presence of the tTA, transfection experiments were performed with and without co-transfection of plasmid pUHD15-1, constitutively expressing tTA. Irrespective of the expression of tTA, the tet promoter was stimulated approximately 4-fold (Fig. 5B). Therefore, stimulation does not depend on the tTA. As the levels of luciferase activity measured in cells lacking tTA is even slightly higher than that in cells constitutively expressing tTA, all luciferase activity must be independent of tet promoter activation by tTA. The findings also imply that the tet promoter has a rather high activity in transiently transfected HuH7 cells which cannot be switched off by addition of tet. Note that the initial expression pulse of 3 h cannot account for the luciferase activity because the half-life of luciferase is ~3 h (27,28) and its expression was measured 2 days after addition of tet.
When the same type of experiment was performed in human embryonal kidney cells (293 cells) we also found rather high tet promoter activity which could not be switched off by addition of tet (Fig. 5C). However, in this cell line the tet promoter could not be significantly activated further by IFN
(Fig. 5C). This is most likely due to adenovirus 5-derived E1A protein, which is constitutively expressed in 293 cells (29) and is a known inhibitor of IFN-induced activation of ISGF3 (30,31). These data further confirm our conclusion that the stimulation of tet promoter activity by IFN
is mediated by ISGF3 and the ISREs of the tet promoter. Previously reported transfection experiments in HuH7 cells with an IFN-non-responsive CMV-SEAP expression vector (10), which has virtually the same vector sequences as the tet vectors except for the heptameric tet operator region, excludes the theoretical possibility that other vector sequences mediate IFN responsiveness as well.
In order to investigate whether tet promoter activity can be stimulated by IFN
in other cell lines than in HuH7 cells we performed the same experiment in human osteosarcoma U2-OS cells, which are IFN
responsive (32). Unexpectedly, IFN
addition did not increase tet promoter activity but led to a slight decrease compared to basal tet promoter activity in the presence of tet (Fig. 5C). This may be due to the fact that we are dealing with an ISRE-like sequence which is not completely identical to the consensus sequence and therefore its function may depend on cell type-specific factors binding close to or at the ISRE-like sequence. Whatever the reason may be, our data imply that the tet promoter is not IFN
responsive in all cell lines. Therefore, analysis of cytokine-mediated effects of proteins expressed under tet promoter control warrants prior testing of the IFN responsiveness of the tet promoter in the cell line to be used. This is also recommended for experiments with cell lines stably transfected with this vector system, which may or may not show the same effect. Alternatively, the ISRE-like sequences in the currently available tet promoter-containing vectors should be functionally inactivated by mutagenesis. Changing a single nucleotide in the ISRE core sequence which is known to be essential for its function should not affect tet-mediated regulation of the promoter activity since the ISREs do not overlap with the tTA binding regions.
| ACKNOWLEDGEMENTS |
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We appreciate critical reading of the manuscript by Carol Stocking. This work was supported by grants from the Bundesministerium für Forschung und Technologie. The Heinrich-Pette-Institut für Experimentelle Virologie und Immunologie is supported by the Bundesministerium für Gesundheit and the Freie und Hansestadt Hamburg.
| FOOTNOTES |
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* To whom correspondence should be addressed. Tel: +49 40 48051 221; Fax: +49 40 48051 222; Email: will@hpi.uni-hamburg.de
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