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J. Biol. Chem., Vol. 277, Issue 39, 35980-35989, September 27, 2002
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§,
,

From the
Division of Therapeutics and Institute of
Cell Signalling, University Hospital, Nottingham NG7 2UH, United
Kingdom, the ¶ Department of Respiratory Medicine, Floor 6, Gartnavel General Hospital, Great Western Road, Glasgow, G12, the
** Molecular Pharmacology Group, Division of Biochemistry and
Molecular Biology, Davidson Building, Institute of Biomedical and
Life Sciences, University of Glasgow, Glasgow G12 8QQ, United
Kingdom, and the
Novartis Horsham Research Centre, Wimblehurst
Road, Horsham RH12 5AB, United Kingdom
Received for publication, May 16, 2002, and in revised form, July 15, 2002
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ABSTRACT |
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Phosphodiesterase 4D (PDE4D), part of the complex
cAMP-specific PDE4 family, plays a pivotal role in the
regulation of airway smooth muscle relaxation by catalyzing the
hydolysis of cAMP. Its gene on chromosome 5q12 encodes 5 splice
variants, which show tissue-dependent expression and
regulation. The genomic arrangement of PDE4D was determined using
in silico methods, and a putative promoter of one of the
protein kinase A-activated, long isoforms, PDE4D5 was identified.
Promoter-luciferase constructs, transiently transfected into a
The ubiquitous cyclic nucleotide, cAMP, is a key second messenger
in the signaling cascades controlling a multitude of vital cellular
functions and responses (1, 2). Compartmentalized intracellular cAMP
gradients are governed by a balance between its generation from ATP by
the action of adenylyl cyclases and the rate of degradation. In
contrast to the diverse stimuli responsible for production of cAMP (3),
members of the multigenic phosphodiesterase (PDE)1 family provide the
sole means of degradation by catalyzing its hydrolysis to 5'-AMP.
At present the PDE superfamily is known to consist of 11 separate
families classified according to substrate selectivity, inhibitor
sensitivity, and sequence (4-8). Those involved in the hydrolysis of
cAMP include PDE 1, 2, 3, 4, 7, 8, 10, and 11 (9) The expression of
these families demonstrate tissue-specific patterns with multiple
family members usually being present in each tissue type.
Tissue profiling of human airway smooth muscle cells has revealed the
expression of the majority of PDE families. However, functional studies
indicate that PDE 3 and 4 essentially co-regulate cAMP levels in this
tissue type and are, therefore, important mediators of bronchial tone
(10, 11). The rolipram inhibited PDE4 family has received most
attention as a therapeutic target in airways disease. It provides the
dominant phosphodiesterase activity in inflammatory cells such as
neutrophils, eosinophils, and CD4+ lymphocytes, which are thought to be
central to the pathogenesis of asthma and chronic obstructive pulmonary
disease (12, 13). Recent clinical studies with selective inhibitors of
the PDE4 family have demonstrated a broncho-relaxant action, making
them an attractive prospective adjunctive therapy (14-19).
The PDE4 family consists of 4 subfamilies, A, B, C, and D, with each
family member being encoded on separate genes localized to 3 chromosomes (8, 20-26). Molecular cloning of these genes has revealed
a further level of complexity due to the presence of multiple splice
variants. In the case of PDE4D, for example, there are 5 splice
variations at the 5'-end of the gene, which give rise to 3 long, 1 short, and 1 supershort isoform (7, 27, 28).
There is an increasing body of evidence demonstrating
functional differences between the isoforms. For example,
differential effects of phosphorylation in the so-called Upstream
Conserved Regions (UCRs) of PDE4D appear to confer isoform-specific
functional regulation. Investigators have shown that phosphorylation of
the serine 54 residue in UCR1 of the long isoforms by protein kinase A
produces a 2-3-fold increase in the Vmax of the
isoform (29-32). ERK phosphorylation of the catalytic region also
appears to have different effects depending on the UCRs present: the
UCR1-UCR2 module present in the long isoforms directs inhibition,
whereas the lone UCR2 of the short isoform directs activation, and the truncated UCR2 of the supershort isoform allows no effect on enzymatic activity of ERK phosphorylation (33, 34).
In addition to these regulatory differences between the isoforms, their
distinct, cell type-specific patterns of intracellular distribution
further strengthen the case for diverse functional roles (4, 6, 7, 12,
28, 35, 36). Each PDE4 isoform is characterized by its unique
N-terminal region, which appears to play a key role in intracellular
targeting (9). For example, the N-terminal region of PDE4D5 confers
interaction with the signaling scaffold protein RACK1 (37); that of
PDE4A4/5 with LYN SH3 domain (38, 39) and that of PDE4D3 with AKAPs
(40, 41). These observations imply that distinct PDE4 isoforms may
control specific pools of cAMP and hence selectively influence
particular cellular processes. Indeed, distinct pools of cAMP have
recently been identified in cardiac myocytes (42) where they are
regulated by PDE activity. Thus manipulation of the expression profile
of PDE4 isoforms provides a physiological and potential pharmacological
mechanism of controlling cell cAMP signaling in cells.
One mechanism, which might potentially alter local PDE4 expression
patterns, is transcriptional control. However, little is know about the
promoters that control the expression of the complex multigenic PDE
family, save for work on PDE3 (43), PDE4D1/2 short forms (44), and the
PDE4A10 long form (45). Up-regulation of the short PDE4D1/2 isoforms by
elevated cAMP levels has been suggested to contribute to the role that
PDE4 isoforms play in cellular desensitization processes (44). The
other route by which PDE4 isoforms contribute to cellular
desensitization being via the PKA-mediated activated of PDE4 long
isoforms (46). Because specific PDE4 isoforms can thus be expected to
influence the nature of cAMP signaling in cells, it is important to
identify and characterize the properties of the promoters that
determine the expression of various PDE isoforms in particular cell types.
In this study we describe the identification of the putative
PDE4D5 promoter and demonstrate its ability to up-regulate
reporter gene expression in response to conditions that increase cell
cAMP content. We also present evidence for physiological up-regulation of PDE4D5 isoform expression and activity in human airway smooth muscle
cells (hASMs) exposed to equivalent conditions. This is of potential
clinical importance as the up-regulation of this isoform by its
substrate could provide a negative feedback mechanism functionally
downregulating the bronchodilator effect of In Silico Work--
Accession numbers for complete cDNA
sequences of each of the 5 PDE4D splice variants (PDE4D1, U50157;
PDE4D2, U50158; PDE4D3, 50159; PDE4D4, L20969, and PDE4D5,
AF012073)2 were compared with
the entire unfinished human genome using the NCBI BLAST facility. Exact
matches were obtained for all of the sequences from a range of contigs
representing unfinished, unordered sequences of genomic DNA (AC026095,
AC027322, and NT_006665). The verified cDNA sequences were used
as templates to re-order the relevant sequences within these contigs,
and thus elucidate the intron-exon arrangement of the PDE4D
gene. Sequence immediately upstream from the start codons of each of
the 5 splice variants was then assessed using on-line transcription
factor binding site-based, promoter predictive shareware packages.
These included Matinspector Professional (Genomatix), TESS, and TSSG.
Construct Creation--
The region containing the putative
promoter region of PDE4D5, identified using in
silico techniques, was amplified using standard PCR to generate an
1800 bp band. Amplification reactions were performed using the Expand
High Fidelity PCR System (Roche Molecular Biochemicals) with the
following primers: (forward, 5'-GCACACACATACCTTGCCACT-3'; reverse,
5'-TCACAAGGTCTTCGTTCAGC-3'). Products were separated by electrophoresis
in an ethidium bromide-containing Tris acetate/EDTA 1% agarose gel.
DNA was viewed under a low power UV light and bands excised using a
sterile blade before purification from using StrataPrepTM
DNA Extraction Kit (Stratagene) as outlined in the manufacturer's instructions. The eluted product was used as a template for subsequent PCRs. At this stage a mismatched reverse primer
(5'-TGTCTGCTGAGCCATGGTCCT-3') was designed to introduce a
NcoI restriction site around the start codon of PDE4D5, and
this was paired with two fully matched forward primers (long,
GTTGTGCGCATGCTAACAGG; short, GCAGGGAAGTATTTCTCC) to create two
different length amplicons. In these reactions a non-proofreading
Taq polymerase was used to allow the creation of mismatches
in the sequence. After an identical purification procedure, 7 µl of
the eluted products were ligated into 1 µl of Promega PGEM T Easy
vector with 1 µl of T4-ligase and its single use 10× buffer at
4 °C overnight. The resultant plasmids were then used to transform
50 µl of competent Escherichia coli K12 strain JM109
bacteria and grown in ampicillin-containing broth. Colonies with
successfully ligated vectors were selected using the blue/white screen
integral to the PGEM T Easy vector and grown in broths prior to
extraction of vector DNA using the Wizard Mini-Prep kit (Promega). This
was then digested, in the case of the short construct, using
NcoI and a blunt-cutting XmnI (cut site within the forward primer) and the appropriate band separated by
electrophoresis. The long construct was initially restricted with
NcoI and a blunt cutting AviII again in its
forward primer. A further restriction with Ksp632I was
required to separate the band of interest.
These two putative promoter fragments of 621 and 1544 bp in length,
respectively, were then purified and ligated into PGL3 enhancer
luciferase reporter vector cut with NcoI and SmaI
to give a complementary staggered cut immediately in front of the luciferase start codon and a blunt end encouraging proper orientation of the putative promoters in the reporter vector. 2 µl of purified DNA was mixed with 1 µl of pre-cut and purified vector DNA in the
10-µl reaction mixture, and ligation was carried out at 15 °C over
3 h. The vectors were again transformed into E. coli
strain JM109 and grown as above. This time colonies were selected at random before culturing in broths and extracting vector DNA.
The broths were then streaked out to a single colony to ensure complete
purification and regrown. After extraction and purification of vector
DNA using Wizard Mini-Prep kits, the complete inserts were carefully
sequenced using Promega internal vector primers (RV primer 3 (clockwise) and GL primer 2 (anti-clockwise)) to confirm that the
inserted putative promoter sequence was of expected length and sequence
and properly orientated. The same broths were then grown on a larger
scale to allow extraction and purification of DNA using Wizard
Maxi-Prep Kit. This method provided sufficient quantities of DNA for
the planned transfection experiments. Prior to use, construct DNA
concentration was analyzed by spectrophotometry.
Site-directed Mutagenesis--
Using the wild-type promoter
constructs as template DNA a cAMP response element (CRE) site,
identified by in silico analysis of the PDE4D5
promoter, was mutated using Stratagene QuikChangeTM site-directed
mutagenesis kit. Complementary primers were designed to encode a 4 base
pair mutation in the CRE sequence most proximal to the start
codon at position
From the short and long construct transformation plates produced
according to the manufacturer's protocol, four colonies were selected,
grown on, and re-streaked to enable selection of a single colony.
Purified vector DNA samples were obtained by Wizard Mini-Prep of the
broths grown from selected colonies were sequenced across the inserts
to confirm both the presence of the desired mutation and conservation
of the remaining sequence. At this point larger amounts of construct
were prepared using Wizard Maxi-prep, and DNA concentrations were
assayed by spectrophotometry.
Culture of CHO K1 Cells--
Chinese hamster ovary cells, stably
transfected with both the human Transfection--
Transfection was performed in 90% confluent
24-well plates with each condition in triplicate per plate. FuGENE 6 (Roche) was used to transfect cells with a 40:1 ratio of test DNA and
Renilla SV40 control vector. Plates were incubated in a
humidified atmosphere of 5% CO2, 95% air at 37 °C for
24 h. The wells were then washed twice with phosphate-buffered
saline to remove any trace of the transfection mixture and glutamine,
and serum-containing Hams F-12 DMEM was re-applied for 24 h to
allow the cells to recover fully. At this point the medium was removed
and replaced with 1 ml of serum-free Hams F-12 DMEM per well in
preparation for the assay.
SPAP Assay--
Within 18 h of serum starving the
transiently transfected CHO K1 cells, serum-free medium was replaced
and the drugs added at the requisite dilutions. The conditions used
included forskolin (10 µM final concentration),
isoprenaline (1 µM), 3-isobutyl-1-methylxanthine (IBMX) (50 µM), actinomycin (4 µM),
cycloheximide (50 µM), and 8 bromo-cAMP (1 mM). Any antagonists used were added 30 min prior to the
relevant agonists. The plates were returned to the incubator for 5 h. At this point the medium was replaced with 300 µl per well of
fresh serum-free medium and left for 1 h. 20 µl of the supernatant from each well was then aliquoted into a flat-bottomed 96-well plate with blank medium as controls. The 96-well plates were
then heat-inactivated at 65 °C for exactly 30 min to remove endogenous alkaline phosphatase (SPAP is stable at this temperature).
1 ml of 100 mM p-nitrophenol phosphate (PNPP)
was thawed and added to 20 ml of diethanolamine buffer immediately
prior to the assay. 200 µl of this reaction mixture were then added
to each well, and the plates kept for 35 min at 37 °C in room air in
a light proof incubator. The timing of this incubation was determined
by optimization experiments, which demonstrated that the maximal
optical density below 1.5 (the range within which the relationship
between absorbance and SPAP munits/ml remains linear) occurred between
30 and 40 min of incubation. Absorbance was measured on a Dynex
Revelation 96-well plate reader at 405 nm and converted to munits/ml
using the following equation: (munits/ml) = A/18.5tV; where A = optical
density, t = time of incubation with PNPP, and V = volume of sample (20 µl in all experiments).
Luciferase Assay--
Luciferase activity in cell lysates was
measured using the Dual-Luciferase Reporter assay system (Promega).
After collection of the SPAP assay data, the plates were washed in
phosphate-buffered saline and then lysed using 200 µl of 1× passive
lysis buffer (supplied reagent). The plates were rocked for 20 min at
room temperature prior to storage at
After preparation of the reagents according to the manufacturer's
protocol, 20 µl of the thawed lysate from each well was mixed with
100 µl of the luciferase assay reagent II by vigorous pipetting. The
firefly luciferase activity measurement (under the influence of the
putative promoters) was then measured over 10 s by a luminometer.
100 µl of Stop & Glo reagent were then added and vortexed briefly to
mix. This had the dual effect of quenching the initial reaction and
catalyzing the bioluminescent reaction of Renilla
luciferase. The latter is quantified by a 10-s luminometer measurement
and used in the analysis to correct for well-to-well variations in
transfection efficiency.
Human Airway Smooth Muscle Cell Culture--
hASMs were prepared
from explants of trachealis muscle obtained from individuals free of
respiratory disease within 12 h of death. A tracheal segment from
immediately above the carina was removed and a strip of trachealis
dissected clear of the surrounding tissue. Following initial washes
with DMEM containing penicillin (200 units/ml), streptomycin (200 µg/liter), and amphotericin B (0.5 µg) the overlying mucosa
was removed and 2-mm2 sections of smooth muscle were
excised and placed in 6-well plates. Once adherent, the explants were
covered in DMEM containing the above anti-microbials, 10% fetal bovine
serum, and glutamine (2 mM). The medium was regularly
replaced until muscle cell growth occurred. At this point the culture
medium was changed to DMEM supplemented with 10% fetal bovine serum
and 2 mM glutamine. When the cells around the explant
approached confluence, the explant was removed, and 24 h later the
cells were harvested by trypsinization and plated out into a
25-cm2 flask. Subsequent passages were performed in 75 and
162 cm2 flasks using the same culture medium; cells were
incubated at 37 °C in 5% CO2 and 95% air. Kotlikoff
and co-workers (48, 49) have extensively characterized the
phenotype of these cells.
hASMs cultured in this way were used for both PDE activity assays and
reverse-transcriptase PCR (RT-PCR). In order to standardize culture
conditions for the two sets of experiments, cells destined for RNA
extraction grown in 75 cm2 were passaged at the same times
as those grown in 162 cm2 flasks for subsequent cell lysis.
Exposure to the range of conditions described below was also carried
out in parallel. Harvesting procedures are described in the relevant sections.
Cyclic AMP Assay--
Tritiated cAMP production was assayed
using a previously described [3H]adenine prelabeling
assay (50). Briefly, hASMs were grown in 24-well plates to confluence.
For each plate 25 ml of Hanks HEPES Buffer (HHB) were warmed and mixed
with 50 µl of tritiated adenine. The growth medium was then replaced
with 1 ml per well of this mixture (2 µCi per well) and the cells
incubated in air at 37 °C for 2 h. At the end of this period
cells were washed in HHB before replacing the medium with HHB and
adding 10 µl of antagonists in an appropriate concentrations to
produce the final concentrations required. Cells were then incubated
for 20 min prior to the addition of agonists. After a further 20 min
(sufficient time to induce a significant increase in cAMP generation by
hASMs in response to
Determination of cAMP formation in a lysed cell sample was achieved via
a two-column separation system. Initially a 100-µl aliquot of the
lysed sample was removed from each well and [3H]adenine
counted to provide a correction factor for cell numbers per well. The
lysate was then spiked with the same volume of 14C-labeled
cAMP in medium.
Column chromatography was performed to separate tritiated cAMP from
other adenine-based cellular products. In the first column dowex 50 was
used to adsorb cAMP. The majority of adenine-based cellular components
were washed through with a carefully estimated volume of water. The
dowex columns were then placed over alumina columns, and cAMP was
washed through with a larger volume of water. Both cAMP and any
remaining ATP adsorb onto the neutral alumina, however, as cAMP binds
less avidly, it could be washed into a scintillation vial with
imidazole buffer. Radiation in elutants was then determined by dual
scintillation counting (3H and 14C). Finally,
cAMP concentration was calculated from the raw disintegrations per
minute by correction both for cell number, using the
[3H]adenine counts, and for variations in column recovery
by measurement of the fraction of [14C]cAMP eluted from
each column pair.
Reverse Transcriptase PCR--
Total RNA was extracted from the
pelleted hASMs stored at Real-time PCR--
Determination of the relative concentrations
of PDE4D5 mRNA in extracts of total RNA from pelleted hASMs exposed
to a range of stimulatory conditions was performed on Applied
Biosystems Prism 7700 cycler using TaqMan reagents. Initially cDNA
was created using methods described in the previous section. As advised
in the manufacturer's protocol, primers and probes were designed using
PrimerExpress v1.5 to ensure suitability for the TaqMan system and
appropriate relative melting temperatures. Sequence from the
PDE4D5-specific N-terminal was used to generate isoform-specific primers and a probe. The primer pair was designed to amplify a short
amplicon to which a probe, labeled with FAM reporter dye at the 5'-end
and a TAMRA quencher dye at the 3'-end, annealed. (PDE4D5 sense
primer, TGAAGTGGATAATCCGCATTGT; antisense, GGTTTTCTCGCAAGGATTTCAC; and
probe, CAAACCCGTGGCTGAACGAAGACC). Reactions were carried out in
25-µl volumes using 900 nM primer concentrations and 250 nM probe concentrations. TaqMan Universal Master Mix
provided optimal buffer components. Relative quantitation required
comparison to a housekeeping gene so each of the sample replicates was
also run with Applied Biosystems predeveloped assay reagent mixture for
detection of human GAPDH. GAPDH normalized results were then analyzed
by the relative standard curve method as described in the ABI Prism
User Bulletin. This involved running both test and control primers and
probes against a standard sample in a range of dilutions and measuring
the threshold cycle (Ct; this is the point at which exponential growth
of the PCR product begins) for each point. This was then plotted
against a log of the dilution factor to create a linear set of Ct data
covering the range of Cts expected from the test samples. Using the
equation of the linear trendline plotted through this the relative
mRNA concentration in each test sample was calculated. Results were
then normalized to GAPDH mRNA concentrations derived by the same
technique and expressed as a percentage of the values obtained from the
forskolin-stimulated samples. Each sample was assayed in triplicate.
Mean results for each condition were then expressed as a percentage of
the maximal (forskolin) response. This procedure was repeated for 3 biological samples to produce the mean and S.E. data presented in this study.
Immunoprecipitation and PDE Activity Assays--
After
appropriate stimulation over 18 h, hASMs were washed with
phosphate-buffered saline then harvested by lysis from the 162 cm2 flasks. This was achieved using a disposable cell
scraper and 300 µl of lysis buffer made up of 25 mM HEPES
pH 7.5, 50 mM NaCl, glycerol to 10% volume, Triton X-100
to 1% volume, 50 mM NaF, 5 mM EDTA, and
Complete protease inhibitor mixture (Roche Molecular Biochemicals) to
8% volume. The lysate was stored at
Prior to immunoprecipitation, nonspecific binding in the lysates (500 µg of protein per pull-down) was pre-cleared by incubation with 30 µl per sample of washed protein G-agarose bead slurry (Invitrogen)
for 30 min at 4 °C. The beads were then removed by refrigerated
centrifugation and the PDE isoforms immunoprecipitated from the
precleared lysate by mixing end over end at 4 °C for 1 h with
the appropriate antibody.
A 75-µl per sample aliquot of protein G-agarose beads was then
prewashed with phosphate-buffered saline twice and with lysis buffer.
The immune complexes were then mixed for 30 min at 4 °C with these
beads before separation by centrifugation. The bead pellets were then
washed with lysis buffer, KHEM (50 mM KCl, 10 mM EGTA, 50 mM HEPES, and 1.92 mM
MgCl2, pH 7.2 with added 0.001 mM
dithiothreitol and Complete protease inhibitor mixture to 8% volume
prior to use) and finally twice with PDE assay buffer (20 mM Tris, pH 7.4). Immunoprecipitation was performed in
duplicate within each experiment.
PDE activity was assayed using a modification of the Thompson and
Appleman (52) two-step procedure described previously by Houslay and
co-workers (53). Briefly, a mixture of tritiated cAMP (Amersham
Biosciences) and non-tritiated cAMP in a 20 mM Tris pH 7.4 + 10 mM MgCl2 assay buffer was mixed with the
bead pellets or lysates by vortexing. The tubes were then incubated at
30 °C for 20 min with frequent agitation. This created optimal conditions for the PDEs to catalyze hydrolysis of the phosphoester bond
in cAMP. The reaction was stopped by plunging the tubes into boiling
water for 3 min and then placing on ice for 10 min. 25 µl of venom
from Crotalus Attrox (Sigma V7000) was then added and the samples
incubated at 30 °C for a further 10 min. Dowex (Sigma 1X8-400) was
prepared by addition of 1 liter of 1 M NaOH per 100 g
of dowex powder, after which it was allowed to settle and the
supernatant discarded. The dowex was then washed 30 times with
dH2O over 2 weeks or until pH 7.0 having been left at
4 °C to settle completely between washes. The dowex was then
acidified with 1 liter of 1 M HCl and stirred for 15 min
producing a color change from orange to yellow. Finally it was washed
another five times in dH2O until pH reached ~3. It was
then stored in a 50:50 dowex/water mixture. Immediately prior to the
assay 1 volume of 100% ethanol was added to 2 volumes of the
dowex/water mixture to create a slurry used in the next step of the
assay. At this point 400 µl of the dowex slurry were added to each
Eppendorf tube, vortexed, and placed on ice for 15 min. During this
period samples were inverted 5 times on four occasions to mix
thoroughly. Samples were then vortexed before being spun at 13,000 rpm
at 4 °C for 3 min. 150 µl of the supernatant fraction from each
tube was then placed in a corresponding scintillation vial containing 10 ml of scintillant. Tritium radioactivity was counted for 1 min per
vial on the beta counter.
Initial work was performed using the BLAST facility to define the
genomic arrangement of the PDE4D gene situated on
chromosome 5q12. This was found to be complex, comprising 17 exons
spread over just under 1 Mb of genome (Fig. 1A). Exons
encoding the C-terminal, catalytic region, upstream conserved region 2 and the N termini of the short and supershort isoforms (PDE4D1 and
PDE4D2) were found to be clustered at one end of the gene. They are
separated from a second cluster of 4 exons encoding upstream conserved
region 1 by an intron of almost 160 kb. Beyond this are three exons
encoding the N termini of the long isoforms (PDE4D3, 4, and 5); these
are thought to play a role in subcellular localization (9, 37, 40,
54-57). As indicated in Fig. 1A and Table
I these exons are situated a substantial
genomic distance 5' to the UCR1 cluster. Comparison with other members
of the PDE4 family and Rattus norvegicus PDE4D showed
remarkable matching of exon length throughout the catalytic and
regulatory regions. Direct comparison of amino acid and coding DNA
sequences demonstrated striking homology between subfamilies and
species reaching 90-95% in the catalytic and upstream conserved
regions.
2 adrenoreceptor-expressing CHO-K1 cell line, were used
to demonstrate that the PDE4D5 promoter up-regulated reporter gene
expression in response to increased cell cAMP. Site-directed mutagenesis of the cAMP-response element (CRE) at position
201 identified this as the principal component of the mechanism underlying this cAMP responsiveness. In the second part of this study,
cAMP-dependent induction of PDE4D5 transcript in primary
cultured human airway smooth muscle cells (hASMs) was demonstrated
using both qualitative reverse-transcriptase PCR and quantitative
real-time PCR. Isolated PDE4D5 isoenzyme activity, measured after
selective immunoprecipitation from hASMs, confirmed that this increase
in expression led to an up-regulation of functional activity. We
present evidence for cAMP-driven PDE4D5 up-regulation in hASMs and
suggest a CRE-containing, isoform-specific promoter as the primary mechanism.
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INTRODUCTION
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS
DISCUSSION
REFERENCES
2 agonists in airways disease and thus diminishing the therapeutic efficacy of
these agents.
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EXPERIMENTAL PROCEDURES
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS
DISCUSSION
REFERENCES
201 in Fig.
1B (5'-gTGACGTTt to gTGTGTCTt-3'; uppercase letters denote CRE sequence and bold
letters represent the mutation that was introduced.) The sequence of
the 39-bp forward primer used was
5'-GCTTGGGAGAGGAGGGGTGTGTCTTAATACGCTTCCGCG-3', and the
reverse primer was exactly complementary.

View larger version (36K):
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Fig. 1.
Schematic representation of the genomic
arrangement of the PDE4D gene in relation to the
functional regions of the enzyme and PDE4D5 putative
promoter sequence. A, upper line represents the
section of genomic DNA of chromosome 5q12, which contains the
PDE4D gene. Above the line is a scale
indicating the size of the gene with an arbitrary start point.
Below the line are labeled marks indicating the
position of numbered exons within this genomic framework.
Arrows from these numbers link to a schematic functional
representation of the PDE4D isoforms depicted in decreasing order of
length. The regions in dark gray (UCR1, UCR2, and the C-terminal)
regulate the activity of the catalytic region (medium gray).
Both intracellular targeting and regulatory properties are attributed
to the isoform specific N terminals (light gray).
B, is an annotated version of the putative PDE4D5
promoter sequence. 5'-ends of the long (1544 bp) and the short (621 bp)
constructs are depicted by arrows above the matching
sequence. Two mismatched base pairs (CC) denoted in a gray
box were introduced in the reverse primer in order to create an
NcoI staggered restriction site at the start codon. The ATG
is represented in bold typeface. Black boxed regions with
white font within the promoter denote cAMP response elements
(CRE) and sequences in open boxes denote CCAAT enhancer
binding proteins (C/EBP) predicted by transcription factor
binding site analysis software.
2 adrenoreceptor gene
and the gene encoding human secreted placental alkaline phosphatase
driven by a promoter containing six cyclic AMP response elements, were
selected for the transfection experiments (47). The stably transfected
system enabled a parallel assay of SPAP (proving that the cells were
responding to stimulatory conditions and had the necessary cellular
apparatus to produce a cAMP-dependent up-regulation of
transcription), and luciferase to determine whether the transiently
transfected putative PDE4D5 promoter construct could
increase transcription of its reporter gene in response to the same
conditions. These cells were randomly seeded in 24-well plates at a
density created by the resuspension of a confluent 1 × 75 cm2 flask in 100 ml of Hams F-12 Dulbecco's modified
Eagles medium (DMEM) supplemented with 10% serum and glutamine and a
volume of 1 ml per well. The following day the medium was removed, and the cells were serum-starved prior to transient transfection with the
relevant constructs.
80 °C until it was convenient to perform the assay.
agonist stimulation, Ref. 51) the reaction was
stopped by lysing the cells with 50 µl of concentrated HCl and
freezing for a minimum of 2 h at
20 °C.
80 °C using Qiagen RNeasy Minikits. The
samples were eluted in 50 µl of RNase-free water and stored at
80 °C. On thawing the samples underwent a 3-stage process of
reverse transcriptase-PCR according to the manufacturer's
instructions, which comprised: DNase digestion, cDNA synthesis
(with a reverse transcriptase negative control), and PCR using
previously validated primers specific to PDE4D5 (forward,
TGCCAGCTGTACAAAGTTGACC; reverse, TTCTCGGAGAGATCACTGGAGA).
Products were separated by electrophoresis in ethidium
bromide-containing Tris acetate/EDTA-based 1% agarose gels.
Visualization under UV light allowed qualitative analysis of the
presence of transcript in each condition.
80 °C.
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RESULTS
TOP
ABSTRACT
INTRODUCTION
EXPERIMENTAL PROCEDURES
RESULTS
DISCUSSION
REFERENCES
Details of PDE4D gene arrangement and comparison of exon size with the
other members of the human PDE4 gene family and Rattus norviegus
PDE4D
Having identified the intron-exon arrangement within the gene framework we were able to localize four putative intronic promoters upstream from the start codons for each of the five isoforms. Splice variants PDE4D1 and PDE4D2 share a transcription start site and therefore have the same putative promoter, which has been formerly characterized in the rat as a cAMP-responsive promoter containing no TATA box but a number of GC-rich regions, SP1 and activator protein (AP) 1 and 2 sites (44). Each of the other putative promoter regions was searched for transcription factor binding sites (TFBS) using independent promoter predictive shareware and we found that the putative promoter of PDE4D5 displayed a number of interesting characteristics including two putative cAMP response elements (CRE), illustrated in Fig. 1B, and a number of CCAAT enhancer-binding protein binding sites (C/EBP).
In order to establish the properties of this putative promoter
experimentally, two constructs of 621 bp (4D5SPluc) and 1544 bp
(4D5LPluc) in length containing intronic DNA immediately 5' to the
PDE4D5 start codon, were ligated into the PGL3 enhancer vector. These constructs were then studied in a CHO-K1 cell line, which
had been stably transfected with both the human
2 adrenoreceptor (300 fmol/mg of protein), and a secreted placental alkaline phosphatase reporter gene driven by a strongly cAMP responsive promoter containing 6 CREs. 4D5SPluc up-regulated basal expression of luciferase by 8.7 ± 0.2-fold over the vector lacking the promoter element
(n = 4; p < 0.001 ANOVA); the long
construct by 26.0 ± 0.4-fold (n = 4;
p < 0.001 ANOVA) as shown in Fig.
2. Similar data were obtained when
constructs were transfected into BEAS-2B, a bronchial epithelial cell
line: 4D5SPluc up-regulated basal expression of luciferase by 10.8 ± 0.7-fold over the empty vector (n = 4;
p < 0.001 ANOVA); 4D5LPluc by 27.4 ± 2.0-fold
(n = 4; p < 0.001 ANOVA).
|
Having confirmed the strong basal promoter activity of both of these
constructs, we went on to assess their responsiveness to agents that
increased intracellular cAMP. Initially we utilized the SPAP reporter
under the direct control of a 6-CRE promoter, which had been stably
transfected into the CHO-K1 cell line to demonstrate that these cells
had the machinery required to effect an up-regulation of gene
transcription when stimulated with agents that increase cAMP. The data
shown in Fig. 3A demonstrate
that SPAP output was unaffected by either the process of transient transfection or the plasmid introduced. Transfection of either the
empty enhancer vector, the test constructs or the PGL3 control vector
all generated a similar level of SPAP production between 1.0 ± 0.0 and 1.1 ± 0.1-fold changes in comparison to unstimulated, non-transfected control (NTC) cells (n = 4;
p > 0.05 ANOVA). There were increases in SPAP output
from stimulated cells independent of the transiently transfected
construct. The following data relate to SPAP output from all cells
exposed to each stimulatory condition regardless of the transiently
transfected construct. 10 µM forskolin, a direct adenylyl
cyclase activator, up-regulated SPAP output by 2.9 ± 0.1-fold
over unstimulated NTC cells; 1 µM isoprenaline, a
non-selective
agonist, by 4.0 ± 0.1-fold; 50 µM
3-isobutyl-1-methylxanthine (IBMX), a non-selective PDE inhibitor, by
1.8 ± 0.1-fold; and the combination of IBMX and isoprenaline by
4.1 ± 0.2-fold. All of these increases were highly significant
(n = 7-8; p < 0.001 ANOVA).
|
Having confirmed the capacity of this cell line to up-regulate gene expression in response to stimulatory conditions effecting an increase in cellular cAMP, we proceeded to investigate the potential for identical conditions to regulate the PDE4D5 promoter. After removal of the supernatant for SPAP assay, the cells were lysed, and luciferase expression measured. This was under the control of either the 621 bp (4D5SPluc) or the 1544 bp (4D5LPluc) PDE4D5 promoter constructs. For the short construct, forskolin stimulation produced a 1.63 ± 0.04-fold increase; isoprenaline, 1.85 ± 0.06; IBMX, 1.54 ± 0.03; and the combination of isoprenaline and IBMX, 1.78 ± 0.07-fold, with all results expressed as mean ± S.E. of fold over the unstimulated 4D5SPluc. For the long construct, 4D5LPluc, there were similar increases in luciferase expression upon stimulation when results were expressed as fold over unstimulated construct: forskolin generated a 1.59 ± 0.07-fold increase; isoprenaline, 2.03 ± 0.10; IBMX, 1.51 ± 0.08; and isoprenaline and IBMX, 2.06 ± 0.12. The inherent increased promoter activity of 4D5LPluc when compared with 4D5SPluc, however, remained apparent. This is demonstrated by the relative sizes of the bars representing PGL3 Enhancer and PGL3 Control on either side of Fig. 3B. In all instances the increased expression over unstimulated constructs were statistically significant (n = 4; p < 0.001 ANOVA).
As the short and long constructs responded similarly to cyclic AMP we
hypothesized that the CRE nearest the start codon (position
201 in
Fig. 2A), which is present in both, might be responsible for
mediating the up-regulation, rather than the more distant CRE at
position
1390. To evaluate this theory we used site-directed mutagenesis to alter four of the base pairs within the CRE sequence of
both 4D5SPluc and 4D5LPluc from the native gTGACGTTt (uppercase letters
represent the most consistent CRE sequence from published data) to
gTGTGTCTt. The mutation was designed to maintain GC content
and thus minimize the effect it would have on secondary structure.
Luciferase expression data from transient transfection of both the
mutated and wild-type constructs into the same CHO cell line confirmed
that the CRE at position
201 was an important mediator of
cAMP-inducibility in the PDE4D5 promoter.
Under basal conditions, mutation of the
201 CRE element had no
significant effect on reporter gene activity. Forskolin stimulation, however, produced a 1.79 ± 0.03-fold increase from wild-type
4D5SPluc compared with 0.99 ± 0.04-fold change from the
CRE-mutated 4D5SPluc, and isoprenaline produced a 2.03 ± 0.14-fold increase with the wild-type construct and a 0.93 ± 0.06-fold change with the mutated construct (n = 4;
p < 0.05 and <0.001 respectively ANOVA). Although the
absolute activity of the long construct was greater, when results were
expressed as fold over unstimulated 4D5LPluc, the pattern of changes
was similar. Under basal conditions there was reduced expression of
luciferase driven by the mutated construct at 0.79 ± 0.03, which
failed to reach significance. Forskolin challenge increased luciferase
expression in wild-type 4D5LPluc by 1.64 ± 0.12-fold compared
with 0.99 ± 0.06 from its CRE-mutated counterpart; equivalent
isoprenaline-stimulated values were 2.00 ± 0.08 (wild-type) and
1.05 ± 0.03 (mutated). In both cases the effect of the mutation
was significant (n = 4; p < 0.001 ANOVA). Results for the short and long constructs are presented on the left and right sides of Fig. 3C, respectively.
The relative inability of the constructs whose CRE had been mutated to up-regulate luciferase expression in conditions of raised cAMP, supported the hypothesis that this CRE played an important role in the mechanism of cAMP responsiveness of the PDE4D5 promoter. Having demonstrated cAMP inducible up-regulation of PDE4D5 promoter activity, we aimed to investigate whether this effect was reflected in the major target cells within the airway, hASMs, as this would be of potential clinical significance.
First we designed a set of experiments to quantify the increase in intracellular cAMP induced by equivalent conditions to those used in the transfection experiments. We also studied the effects of 8-bromo-cAMP (1 mM), a cell-permeable analogue of cAMP able to activate protein kinase A, actinomycin (4 µM) as an inhibitor of transcription, and cycloheximide (50 µM) as an inhibitor of protein synthesis. These were then used in later experiments to confirm that any increases seen in PDE4D5 transcript or activity were due to newly synthesized enzyme and not post-translational effects or a direct activation by cAMP.
Fig. 4, shows the effect of the agents
studied on [3H]cAMP production in hASMs. As expected,
8-bromo-cAMP, actinomycin, and cycloheximide had no significant effect
upon basal or forskolin-stimulated cAMP formation. Forskolin alone
produced a 13.0 ± 0.7-fold increase in cAMP production over basal
(n = 4; p < 0.001 ANOVA) in keeping with its ability to directly activate adenylyl cyclase. Isoprenaline produced a 5.0 ± 0.3-fold increase over basal (n = 4; p < 0.001 ANOVA). While IBMX alone was
responsible for only a 1.4-fold increase in cAMP production that failed
to reach statistical significance, it increased the response to
isoprenaline to 1.9 ± 0.1-fold (n = 4;
p < 0.001 ANOVA) compared with isoprenaline alone. The
relatively small response to IBMX alone probably reflects the low
levels of basal cAMP turnover in this cell type and has been noted in previous work (50).
|
Using primers designed to amplify a sequence within the PDE4D5 specific
N-terminal, we next performed RT-PCR experiments on total RNA extracts
from hASMs pretreated with all of the drug combinations listed above
for 6 h (antagonists were added 15 min prior to agonists in all
cases). Typical gels are depicted in Fig.
5A. Induction of PDE4D5 in
hASMs stimulated with forskolin was demonstrated by the appearance of
bright bands not present under unstimulated conditions. This
forskolin-induced up-regulation was abolished by actinomycin, an
inhibitor of transcription, but not cycloheximide, an inhibitor of
translation indicating transcriptional up-regulation. Further bands
demonstrate that the cell-permeant cAMP analogue, 8-bromo-cAMP,
isoprenaline, and IBMX were also able to induce PDE4D5 transcription in
hASMs.
|
As the RT-PCR data were qualitative, real-time PCR, using the TaqMan system, was performed to quantify the differences in mRNA expression in hASMs stimulated under these different conditions. Mean template levels generated from 3 biological samples representing each of the stimulatory conditions and expressed as a percentage of levels in the forskolin-stimulated samples were as follows: basal hASMs 0.6 ± 0.4 (mean percentage of forskolin ± S.E.); 8-bromo-cAMP, 65.2 ± 4.8; isoprenaline, 70.2 ± 5.6; IBMX, 39.3 ± 8.3; isoprenaline and IBMX, 100.0 ± 6.2; actinomycin, 1.0 ± 0.1; and forskolin and actinomycin had 1.7 ± 0.4 (Fig. 5B). Statistical analysis using ANOVA with Bonferroni's post-test indicated that all except actinomycin and forskolin and actinomycin showed significant increases over basal (p < 0.001 in all cases). Once again forskolin-induced up-regulation of PDE4D5 mRNA expression was fully abrogated by actinomycin.
Having demonstrated up-regulation of PDE4D5 transcripts by agents able
to elevate cell cAMP content, we went on to study the potential for
this up-regulation to alter the functional PDE4D5 activity. We sought
to quantify this effect by direct assay of isoform-specific PDE
activity. The PDE4D5 isoform was immunopurified from whole cell lysates
by immunoprecipitation using a PDE4D5-specific antiserum. hASMs were
pretreated with the same range of agents at doses previously listed,
although stimulation for this set of experiments was over an 18-h time
course. PDE4D5 was immunopurified and its activity determined over the
indicated condition (Fig. 5C). Reflecting the RT-PCR data,
all conditions that up-regulated transcript expression also increased
functional PDE4D5 isoform-specific activity. Specifically isoprenaline
increased PDE4D5 activity by 4.5 ± 0.4-fold over unstimulated
hASMs, forskolin by 4.3 ± 0.2-fold, IBMX by 5.0 ± 0.3-fold,
and 8-bromo-cAMP by 4.1 ± 0.3 (n = 3:
p < 0.001 ANOVA). The forskolin induced up-regulation in PDE4D5 activity was fully abrogated by actinomycin, and partially abrogated by cycloheximide 50 µM. These results, together
with the PCR data, suggest not only that increased de novo
synthesis of the isoenzyme, rather than its activation by PKA
phosphorylation, is responsible for the increased activity, but also
that this up-regulation of synthesis occurs at the level of transcription.
| |
DISCUSSION |
|---|
|
|
|---|
We identify here the putative promoter for PDE4D5 and demonstrate for the first time cAMP induction of this long isoform. The genomic arrangement of the human PDE4D gene on chromosome 5q12 is complex, containing 2 major clusters of exons encoding the highly conserved regulatory and catalytic regions of the subfamily, separated by relatively short intronic sequences. Spread over almost 700 kb in the region of genomic DNA 5' to these clusters are the three exons that encode the isoform-specific N-terminals of the long forms responsible for their intracellular targeting and regulation. We investigated the promoter potential of the 1544 bp genomic sequence immediately upstream from the PDE4D5 N-terminal exon.
As with the active, cAMP-responsive promoter controlling the expression
of isoforms PDE4D1 and 2 in rat (44), this putative promoter was
atypical in that it contained no TATA box. Analysis of the
transcription factor binding sites identified within this sequence
suggested that it also had the potential to respond to cAMP. We
identified two CREs at positions
201 and
1390. Data generated from
the transfection of putative promoter constructs demonstrate cAMP-driven up-regulation of reporter gene expression. The
magnitude of this effect, relative to basal promoter activity, was
equal in both short and long constructs. Deletion of the CRE element
situated 201 bp 5' to the start codon of PDE4D5, and thus contained in both constructs, had no significant effect on basal luciferase expression but caused complete abrogation of the
up-regulation of expression when stimulated by forskolin or
isoprenaline. These data confirm the involvement of the
201 CRE in
the mechanism underlying the cAMP-responsiveness of the
PDE4D5 promoter.
Having identified the isoform-specific PDE4D5 promoter and defined the mechanism of its cAMP responsiveness in a transformed cell system, in the second part of this article we proceeded to demonstrate cAMP-dependent up-regulation of both mRNA expression and catalytic activity of PDE4D5 in hASMs. Various investigators have demonstrated that prolonged elevation of intracellular cAMP increased the expression of PDE4D short isoenzymes (4D1 and 4D2) in rat Sertoli cells (58), T lymphocytes (59), and in human cultured myometrial cells (60). This is the first demonstration, however, of cAMP-dependent induction of expression of a long form, specifically PDE4D5. Given that the long isoforms have been shown to be activated by PKA (9), this finding has potential importance.
Total abrogation of the cAMP-induced up-regulation of both mRNA expression and functional activity by actinomycin demonstrated that these effects were a direct result of increased message expression and de novo synthesis of the enzyme, rather than the phosphorylation and consequent activation of PDE4D5 by PKA. There are two potential explanations for the apparent lack of effect on enzyme activity of phosphorylation: first, this could be due to the chronicity of the experiment such that over the 18-h time course the transient and acute influence of phosphorylation receded back to basal levels. Alternatively, under resting conditions the short form PDE4 activity may predominate and thus the only PKA activation will occur on induction of the long PDE4D5.
We have, therefore, demonstrated cAMP-driven PDE4D5 up-regulation in hASMs and presented evidence for a CRE-containing, isoform-specific promoter as the primary mechanism of this up-regulation.
The particular physiological consequences of increased PDE4D5 expression depend, in part, upon the subcellular distribution of this isoform. Previous work has demonstrated that it could be found both in cytosolic and particulate fractions of the cell (56) but this diversity betrayed no isoform-specific function. Recently, however, PDE4D5, uniquely among the subfamily, has been shown to bind specifically and with high affinity to the RACK1 WD-repeat scaffold protein via a single region of its unique N terminus (amino acids 22-26) (37). Though the functional significance of this association is unknown, it is tempting to speculate that RACK1 "recruits" PDE4D5 to regulate local cAMP concentrations.
Further work is needed to identify which subcellular pools of cAMP are
controlled by PDE4D5 if we are to understand its functional significance more completely. However, given the importance of intracellular cAMP content in the control of airway smooth muscle tone,
these findings may have clinical relevance in that this mechanism would
provide a negative feedback, which might limit the effect of agents
targeted at elevating cell cAMP content (61).
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ACKNOWLEDGEMENT |
|---|
We thank Professor Stephen Hill (Institute of Cell Signaling, Nottingham University) for the kind donation of the stably transfected CHO-K1 cell line used in this work.
| |
FOOTNOTES |
|---|
* This work was supported by a program grant from the Medical Research Council (MRC) and The Wellcome Trust.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.
§ Recipient of a Medical Research Council Clinical Training Fellowship.

To whom correspondence should be addressed: Division of
Therapeutics, C Floor South Block, University Hospital, Nottingham NG7
2UH, United Kingdom. Tel.: 44-115-9709905; Fax: 44-115-9422232; E-mail:
ian.hall@nottingham.ac.uk.
Published, JBC Papers in Press, July 16, 2002, DOI 10.1074/jbc.M204832200
2 Relevant GenBankTM accession numbers are as follows: PDE4D1, U50157; PDE4D2, U50158; PDE4D3, 50159; PDE4D4, L20969; PDE4D5, AF012073; genomic fragments, AC026095, AC027322, and NT_006665.
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ABBREVIATIONS |
|---|
The abbreviations used are: PDE(s), cyclic nucleotide phosphodiesterase(s); UCR, upstream-conserved region; RACK1, receptor for activated C-kinase; AKAP, a-kinase anchoring protein; PKA, cAMP-dependent protein kinase; hASMs, primary cultured human airway smooth muscle cells; TFBS, transcription factor binding sites; CRE, cAMP response element; CHO, Chinese hamster ovary; DMEM, Dulbecco's modified Eagle's medium; SPAP, secreted placental alkaline phosphatase; RT-PCR, real-time PCR; HHB, Hank's HEPES buffer; DEPC, diethylene pentaacetic acid; GAPDH, glyceraldehyde-3-phosphate dehydrogenase; C/EBP, CCAAT enhancer-binding protein; ANOVA, analysis of variance; IBMX, 3-isobutyl-1-methylxanthine; ERK, extracellular-regulated kinase.
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