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Volume 271, Number 29,
Issue of July 19, 1996
pp. 17296-17303
©1996 by The American Society for Biochemistry and Molecular Biology, Inc.
Identification and Characterization of Basal and Cyclic AMP
Response Elements in the Promoter of the Rat Hexokinase II Gene*
(Received for publication, November 15, 1995, and in revised form, May 3, 1996)
Haruhiko
Osawa
,
R. Brooks
Robey
,
Richard L.
Printz
and
Daryl K.
Granner
§
From the Department of Molecular Physiology and Biophysics,
Vanderbilt University School of Medicine, Nashville, Tennessee
37232-0615
ABSTRACT
INTRODUCTION
MATERIALS AND METHODS
RESULTS
DISCUSSION
FOOTNOTES
Acknowledgments
REFERENCES
ABSTRACT
Hexokinases catalyze the phosphorylation of
glucose and initiate cellular glucose metabolism. Hexokinase II (HKII)
is the principal hexokinase isoform in skeletal muscle, heart, and
adipose tissue. Isoproterenol and exogenous cyclic AMP (cAMP) increase
HKII gene transcription in L6 myotubes. Various segments of the HKII
promoter that direct the expression of the chloramphenicol
acetyltransferase reporter gene were transfected into L6 myotubes to
identify basal and cAMP response elements. The 5 -flanking region that
extends 90 base pairs upstream of the transcription start site includes
a CCAAT box and a cAMP response element (CRE); both contribute to basal
promoter activity and each provides an independent, maximal response to
cAMP. An inverted CCAAT motif, or Y box, located just upstream of the
CCAAT box, contributes to basal promoter activity but is not involved
in the cAMP response. Homo- and heterodimers composed of the
CRE-binding protein and activating transcription factor-1 bind
specifically to the CRE. The Y box and the CCAAT box specifically bind
the factor NF-Y (also known as CBF).
INTRODUCTION
The four mammalian hexokinases
(ATP:D-hexose-6-phosphotransferase, EC; designated
HKI to HKIV)1 convert glucose to glucose
6-phosphate (for review see Ref. 1). The hexokinases thus initiate
glucose metabolism, and this maintains the downhill glucose
concentration gradient that results in glucose entry into cells through
facilitative glucose transporters (2, 3). HKII is the principal
hexokinase isoform in insulin-responsive tissues such as skeletal
muscle, heart, and adipose tissue (4, 5). The cloning of HKII cDNA
permitted deduction of the primary amino acid sequence of the protein
(6, 7), provided insight into the complete structure of the HKII
mRNA and gene (6), and led to studies of the regulation of the
gene (6, 8). The rate of HKII gene transcription is increased by
insulin, catecholamines, and cyclic AMP (cAMP) in L6 myotubes (6, 8),
and this induction results in increased HKII mRNA, protein
synthesis, and glucose phosphorylation. This is interesting in view of
observations regarding the regulation of hexokinases in various
physiologic circumstances. For example, skeletal muscle glucose
utilization is increased by exercise (9), an effect that can be
explained in part by the observation that a single bout of acute
exercise increases HKII gene transcription, mRNA, and protein in
rat skeletal muscle (10, 71). Other physiologic stimuli, such as cold
stress, swimming, or the administration of -adrenergic agonists,
increase total hexokinase activity in rat and mouse brown adipose
tissue and muscle (11, 12, 13, 14). The mechanism of these effects is unknown
but could involve cAMP.
The regulation of gene transcription by cAMP has been analyzed quite
extensively (15, 16, 17, 18). Hormones such as -adrenergic agonists that
couple cell surface receptors to adenylate cyclase result in increased
intracellular levels of cAMP. Cyclic AMP, in turn, activates protein
kinase A, which enters the nucleus and phosphorylates cyclic AMP
response element-binding protein (CREB) on Ser133 (19, 20).
Phosphorylated CREB, bound to the cyclic AMP response element (CRE),
enhances transcription through linked promoters (21, 22). Activating
transcription factor-1 (ATF-1), a protein closely related to CREB, also
binds CREs and mediates cAMP responsiveness in certain genes (23, 24).
A CCAAT box and an inverted CCAAT box mediate cAMP responsiveness in
several promoters that lack typical CREs, but the factors that bind to
these elements were not identified (25, 26, 27).
We initiated an analysis of the HKII promoter in L6 cells, a cell line
representative of rat skeletal muscle, to further understand how
hormones influence HKII gene expression. The basal promoter consists of
about 160 bp of 5 -flanking sequence that includes an inverted CCAAT
box (henceforth referred to as the Y box), a CCAAT box, and the CRE.
The CCAAT box and the CRE are both involved in cAMP responsiveness and
are functionally redundant in this regard. The Y box does not play a
role in cAMP responsiveness but does contribute to basal promoter
activity. Several known transcription factors bind to these sequences,
notably CREB and ATF-1 to the CRE and NF-Y to both the Y and the CCAAT
boxes.
MATERIALS AND METHODS
The Rat HKII Promoter Sequence
The
EcoRI-EcoRI fragment from gHK51 was inserted
into pBluescript II SK and named pgHK51.1 (6); this
contains ~5.5 kb of 5 -flanking sequence of the rat HKII gene. The
pgHK51.1 plasmid was used as the DNA template for dideoxy sequencing
reactions performed using Sequenase 2.0TM (U.S. Biochemical
Corp.) and synthetic oligonucleotide primers.
Plasmid Constructs
The BamHI fragment of
pgHK51.1, which contains the rat HKII promoter between 5.5 kb and
+147 bp (numbers relative to the transcription start site), was
inserted into the BamHI site of a chloramphenicol
acetyltransferase (CAT) reporter gene plasmid pCAT(An) (a generous gift
of Dr. H. C. Towle, University of Minnesota) (28). This construct was
named pHKIICAT(An)-1A, or more simply, 1A. A series of 5 deletion
mutants were generated from the original 1A construct by restriction
enzyme digestion at unique sites in the upstream polylinker and at the
desired 5 termini of the HKII insert, and the construct was then
religated. Incompatible termini were made blunt-ended with Klenow
fragment before religation. Constructs that contain ~2600
(HindIII), 1176 (SalI), 487 (PstI),
157 (SacII), 78 (BssH II), and 41 (Nae
I) bp of 5 -flanking sequence were named 2A, 3A, 4A, 6A, 7A, and 5A,
respectively. Additional 5 deletion mutants were generated by the
polymerase chain reaction (PCR) using upstream primers containing a
HindIII site fused to the designed 5 termini. The upstream
primers used were 5 -CCAAGCTTGCAGCCAATGAGCGCGCCCA-3 for the 9A
construct and 5 -CCAAGCTTTTGGGCGGCCCAAAGAGCCG-3 for 10A; the
downstream primer for both constructs was
5 -ACTTCGCCCACGGGATCCGTAAG-3 . The PCR reactions contained 10 ng of
pgHK51.1 as a template, 0.2 mM of each dNTP, 1 µM of each primer, and 1 unit of Taq
polymerase (Perkin-Elmer) in 100 µl of a solution that consisted of
50 mM KCl, 1.5 mM MgCl2, 0.01%
gelatin, and 10 mM Tris-HCl (pH 8.3). The PCR conditions
consisted of denaturation at 94 °C for 4 min followed by 40 cycles
of denaturation at 94 °C for 1 min, annealing at 66 °C for 2 min,
and extension at 72 °C for 1 min followed by a final extension
period of 5 min at 72 °C. Each PCR product was digested with
HindIII and BamHI before insertion into
HindIII/BglII-digested pCAT(An). These constructs
contained 90 and 60 bp of 5 -flanking sequence and were named 9A and
10A, respectively. Mutations of 9A were made by introduction of
synthetic oligonucleotides into unique HindIII,
BssH II, or NaeI restriction sites in the 9A
parent construct. The Y box, CCAAT box, and CRE mutations selected had
previously been shown to be effective in eliminating protein binding to
these elements or had been shown to reduce promoter activity (26, 29,
30). These mutants of 9A were named 9A CCAATmt-1, 9A CREmt-2, and 9A
CCAATmt-1/CREmt-2, respectively (Table I). The other 9A
mutants contain an inverted CCAAT box region (between 90 and 80),
or a 5-bp (5 -TGCAG-3 ), or a 10-bp (5 -TGCAGTGCAG-3 ) insertion
between 79 and 78. These were named 9A-inv, 9A+5, and 9A+10,
respectively. The 6A parent construct was employed for site-directed
mutagenesis using PCR. The upstream primer used was
5 -CCAAGCTTGGGCTCTGGGCGCTGATGTGCTGTGGACTGCGGGCG-3 , and the
downstream primer was the same as that used for the 5 deletion
mutants. The PCR reactions were performed using Vent DNA polymerase and
a commercial buffer (New England Biolabs, Inc.; Beverly, MA) as
described above except that 35 cycles were used, consisting of
denaturation at 94 °C for 30 s, annealing at 59 °C for
30 s, and extension at 72 °C for 30 s. The product was cut
with HindIII and BssH II and was used to replace
the HindIII and BssH II region of the 9A
construct. This construct was named 6A Yboxmt-1. The identity of each
construct was confirmed by restriction digestion and dideoxy DNA
sequencing. All constructs were purified by CsCl gradient
centrifugation before transfection, as described (31).
Tissue Culture
L6 cells purchased from the American Type
Culture Collection (ATCC; Rockville, MD) were grown in 10-cm plates to
near confluence and were differentiated as described previously (6).
Following differentiation, myotubes were maintained in Dulbecco's
modified Eagle's medium containing 2% horse serum for 18 h
before transfection or nuclear extract preparation. Cells were
uniformly transfected or harvested for nuclear extract preparation
within a low passage number of receipt from the ATCC.
Transfection and CAT Assay
Transient transfection was
performed using cationic poly-L-ornithine coupled with
dimethyl sulfoxide shock (32, 33). Monolayers of L6 myotubes were
incubated in 3 ml of Dulbecco's modified Eagle's medium containing
2% horse serum, 10-15 µg of plasmid DNA, and 30 µg of
poly-L-ornithine·HBr for 6 h at 37 °C before a
5-min 25% dimethyl sulfoxide shock at room temperature. Plates were
subsequently maintained in serum-free Dulbecco's modified Eagle's
medium until they were harvested 40 h later. Cell extract
preparation and assays for CAT activity were performed as described by
Nordeen et al. (34). CAT activity in the extracts was
normalized for protein content, as measured using Bio-Rad reagent.
Co-transfection of cells with the expression plasmid pRSVCat (a
generous gift of Dr. R. A. Maurer, Oregon Health Sciences University),
which encodes the cAMP-dependent protein kinase
-catalytic subunit (PKA) (35), was used to functionally map the CRE
because this method provided more consistent results than did cAMP
treatment, which sometimes affected cell viability upon prolonged
incubation (>24 h). Plasmids used were the pHKIICAT(An) series (10 µg) as a reporter and either 5 µg of pRSVCat as the effector or
pRSVNeo (36) as a control for DNA amount when no effector was used. The
plasmid pRSV-luciferase (2.5 µg) was also transfected as an internal
control to ensure that changes in promoter activity were not due to
differences in transfection efficiency (data not shown). Luciferase
activity was assayed in cell extracts as described (37).
Electrophoretic Mobility Shift Assay (EMSA)
L6 cell nuclear
extracts were prepared as described previously (38) with the following
modifications: phenylmethylsulfonyl fluoride (1 mM) and
benzamidine (1 mM) were added to the hypotonic buffer, the
nuclear resuspension buffer, and the dialysis buffer. The ammonium
sulfate precipitation was omitted, and the nuclear extract was dialyzed
twice for 90 min at 4 °C. Cytoplasmic fractions were prepared as
described (39). The synthetic oligonucleotides used as probes or
competitors for EMSAs are listed in Table I. Oligonucleotides that
contain the rat somatostatin CRE (40), a high affinity
CCAAT/enhancer-binding protein (C/EBP) binding site (41), and the
murine E Y box (42) have been employed previously. Mutated sequences
were identical to those employed in transfection experiments.
Oligonucleotide pairs were gel-isolated and annealed prior to labeling
with [ -32P]dATP by T4 polynucleotide kinase. Binding
conditions were as described (43) with the following modifications:
each probe was incubated with 10 µg of L6 cell nuclear extract at
room temperature for 15 min except for the CRE probes, which were
incubated for 30 min at 4 °C. Poly(dI-dC)·(dI-dC) (50 ng/µl),
Nonidet P-40 (0.5%), and a 100-fold molar excess of the
single-stranded sense oligonucleotide of each probe were added to
reduce nonspecific binding. Competition experiments were performed in
the presence of a 100-fold molar excess of unlabeled oligonucleotide
pairs and titration experiments were performed to determine the
affinity of each DNA element for its binding protein(s). Polyclonal
anti-CREB antibody ( 244) was the generous gift of Dr. M. Montminy
(Salk Institute; La Jolla, CA) (44); the monoclonal anti-NF-YA
(monoclonal antibody YA7) and polyclonal anti-NF-YB antibodies were the
generous gifts of Dr. R. Mantovani (University of Milan) (45), and the
monoclonal anti-ATF-1 antibody (sc-243 X) was purchased from Santa Cruz
Biotechnology, Inc. (Santa Cruz, CA). Antibodies (anti-CREB, 1:400;
anti-NF-Y, 1:100; or anti-ATF-1, 1:20 dilution) when used were added to
each EMSA as indicated, and incubation conditions were as described for
the binding assays. Reaction samples were electrophoretically separated
on 6% nondenaturing polyacrylamide gels at room temperature or at
4 °C when the CRE probes were employed. The relevant bands were
visualized by autoradiography and analyzed by scanning
densitometry.
Statistical Analysis
All data are presented as the
mean ± S.E. Statistical comparisons were made by single-factor
factorial analysis of variance using STATVIEW IITM software
for Apple Macintosh computers (Abacus Concepts; Berkeley, CA).
RESULTS
Effect of 5 Deletion Mutations on the Basal Promoter Activity and
PKA Inducibility
We cloned about 5.5 kb of 5 -flanking sequence
of the rat HKII gene, sequenced the proximal 1176 bp (6), and
constructed a series of 5 deletion mutants that consist of the HKII
promoter fused to the CAT reporter gene. These constructs were
transiently transfected into differentiated L6 cells to localize
functional cis-acting DNA elements responsible for mediating
basal promoter activity and cAMP responsiveness. The PKA expression
vector was co-transfected with the HKII promoter constructs when cAMP
responsiveness was evaluated.
The basal promoter activities of all constructs that contained at least
90 bp of 5 -flanking sequence were significantly greater than those of
their shorter counterparts (Fig. 1). Construct 9A, with
90 bp of flanking sequence, was thus taken as the standard and assigned
a relative basal activity of 100%. Construct 6A, which contains the
additional sequence between 157 and 90, showed enhanced basal
activity compared with 9A (190 ± 10%; p < 0.05). The largest drop-off of basal activity occurred when the region
between 90 and 78 was deleted (100% for 9A versus
27 ± 1% for 7A, p < 0.05), and another drop-off
of basal activity occurred when the region between 78 and 60 was
deleted (27 ± 1% for 7A versus 14 ± 4% for
10A; p < 0.05). The low promoter activity observed for
10A ( 60 bp) was also found for the shorter construct 5A ( 41
bp).
Fig. 1.
Effect of 5 deletion mutations on basal
activity and PKA inducibility of the rat HKII gene promoter. Each
HKIICAT plasmid construct (10 µg) was transiently transfected into L6
myotubes with 5 µg of pRSVCat (PKA-treated) or pRSVNeo (basal),
and the CAT activity of each plate of cells was measured as described
under ``Materials and Methods.'' In order to make meaningful
comparisons between experiments performed at different times, CAT
activity was normalized to the basal activity of the 9A construct for
each experiment. The average basal CAT activity of 9A was 23,500 ± 2,300 dpm/mg·h (n = 12). The basal and PKA-treated
CAT activity of each 5 deletion construct is shown as mean + S.E. (as
the percentage of 9A basal), determined in at least three independent
experiments with three replicate plates for each construct. The PKA
inducibility (PKA-treated/basal) of each construct is shown as the
-fold induction ± S.E.
Regions involved in cAMP (PKA) responsiveness were sought using the
same 5 deletion constructs (Fig. 1). A 2-4-fold increase of CAT
expression in response to PKA (PKA inducibility is described as the
ratio of PKA-treated to basal value) was noted in constructs that
contained at least 78 bp of 5 -flanking sequence; the lower total PKA
response of 7A as compared with 9A is due to a reduction of the basal
promoter strength in the former construct. Complete loss of PKA
inducibility occurred when the sequence upstream from 60 was removed
(0.8 ± 0.1-fold induction). We conclude from these findings that
the sequence within 157 is important for basal promoter activity and
that the sequence within 78 is required for cAMP (PKA)
responsiveness.
Analysis of the Rat HKII Promoter Sequence
Examination of the
sequence between nucleotides 157 and 60 relative to the
transcription initiation site, a region important for basal promoter
activity and cAMP (PKA) responsiveness, allowed us to identify several
putative eukaryotic transcription factor binding motifs including a Y
box, a CCAAT box, and a CRE (Fig. 2A) (16,
46). A 14-bp Y box containing sequence 148 to 135 is identical at
13 positions with the reverse complement of the region identified as a
CCAAT box, which is located between nucleotides 89 and 76 (see Fig.
2, A and B). Interestingly, this CCAAT box is
closer to the Y box consensus sequence than it is to a C/EBP consensus
sequence. In this sense, the HKII CCAAT box may be more properly termed
a ``proximal inverted Y box,'' but to avoid confusion with
nomenclature, we use the term ``CCAAT box'' for this element. The
putative CRE, located between nucleotides 73 and 66, shares a 6 of
8 bp identity with a consensus CRE core sequence (Fig. 2, A
and B). These three elements are all located upstream of the
putative TATA box, which is located at nucleotides 30 and 26 (Fig.
2A).
Fig. 2.
Analysis of the rat HKII gene promoter
sequence. A, the sequence of the HKII promoter between 157
and +147 is shown to illustrate the location of a Y box, a CCAAT box, a
CRE, and a TATA box. Arrows indicate distal and proximal
CCAAT motifs. The distal, inverted CCAAT sequence is defined as the Y
box, and the proximal CCAAT sequence is defined as the CCAAT box. The
5 boundaries of the various promoter segments used are shown as 6A,
9A, etc. B, comparison of the rat HKII Y box, CCAAT box, or
CRE to Y box, C/EBP, or CRE consensus sequences (16, 46).
Vertical lines indicate identical bases.
Effect of Mutations of the Y Box, CCAAT Box, and CRE on Basal
Promoter Activity and PKA Inducibility
Site-directed mutagenesis
was employed to determine if the putative Y box, CCAAT box, and CRE are
involved in basal and cAMP-induced expression of the rat HKII gene
(Fig. 3). The 6A construct showed enhanced basal
promoter activity when compared with 9A (190 ± 10%,
p < 0.05, as described above and illustrated in Fig.
3), and the ratio of PKA-treated to basal was lower for 6A than 9A
(1.7 ± 0.2 versus 3.5 ± 0.4-fold induction;
p < 0.05; Fig. 3) because of this. The Y box, located
between the 5 end points of the 6A and 9A constructs, was mutated to
generate the 6AYboxmt-1 construct. The basal activity of this
construct, like that of 9A, is lower than that of 6A. Accordingly,
since the total PKA responses are similar, the PKA-treated/basal ratio
of both is higher than that of 6A. The effect of this mutation was
identical to that seen when the region between 157 and 90 was
deleted, and it effectively converted the promoter activity of 6A to
that observed for 9A.
Fig. 3.
Effect of mutations of the Y box, CCAAT box,
and CRE on basal activity and PKA inducibility of the rat HKII gene
promoter. Each HKIICAT plasmid construct (10 µg) was transiently
transfected into L6 myotubes with 5 µg of pRSVCat (PKA-treated) or
pRSVNeo (basal), and the CAT activity of each plate of cells was
measured as described under ``Materials and Methods.'' The data are
expressed as described in the legend to Fig. 1. The basal and
PKA-treated CAT activity of each construct is shown as mean + S.E.
(%), determined in at least three independent experiments using three
replicate plates for each construct. The PKA inducibility
(PKA-treated/basal) of each construct is shown as the -fold
induction ± S.E. The relative positions of the Y box, CCAAT box,
CRE, and TATA box in the HKII promoter are illustrated.
Arrows indicate the CCAAT motifs. The bases mutated are
underlined.
The putative CCAAT box was mutated within 9A to generate 9A CCAATmt-1
(Fig. 3). This mutation resulted in a reduction of basal activity
identical to that seen when the region between 90 and 78 was
deleted (compare with construct 7A, Fig. 1). No change in PKA
inducibility (3.2 ± 0.7-fold) was detected because PKA-treated
CAT activity was proportionally decreased along with the reduction of
the basal activity (Fig. 3). Mutation of the putative CRE within 9A to
generate 9A CREmt-2 resulted in a reduction of basal and PKA-treated
CAT activity but no loss of PKA inducibility (3.0 ± 0.5-fold).
The promoter activity of 9A CREmt-2, which contains an intact CCAAT
box, was markedly different from that of the 10A ( 60 bp) deletion
construct. The 10A construct lacks both the CRE and CCAAT box, has
little basal promoter activity with respect to 9A, and also shows no
response to PKA. A double mutation of both the CCAAT box and the CRE
within 9A (9A CCAATmt-1/CREmt-2, see Fig. 3) resulted in a reduction of
both basal and PKA-treated activity equivalent to that measured in 10A
( 60 bp) and caused complete loss of PKA inducibility (1.0 ± 0.1-fold). Thus, the CCAAT box and CRE both play a role in cAMP (PKA)
responsiveness, and they are functionally redundant in this regard. In
contrast, the Y box, CCAAT box and CRE contribute independently to
basal promoter activity.
Effect of Orientation or Spacing of the CCAAT Box with Respect to
the CRE on Basal Promoter Activity and PKA Inducibility
The CCAAT
box region ( 90 through 80) was inverted to determine whether the
orientation of this element contributed to the basal or PKA response.
The inversion of the CCAAT box enhanced basal activity compared with 9A
(190 ± 10%, p < 0.05) but did not affect PKA
inducibility (Fig. 4). The spacing between the CCAAT box
and CRE is important for the PKA response. Insertion of 5 bp between
the CCAAT box and the CRE resulted in a significant reduction in both
basal activity (50 ± 10%, p < 0.05) and PKA
inducibility (1.9 ± 0.3-fold, p < 0.05) with
respect to 9A (Fig. 4). A 10-bp insertion had no effect on the PKA
inducibility, but this did enhance the basal activity of the promoter
(170 ± 10%, p < 0.05). These observations
suggest that the orientation or spacing of the CCAAT box with respect
to the CRE affects basal activity, whereas spacing alone is critical
for PKA induction.
Fig. 4.
Effect of orientation or spacing of the CCAAT
box with respect to the CRE on basal activity and PKA inducibility of
the rat HKII gene promoter. Each HKIICAT plasmid construct (10 µg) was transiently transfected into L6 myotubes with 5 µg of
pRSVCat (PKA-treated) or pRSVNeo (basal), and the CAT activity of
each plate of cells was measured as described under ``Materials and
Methods.'' The data are expressed as described in the legend to Fig.
1. The basal and PKA-treated CAT activity of each construct is shown as
mean + S.E. (%), determined in at least five independent experiments
using two replicate plates for each construct. The PKA inducibility
(PKA-treated/basal) of each construct is shown as the -fold
induction ± S.E. The construct 9A-inv has an inverted CCAAT box.
Constructs 9A+5 and 9A+10 have 5- and 10-bp insertions, respectively,
between the CCAAT box and the CRE.
Protein Binding to the HKII CRE
Using a probe that contains
the rat HKII CRE (see Table I) and L6 cell nuclear extracts, three
specific DNA-protein complexes (1, 2, and 3) were identified with EMSA
(see Fig. 5A, lane a). All three
complexes were nearly eliminated when the HKII CRE (100-fold molar
excess) was used to compete against itself for protein binding (see
Fig. 5A, lane b) or when the somatostatin CRE was
employed (Fig. 5A, lane h). These complexes were
not observed when an L6 cell cytoplasmic extract was used (data not
shown). Other weaker complexes were occasionally observed, but these
probably do not reflect the binding of specific complexes to the rat
HKII CRE based on the following criteria: 1) the complexes were
observed with both nuclear and cytoplasmic extracts; 2) the formation
of these complexes was not specifically competed for by rat HKII CRE;
and 3) formation of the complexes was reduced by the inclusion of
single-stranded DNA in the incubation. The three CRE-specific complexes
were not observed when a probe containing the same mutation (9A
CREmt-2, Table I) used to determine the functional role of the rat HKII
CRE was employed in EMSA (data not shown); nor did this mutant CRE
compete with the wild type CRE probe for protein binding (Fig.
5A, lane c). Thus, a CRE mutation that results in
the loss of promoter activity also results in a loss of specific
protein binding to this DNA element. The HKII CCAAT and Y boxes, the
MHC class II E Y box, and the C/EBP sequence did not compete for the
formation of these three complexes (Fig. 5A, lanes
d-g, i, and j).
Fig. 5.
Identification of the proteins that bind to
the rat HKII gene CRE. Panel A, the rat HKII CRE 28 wild
type probe was incubated with L6 cell nuclear extract in the absence or
presence of a 100-fold molar excess of each competitor, as described
under ``Materials and Methods.'' Each lane contains
double-stranded oligonucleotide competitor in the following order: no
competitor (lane a); rat HKII CRE 28wt (lane b);
rat HKII CRE 28mt-2 (lane c); rat HKII CCAAT 28wt
(lane d); rat HKII CCAAT 28mt-1 (lane e); rat
HKII Y box 28wt (lane f); rat HKII Y box 28mt-1 (lane
g); rat somatostatin CRE 30wt (lane h); C/EBP 25wt
(lane i); murine MHC class II E Y box 28wt (lane
j). All the oligonucleotides used for probes or competitors are
described in Table I. Three specific bands (numbered 1-3)
representative of protein binding to each probe are indicated by
arrows. Panel B, effect of anti-CREB and
anti-ATF-1 antibodies on protein complex formation with the rat HKII
CRE. The rat HKII CRE 28wt (HKII CRE) probe was incubated with an L6
cell nuclear extract with or without the anti-CREB or ATF-1 antibodies,
as described under ``Materials and Methods.'' Specific bands
representative of the proteins that bind to the probes are indicated by
the numbered arrows (1-3). Each panel
represents typical results obtained from three independent
experiments.
Anti-CREB antibody disrupted formation of complexes 1 and 2 (Fig.
5B, lane CREB), and anti-ATF-1 antibody
disrupted formation of complexes 2 and 3 (Fig. 5B,
lane ATF-1). Nonimmune serum had no effect on DNA-protein
complex formation (Fig. 5B, control). These
results suggest that the HKII CRE binds CREB and ATF-1 and that these
two factors account for the three specific complexes observed. We
provisionally identify complex 1 as a CREB homodimer, complex 2 as a
CREB·ATF-1 heterodimer, and complex 3 as an ATF-1 homodimer.
Protein Binding to the HKII CCAAT and Y Boxes
The HKII CCAAT
box, when inverted, is nearly identical to the HKII Y box (see Fig.
2B), which suggests that a common factor may bind to both
elements. HKII CCAAT and Y box probes were used with L6 cell nuclear
extracts to identify specific DNA-protein complexes by EMSA. A single
specific complex was observed with both probes (Fig. 6,
compare panels A and B, lane a). This
complex was not observed when cytoplasmic extracts prepared from L6
cells were used in the EMSA (data not shown). Other weaker complexes
were occasionally observed, but these complexes do not appear to be
specific for the HKII CCAAT and Y box elements (see above for criteria
used to determine nonspecific binding). Protein binding was nearly
eliminated when a 100-molar excess of the HKII Y box was used to
compete with itself or with the HKII CCAAT box probe (Fig. 6,
A and B, lane f). Similarly, the HKII
CCAAT box effectively competed with itself for protein binding but was
a less effective competitor with the HKII Y box probe (Fig. 6,
A and B, lane d). CCAAT or Y box
probes that contain mutations shown to reduce HKII promoter activity
(see above and Table I), formed no specific DNA-protein complexes (data
not shown). The mutant HKII CCAAT and Y boxes were also unable to
compete for DNA binding with either of the wild type probes (Fig. 6,
A and B, lanes e and g);
thus, the loss of promoter activity observed with these mutations
correlates with loss of specific protein binding. Also, the ability of
the Y box to compete for protein binding to the CCAAT box suggests that
both elements bind the same protein.
Fig. 6.
Protein binding to the rat HKII gene CCAAT
and Y boxes. Panels A, B, and C
represent typical results obtained from at least three independent
experiments using L6 cell nuclear extracts and rat HKII CCAAT 28wt, rat
HKII Y box 28wt, and murine MHC class II E Y box 28wt (murine E Y
box 28wt) probes, respectively. Each probe was incubated with L6 cell
nuclear extracts in the absence or presence of a 100-fold molar excess
of each competitor, as described under ``Materials and Methods.''
Each lane contains double-stranded oligonucleotide
competitors in the same order: no competitor (lane a); rat
HKII CRE 28wt (lane b); rat HKII CRE 28mt-2 (lane
c); rat HKII CCAAT 28wt (lane d); rat HKII CCAAT 28mt-1
(lane e); rat HKII Y box 28wt (lane f); rat HKII
Y box 28mt-1 (lane g); rat somatostatin CRE 30wt (lane
h); C/EBP 25wt (lane i); murine MHC class II E Y box
28wt (lane j). All the oligonucleotides used for probes or
competitors are described in Table I. The specific complex representing
protein binding to each probe is indicated by arrows.
D, comparison of the affinity of the HKII CCAAT and Y boxes
to the E Y box for protein complex formation. The murine MHC class
II E Y box 28wt (E Y) probe was incubated with L6 cell
nuclear extract and the rat HKII CCAAT 28wt (HKII CCAAT), rat HKII Y
box 28wt (HKII Y), or E Y competitors as described under ``Materials
and Methods.'' The amount of each competitor was titrated from a
3-100-fold molar excess. The intensity of the bands was measured by
densitometry. Protein binding, expressed as the percentage bound with
competitors relative to that with no competitors, is shown as mean ± S.E. as determined in three independent experiments.
The promoter for the murine MHC class II E gene contains a well
characterized Y box that binds the transcription factor NF-Y (47, 48).
However, a Y box is also an inverted CCAAT box; thus, one of the CCAAT
box binding factors, such as C/EBP, CTF/NF1, or YB-1, may bind to the
HKII Y box and/or CCAAT box. To determine which factor(s) binds to the
rat HKII elements, we first showed that an E Y box probe binds a
factor from L6 cell nuclear extract and forms a complex similar to that
observed for the HKII elements (Fig. 6C, lane a).
A 100-fold molar excess of the E Y box competed for factor binding
to the HKII CCAAT and Y box probes and to itself (Fig. 6,
A-C, lane j). A 100-fold molar excess of the
HKII CCAAT or Y box also competes for factor binding to the E Y box
probe (see Fig. 6C, lanes d and f,
respectively), and the mutant HKII CCAAT and Y boxes failed to compete
(Fig. 6C, lanes e and g). As shown in
Fig. 6D, the HKII elements competed with the E Y box for
protein binding in a concentration-dependent fashion. The
HKII and E Y boxes compete about equally well, but the HKII CCAAT
box is about 50% less effective. The single nucleotide difference
between the Y box consensus sequence and an inverted HKII CCAAT box
(Fig. 2B), may explain why the HKII CCAAT box is a weaker
competitor for this common factor (49, 50). A 100-fold excess of the
C/EBP element, the HKII CRE, or the somatostatin CRE did not compete
for specific protein binding to the HKII CCAAT box, HKII Y box, or the
E Y box probes (Fig. 6, A-C, lanes b,
h, and i).
The E Y box binds NF-Y, a multisubunit DNA-binding protein (51). The
similar DNA-protein complex formation observed between the E Y box
and the HKII Y and CCAAT boxes suggested that the HKII elements may
also bind NF-Y. A monoclonal antibody raised against the A subunit and
a polyclonal antibody raised against the B subunit were used to
determine whether NF-Y forms the complex observed with the HKII CCAAT
and Y boxes and L6 nuclear extracts. Anti-NF-YA antibody resulted
in similar disruptions of complex formation with the HKII CCAAT or Y
box probes and the E Y box probe (Fig. 7,
NF-YA7 lanes). Anti-NF-YB antibody completely disrupted
complex formation by the HKII CCAAT or Y box probes and the E Y box
probe (Fig. 7, NF-YB lanes). Nonimmune serum had no
effect on the complex formation by any of the probes (Fig. 7,
control lanes). These results suggest that the HKII CCAAT
box and Y box bind the transcription factor NF-Y and that this factor
may be important for both the basal and cAMP-inducible expression of
the HKII gene.
Fig. 7.
Effect of anti-NF-Y antibodies on protein
binding to the HKII gene CCAAT and Y boxes. Either the rat HKII
CCAAT 28wt (HKIICCAAT), Y box 28wt (HKIIY), or
murine MHC class II E Y box 28wt (E Y) probe was
incubated with L6 cell nuclear extract with or without anti-NF-YA
monoclonal antibody (YA7) or anti-NF-YB polyclonal antibody.
Specific bands representative of the proteins binding to the probes are
indicated by an arrow. The figure represents typical results
obtained from three independent experiments.
DISCUSSION
The promoter for the rat HKII gene was isolated and used to
construct HKII-CAT fusion genes as a means of identifying
cis-acting DNA elements important for HKII gene expression.
The HKII-CAT fusion gene constructs were transiently expressed
following transfection into differentiated L6 cells. Ichihara
et al. (52) used a reporter gene similar to the 4A
construct employed in this paper to direct the expression of a CAT
fusion gene in the SR-3Y1-2 transformed fibroblast cell line.
Mathupala et al. (53) recently reported that approximately
4.3 kb of the rat HKII promoter fused to a luciferase reporter gene
directed basal expression in AS-30D hepatoma cells and in cultured
hepatocytes. The basal promoter activity directed by this construct was
comparable in magnitude in both cell types; however, glucose, insulin,
or glucagon increased fusion gene expression only in the hepatoma cells
(53).
We chose to study HKII gene expression in L6 cells, a cell line
representative of skeletal muscle, which is a primary site of
expression of the gene (4, 5). We have previously used these cells to
study the regulation of HKII gene transcription by insulin and cAMP (6,
8) and now extend these earlier studies by identifying three
cis-acting DNA elements in the HKII promoter, a Y box, a
CCAAT box and a CRE, that are required for basal gene expression.
Two of these elements, the CCAAT box and CRE, are required for the
induction of the gene by cAMP and have redundant, nonadditive roles in
mediating this response.
The Y box element, originally defined as an inverted CCAAT motif
(CTG YY) in the major histocompatibility complex (MHC)
class II genes, plays an important role in tissue-specific gene
expression (for review, see Refs. 47 and 48). The binding protein NF-Y,
also called CBF or CP-1 (42, 54), stimulates gene transcription when
bound to the Y box (55, 56, 57). NF-Y is highly conserved among species and
is composed of several subunits, referred to as NF-YA (CBF-B), NF-YB
(CBF-A), and CBF-C; all these subunits bind to DNA as a complex (51,
58, 59, 60). Although the MHC class II genes are expressed in a
cell-specific pattern, NF-Y is ubiquitously expressed (51, 61, 62), and
it also binds to Y box motifs in non-class II genes including those
that encode thymidine kinase (63), albumin (50, 64), globin (65, 66),
-actin (67), -collagen (68), and interleukin 4 (57). The present
study shows that NF-Y binds two highly homologous sequences, the Y box
and the CCAAT box, in the rat HKII promoter. Specific mutations in
either the Y box or the CCAAT box that reduce binding of NF-Y have
corresponding effects on the transcriptional activity of reporter genes
that contain these elements.
The HKII CRE binds both CREB and ATF-1, factors known to affect basal
and cAMP responses in a variety of genes (23, 24). Mutations of the
HKII gene CRE that result in reduced binding of CREB and ATF-1 also
result in decreased basal activity of the promoter. These mutations,
however, had no effect on the cAMP response. Cyclic AMP induction is
only lost when both the HKII CCAAT box and the CRE are mutated. Since
mutations that affect only the CCAAT box have no effect on the cAMP
response, the HKII CCAAT box-NF-Y complex and the CRE-CREB/ATF-1
complex have a redundant role in the cAMP response. To our knowledge,
NF-Y has not been associated with cAMP responsiveness; nor has it been
directly implicated as a regulator of genes involved in glucose
metabolism. In this regard, it should be noted that an inverted CCAAT
box mediates cAMP responsiveness of the human tryptophan hydroxylase
gene and fatty acid synthase gene through an interaction with an
unknown nuclear factor (25, 27). In addition, a CCAAT box mediates the
cAMP response of the G-protein i2 subunit gene, which
lacks a typical CRE (26). It will be interesting to see if NF-Y is
involved in these effects.
The apparent role of NF-Y in the cAMP response of the HKII gene was not
expected. CREB and ATF-1 bind constitutively to CREs and support basal
transcription. The phosphorylation of these proteins by PKA results in
an enhanced rate of gene transcription (15, 16, 24, 69). PKA-mediated
phosphorylation of NF-Y has not been reported, but the protein does
contain several consensus phosphorylation sites (data not shown).
Phosphorylation could increase the affinity of binding of NF-Y to the
HKII CCAAT box, which has a lower binding affinity for the protein than
does the consensus Y box. Alternatively, phosphorylation could enhance
the transactivation potential of constitutively bound NF-Y, as happens
with CREB.
The orientation of the CCAAT box relative to the CRE did not alter the
PKA response, but the introduction of a half turn in the DNA helix
between the CCAAT box and the CRE reduces the PKA induction, and
insertion of a full turn maintains the response. This suggests that a
specific helical orientation of the binding factors NF-Y and CREB/ATF-1
is critical for the PKA response in the rat HKII gene. A similar
stereospecific alignment of the Y box and X box is required for MHC
class II DRA promoter function (70).
As summarized in Fig. 8, NF-Y bound to the CCAAT box and
CREB/ATF-1 bound to the CRE play important roles in both basal and
cAMP-induced expression of the rat HKII gene. A third element important
for basal HKII gene transcription, the Y box, also binds NF-Y. Finally,
a typical TATA box is located near the transcription initiation site.
It is not clear which of the combinations of CREB and ATF-1 are
involved in the basal and cAMP-mediated responses through the CRE.
It is also not clear how NF-Y is involved in these responses. Further
experiments should help clarify these points.
Fig. 8.
Schematic representation of the basal and
cAMP response elements and their binding factors in the rat HKII gene
promoter. The Y box, CCAAT box, and CRE contribute to the basal
activity of the HKII gene promoter, and the CCAAT box and CRE provide a
redundant response to cAMP. Homo- and heterodimers of CREB/ATF-1 bind
to the CRE. NF-Y binds to the Y and CCAAT boxes, probably as a trimeric
complex of A, B, and C subunits (58, 59, 60).
FOOTNOTES
*
This work was supported by individual United States
Department of Health and Human Services Grants DK 35107, DK46867, and
DK42502 and by the Vanderbilt Diabetes Research and Training Center
(Grant DK20593). 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 Juvenile Diabetes Foundation International
Post-Doctoral Fellowship.
§
To whom correspondence should be addressed: Dept. of Molecular
Physiology and Biophysics, 707 Light Hall, Vanderbilt University School
of Medicine, Nashville, TN 37232-0615. Tel.: 615-322-7000; Fax:
615-322-7236; E-mail: daryl.granner{at}mcmail.vanderbilt.edu.
1
The abbreviations used are: HKI, hexokinase I;
HKII, hexokinase II; HKIII, hexokinase III; HKIV, hexokinase IV
(glucokinase); CRE, cAMP response element; bp, base pair(s); CREB,
CRE-binding protein; ATF-1, activating transcription factor-1; kb,
kilobase(s); CAT, chloramphenicol acetyltransferase; PCR, polymerase
chain reaction; PKA, cAMP-dependent protein kinase
-catalytic subunit; EMSA, electrophoretic mobility shift assay;
C/EBP, CCAAT/enhancer-binding protein; MHC, major histocompatibility
complex.
Acknowledgments
We thank Catherine Caldwell for maintaining
the L6 cells and Deborah Caplenor for assistance in the preparation of
this manuscript.
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