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J Virol, March 1998, p. 1814-1825, Vol. 72, No. 3
0022-538X/98/$04.00+0
Copyright © 1998, American Society for Microbiology. All rights reserved.
Identification of Positive and Negative Regulatory
Regions Involved in Regulating Expression of the Human Cytomegalovirus
UL94 Late Promoter: Role of IE2-86 and Cellular p53 in Mediating
Negative Regulatory Function
Bret A.
Wing,1,2,
Robert A.
Johnson,1,2 and
Eng-Shang
Huang1,2,3,4,*
Department of Microbiology and
Immunology,1
Lineberger Comprehensive
Cancer Center,2
Department of
Medicine,3 and
Curriculum of Genetics
and Molecular Biology,4 University of North
Carolina at Chapel Hill, Chapel Hill, North Carolina 27599-7595
Received 12 May 1997/Accepted 20 November 1997
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ABSTRACT |
The human cytomegalovirus (HCMV) UL94 gene product is a
herpesvirus-common virion protein that is expressed with true late kinetics. To identify the important cis- and
trans-acting factors which contribute to UL94
transcriptional regulation, we have cloned, sequenced, and analyzed
UL94 promoter function by transient transfection analysis. Transfection
of UL94 promoter-reporter gene constructs into permissive human
fibroblasts or U373(MG) cells indicated that promoter activity was
detected following infection with HCMV. Point mutations within a
TATA-like element located upstream of the RNA start site significantly
reduced UL94 promoter activity. Deletion mutagenesis of the promoter
indicated that a positive regulatory element (PRE) was likely to exist
downstream of the UL94 mRNA start site, while a negative regulatory
element (NRE) was present upstream of the TATA box. At late times of
infection, the PRE appeared to have a dominant effect over the NRE to
stimulate maximum levels of UL94 promoter activity, while at earlier
times of infection, no activity associated with the PRE could be
detected. The NRE, however, appeared to cause constitutive
down-regulation of UL94 promoter activity. Binding sites for the
cellular p53 protein located within the NRE appeared to contribute to
NRE function, and NRE function could be recapitulated in cotransfection
assays by concomitant expression of p53 and HCMV IE2-86 protein. Our results suggest a novel mechanism by which the cellular protein p53,
which is involved in both transcriptional regulation and progression of
cellular DNA synthesis, plays a central role in the regulation of a
viral promoter which is not activated prior the onset of viral DNA
replication.
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INTRODUCTION |
Human cytomegalovirus (HCMV) is a
member of the beta class of human herpesviruses and is associated with
a number of serious medical conditions, particularly in individuals
with compromised immune systems (3). Its genome is the
largest of the human herpesviruses (240 kb) and has the capacity to
encode over 200 distinct viral gene products (7). Results
from a number of different laboratories have indicated that two of
these gene products, the major immediate-early (IE) gene products of
HCMV (IE1-72 and IE2-86), are essential viral proteins that regulate
expression of a variety of viral and heterologous genes at the level of
transcription (4, 9, 31, 32, 43, 47, 54, 58, 59). IE1-72 and
IE2-86 have been demonstrated to act synergistically to mediate transcriptional activation of several viral genes of subsequent kinetic
classes, including viral early genes, such as the viral DNA polymerase
gene (and other early genes), as well as early-late genes, such as pp65
(1, 37, 38). Both IE1-72 and IE2-86 have the capacity to
regulate transcription from viral and cellular promoters through
interactions with cellular activator proteins, such as E2F, p53,
CAAT-box-binding factor, CREB-binding factor, and probably others
(10, 24, 31, 44, 48, 73). In vitro evidence also implicates
IE2-86 interactions with basal transcription factors, such as
TATA-box-binding protein and TFIIB, in regulation of viral and cellular
promoters, including IE2-86 autoregulation of its own promoter (4,
9, 32, 35, 36, 43, 46, 47, 54, 61, 78).
Despite mounting evidence that the HCMV IE gene products can stimulate
expression of a wide variety of viral and heterologous promoters,
evidence also suggests that not all HCMV promoters are stimulated by
the viral IE proteins. The HCMV true late gene, pp28 (or UL99), is
transcribed by a mechanism that does not appear to require the HCMV
IE1-72 or IE2-86 proteins (15). While it is not clear
whether UL99 can be activated by IE1-72 and/or IE2-86 in conjunction
with other viral proteins, cotransfection experiments indicated that
IE1-72 and IE2-86 do not stimulate expression of the promoter upstream
of the 1.6-kb UL99 RNA start site. Because of the relative promiscuity
of the HCMV IE proteins, it is of particular interest to understand (i)
why this or other late promoters would be refractory to stimulation by
the IE gene products and (ii) what, if any, role is played by the IE
proteins in regulating late promoter expression.
Much of our understanding of the transcription of herpesvirus late
promoters comes from work with the alphaherpesvirus herpes simplex
virus (HSV) (22, 27, 30). In the HSV system, transient transfection experiments using late promoter-reporter constructs have
indicated that the structure of viral late promoters is fairly simple.
They contain TATA boxes and/or initiator elements which direct the
transcription start site. However, in contrast to promoters of other
kinetic classes, very few sequence elements upstream of the TATA box or
RNA start site appear to significantly enhance late promoter
activation. Rather, there appear to be specific sequence elements
located downstream of the RNA start site which interact with both viral
and cellular proteins and act to both enhance late gene transcription
and limit transcription from these promoters to late times of
infection. Viral factors such as the ICP4 protein, which appear to
enhance HSV late gene expression, and cellular factors such as the DAS
protein, which interact with sequence elements more proximal to the RNA
start site, appear to play a more significant role in the temporal
regulation of late gene expression (22). In addition to
these observations, it has also been suggested that other HSV late
promoters are subject to negative regulation at earlier times of
infection. Still other experiments suggest that the simple structure of
late promoters makes them relatively weak with respect to their ability
to compete for viral and cellular transcription factors. Thus, it is
only through increased concentration of the promoter sequences, via viral DNA replication, that late promoters are capable of successfully competing for factors necessary to initiate transcription. This model
may explain why late promoters are often activated inappropriately at
early times of infection when expressed from bacterial plasmids. It has
also been suggested that late promoters are not accessible to
transcription factors prior to viral DNA replication due to local
chromatin structure; however, recombination of late promoter-reporter gene constructs into regions of the viral genome that are normally expressed at early times of infection indicates that late kinetics are
maintained; thus, it is not clear whether local chromatin structure
actually plays a role in late promoter regulation. The available
evidence suggests that several of these factors
negative regulation at
early times of infection, enhancement at late times of infection, and
increased template concentration
are all likely to contribute to the
strict temporal activity of late promoters.
Even less information is available concerning regulation of the HCMV
true late promoters. As mentioned above, the pp28 promoter cannot be
stimulated by the HCMV IE1-72 and IE2-86 proteins (15). Mutagenesis of the pp28 promoter and analysis by transient transfection or recombinant virus experiments indicate that a region from
40 to
+103 of the promoter (relative to the RNA start site) is capable of
recapitulating true late promoter activity (15, 39). The important sequence elements within this region (other than a likely TATA box) have not, however, been extensively analyzed. Analysis of the
ICP36 late promoter suggests that a combination of HCMV activators
IE1-72, IE2-86, and TRS-1 stimulates expression of this promoter;
however, the significance of this observation is unclear since the
ICP36 promoter also contains two start sites, both of which are also
stimulated by a combination of IE1-72, IE2-86, and TRS-1, that are
activated at early times of infection (42, 63). Indeed,
recent evidence suggests that a variety of HCMV early promoters are
stimulated to a greater extent by cotransfection of other viral
factors
including TRS-1
with the HCMV major IE proteins (33,
37). Thus, it is unlikely that this is a late-specific regulatory
mechanism (15).
Because current data do not allow any general conclusions regarding
HCMV true late promoter regulation to be drawn, we have investigated
the regulation of expression of the HCMV UL94 gene product. Previous
experiments indicated that UL94-specific transcripts were detected only
at late times of a productive HCMV infection and were sensitive to
treatment with ganciclovir, establishing UL94 as a true late gene
product (76, 77). In this study, we provide additional
evidence that UL94 transcription is restricted to late times of
infection and that a region encompassing
120 to +48 of the UL94
promoter is likely to contain the cis-acting sequences
necessary to impart true late specificity on the UL94 promoter. We also
demonstrate that three important sequence elements within this
region
a TATA box, an upstream negative regulatory element (NRE), and
a downstream positive regulatory element (PRE)
contribute to
regulation of the UL94 promoter. Cotransfection experiments indicate
that the repressive effect of the NRE can be recapitulated by
expression of cellular p53 and HCMV IE2-86 proteins. Furthermore, this
recapitulation requires p53, suggesting that this cellular protein
plays a central role in regulation of the UL94 promoter.
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MATERIALS AND METHODS |
Cell culture and virus.
Human embryonic lung (HEL) cells,
human astrocytoma cell line U373(MG), and human osteosarcoma cell line
Saos-2 were propagated in Dulbecco modified Eagle medium (DMEM)
supplemented with 10% [HEL and U373(MG) cells] or 15% (Saos-2
cells) fetal bovine serum (FBS) as well as antibiotics. Towne strain
HCMV [HCMV (Towne)] was propagated in HEL cells as previously
described (40, 80).
DNA cloning, sequencing, and plasmids.
UL94 promoter
fragments were cloned by PCR amplification of the appropriate regions
by using Vent DNA polymerase (New England Biolabs) and a Perkin-Elmer
Cetus DNA thermocycler. The 9412 region was generated by amplification
from HindIII-digested HCMV (Towne) genomic DNA. The
remaining constructs were amplified from plasmid pCAT9412.
Oligonucleotides were synthesized at the UNC-Chapel Hill Lineberger
Comprehensive Cancer Center Oligonucleotide Facility. All primers were
engineered to contain either HindIII sites (upstream primers) or PstI sites (downstream primers) by inclusion of
the following sequence at the 5' end of each primer:
(NNNN)2AAGCTT for generation of
HindIII sites or (NNNN)2CTGCAG
for generation of PstI sites, where the restriction site is
underlined and NNNN corresponds to either ACGT (primers 1 and 2), CGAT
(primers 3 to 8), or GCAT (primers 9 to 15). Each construct was
designated by "94" followed by the numbers of the primer pair used
in its amplification. The HCMV-specific region of each primer and the constructs generated using each primer are listed in Table
1.
Following amplification, fragments were digested with
HindIII-
PstI (Promega) and ligated into
HindIII-
PstI-digested pCATBasic
(Promega).
Ligations were transformed into
Escherichia coli DH5

,
and
ampicillin-resistant clones were screened by colony hybridization
using
nick-translated, [
32P]dATP-labeled PCR fragments as
described previously (
76). Positive
clones were grown, and
plasmid DNA was purified by using Qiagen-tip
500 columns (Qiagen). Some
promoter-chloramphenical acetyltransferase
(CAT) constructs were
analyzed by DNA sequence analysis using
a Sequenase kit (United States
Biochemical) as suggested by the
manufacturer, while others were
analyzed by fluorescence tagging
at the UNC-Chapel Hill Automated DNA
Sequencing Facility.
Expression plasmids for HCMV IE2-86 (pcDNA3-IE86) and IE1-72
(pcDNA-IE72) proteins have been previously described (
80).
Expression plasmids for wild-type (pC53-SN3) and mutant (pC53-SCX3)
p53
were supplied by Bert Vogelstein and have also been previously
described (
5).
Primer extension analysis.
UL94 transcripts were analyzed by
primer extension using whole-cell RNA isolated from HCMV-infected HEL
cells as described previously (76). The first UL94-specific
primer, UL94-3 (5' CACCACGTCAGCGTACCAAGTCTGTTC 3'), used in
these assays has also been previously described (76). The
second primer, UL94-2, which overlaps the UL94 open reading frame
(ORF), has the sequence 5' ATGGCTTGGCGCAGCGGTAT 3'.
CAT assays.
For infection-transfection experiments, cells
were seeded into 35-mm-diameter six-well plates at 3 × 106 cells/well. The following day, cells were transfected
via liposome-mediated transfection using
1,3-dioleoyloxy-2-(6-carboxyspermyl)propylamide (DOSPER; Boehringer
Mannheim). For each 35-mm-diameter well, 0.5 µg of reporter plasmid
along with 0.5 µg of Rous Sarcoma virus (RSV)-
-galactosidase
(
-Gal) or simian virus 40 (SV40)-
-Gal plasmid was mixed with 4 µl of DOSPER in a final volume of 100 µl of HEPES-buffered saline
(20 mM HEPES, 150 mM NaCl [pH 7.4]). Sixty microliters of the
DNA-liposome complexes was added dropwise to cells cultured with 1 ml
of medium. All transfections were done in triplicate and were allowed
to proceed overnight. The next day, the transfectant was removed; cells
were washed once with 2 ml of DMEM and subsequently infected with HCMV
at a multiplicity of infection of approximately 2 to 5 PFU/cell.
Following a 2-h absorption period, 1 ml of DMEM supplemented with 4%
heat-inactivated FBS was added to each 35-mm-diameter well. For drug
block experiments, the medium was supplemented with 10 µM ganciclovir
[9-(1,3-dihydroxy-2-propoxymethyl)guanine (DHPG); Syntex] and was
changed daily. Cells were harvested at the appropriate time point
postinfection in 250 µl of 1× cell lysis buffer (Promega). For CAT
assays, cell extract was mixed with acetylenzyme coenzyme A (Boehringer
Mannheim) and [14C]chloramphenicol (New England Nuclear),
and CAT assays were performed as described previously (83).
Samples were standardized by using the Promega
-Gal enzyme assay
system. Assays were carried out as suggested by the manufacturer, and
absorbance at 420 nm for each sample was determined with a Beckman
DU-70 spectrophotometer.
For cotransfection experiments, 0.1 to 0.5 µg of each effector
plasmid was added to the transfection mixture along with 0.5
µg of
each of the reporter and standardization plasmids. DNA amounts
were
standardized by inclusion of the appropriate amount of plasmid
pGEM-7zf(+) (Promega). Transfections were carried out as described
above except that following the transfection, the medium was replaced
with 2 ml of DMEM supplemented with 10% (HEL and U373(MG) cells)
or
15% (Saos-2 cells) FBS. At 72 h posttransfection, cells were
harvested and CAT assays were performed as described above.
EMSA.
For p53 electrophoretic mobility shift assays (EMSA),
we used purified baculovirus-expressed p53 protein with a six-histidine tag (57). Complementary oligonucleotides containing either
wild-type or mutated p53-binding sites from the UL94 promoter were
annealed to generate double-stranded probes. Sequences of
oligonucleotides pairs (5' to 3') are as follows: 94p53W2,
TCACGGAACATGTCCTGGCGC; 94p53C2, GCGCCAGGACATGTTCCGTGA;
94p53W3, TCACGGAACATGTCCTGGCGCGTTGTTTGGGAACTTTGCCGTCAT; 94p53C3, ATGACGGCAAAGTTCCCAAACAACGCGCCAGGACATGTTCCGTGA;
94p53m1, TCACGGAATCGCTCCTGGCGCGTTGTTTGGGAATCGCGCCGTCAT;
and 94p53m2,
ATGACGGCGCGATTCCCAAACAACGCGCCAGGAGCGATTCCGTGA.
EMSA were performed as previously described (
40) except that
1× binding buffer consisted of 10% glycerol, 25 mM HEPES (pH
7.6), 50 mM NaCl, 1 mM dithiothreitol, 0.5 µg of bovine serum
albumin/µl,
0.1% Triton X-100, and 0.1 µg of poly(dI-dC)/µl. For
antibody
supershift experiments, reactions were performed with
1 µl of
antibody per 15 of µl reaction mixture for 30 min at room
temperature
prior to addition of the probe. Anti-p53 antibodies
421 and DO-1 were
obtained from Calbiochem Oncogene Research Products.
 |
RESULTS |
Late-specific RNA start site usage in UL94 transcription.
We
previously reported that UL94-specific DNA probes detected two classes
of transcripts of approximately 9.1 and 2.0 kb in Northern blot
analysis of HCMV-infected cell RNA (76, 77). Both transcript
classes could be detected only at late times of infection and were
sensitive to treatment with ganciclovir, suggesting that UL94 was a
member of the true late kinetic class. We also mapped a putative RNA
start site upstream of the UL94 ORF (76). This start site,
located 336 nucleotides (nt) upstream of the UL94 initiation codon, was
positioned 30 bp downstream of a TATA-box-like sequence and was
detected by using RNA isolated from HCMV-infected cells at 72 h
postinfection (hpi). To ascertain whether this start site was utilized
exclusively at late times of infection, we performed primer extension
analysis on RNA isolated from HCMV-infected cells at IE, early, and
late times of infection, as well as RNA from mock-infected cells and
HCMV-infected cells treated with ganciclovir, using a UL94-specific
primer that was utilized in our previous RNA mapping experiments. As
demonstrated in Fig. 1, extension of the
primer to the putative RNA start site could be detected only at 72 hpi
in the infection time course; in addition, no initiation of
transcription at this site was detected at 72 hpi in the presence of
ganciclovir or in mock-infected cells. Results consistent with those
shown in Fig. 1 were also obtained in analyses using a second primer
(UL94-2) which overlapped the UL94 ORF. These results confirm our
previous observations that UL94-specific mRNA can be detected only at
late times of infection and also demonstrate that the previously mapped
UL94 transcript start site is utilized exclusively at late times of
infection.

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FIG. 1.
Late-specific utilization of the mRNA start site
immediately upstream of the UL94 ORF, determined by primer extension
analysis of UL94 mRNA from HCMV (Towne)-infected fibroblasts using
primers UL94-3 (A), located 208 nt upstream of the UL94 ORF, and primer
UL94-2 (B), which overlaps the ATG for UL94 ORF. The relative positions
of the two probes with respect to the UL94 ORF are shown. The
concentration of DHPG was 10 µM.
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UL94 promoter sequence analysis.
To begin to understand how
UL94 transcription is regulated, we sequenced a 525-bp region proximal
to the TATA-box-like element located upstream of the UL94 ORF. The
sequence analyzed included approximately 210 bp upstream of the UL94
RNA start site as well as 335 bp of sequence located between the RNA
start site and the predicted UL94 initiation codon. The results (Fig.
2) are presented in comparison to the
published sequence for HCMV strain Ad169 in this region (7).
We observed only minor differences in nucleotide sequence between Towne
and Ad169 in the putative UL94 promoter region. The likely TATA box at
30 is nonconsensus but is consistent in sequence with TATA-like
elements found in other HCMV promoter regions. As in other HCMV early
and late promoters, single consensus binding sites for several cellular
transcription factors, including Sp1 and c-Myc, are located immediately
upstream of the TATA box (15, 31). In addition, a possible
20-nt p53 binding element (with the two 10-nt half-sites separated by
13 nt of intervening sequence) is located in the upstream region. The
upstream-most p53 half-site is a perfect match with the consensus
p53-binding sequence WWWCATGRRR, while the downstream half-site has a
2-nt mismatch. The sequence and arrangement of these elements is
consistent with that observed for cellular promoters which have been
demonstrated to be regulated by p53 (18, 20).

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FIG. 2.
DNA sequence analysis of the UL94 promoter region from
HCMV (Towne). All bases are identical to the reported sequence for the
same region of HCMV (Ad169), except where indicated, below the Towne
sequence. Also shown are the putative UL94 TATA box and RNA start site
(+1), as well as consensus binding sites (boxed) for cellular
transcription factors.
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Analysis of sequences located downstream of the UL94 RNA start site
showed no additional TATA-like elements were found in
this region,
although we did detect several consensus initiator
elements
(YYAN[T/A]YY). We have thus far, however, been unable
to detect
transcription initiation at any of these sites, suggesting
that the
presence of these elements is completely fortuitous.
No
cis-regulatory sequence (crs)-like or other binding sites
for
the HCMV IE2-86 viral transactivator could be found in the UL94
promoter region. However, sequence elements for cellular transcription
factors E2F, Sp1, CREB, and the TATA box have been demonstrated
to
mediate virus-induced transcription of viral and heterologous
promoters, suggesting that these elements, or others, could play
a role
in regulation of UL94 transcription (
41,
48,
74,
80).
Functional analysis of UL94 promoter sequences.
To examine the
ability of the putative UL94 promoter sequences to direct
transcription, we subcloned the 525-bp fragment sequenced as described
above into reporter vector pCATBasic. Human fibroblasts were
transfected with the resultant plasmid (9412CAT) and subsequently infected or mock infected with HCMV. As shown in Fig.
3A, extracts from 9412CAT-transfected
fibroblasts contained significantly higher CAT activity following a
72 h superinfection with HCMV relative to mock-infected cells or
infected cells which were transfected with the parent vector lacking
promoter sequences. These results indicated that the 525-bp UL94
promoter fragment contains a functional promoter that is activated in a
virus-dependent manner.

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FIG. 3.
Transient transfection analysis of UL94 promoter
activity from reporter construct 9412CAT, containing the full-length
UL94 promoter region. UL94 promoter-CAT (9412CAT) or the parent vector
(pCATBasic), lacking enhancer-promoter sequences, was transfected into
HEL (A) or U373(MG) (B) cells. Twenty-four hours later, cells were
infected (72 hpi) or mock-infected (mock) with HCMV (Towne). Cell
lysates were prepared at 72 hpi and assayed for CAT activity. Shown is
the mean percent acetylation from triplicate samples for each time
point and plasmid. Samples were standardized for transfection
efficiency by determining -Gal activity from a cotransfected
RSV- -Gal plasmid.
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As a comparison to UL94 promoter activity in fibroblasts, we repeated
the experiment with the HCMV permissive human astrocytoma
cell line
U373(MG) and obtained results analogous to the results
obtained with
fibroblasts (Fig.
3B) (
13,
49,
56). It is
worth noting that
in quantitative comparisons between fibroblasts
and U373(MG) cells, we
generally observed higher levels of UL94
promoter activity in U373(MG)
cells. A comparison of the transfection
efficiencies of HEL and
U373(MG) cells by in situ staining for

-Gal activity, following
transfection with an RSV-

-Gal vector,
indicated that U373(MG) cells
were transfected at a significantly
higher frequency than the HEL cells
and with much less variability.
Since U373(MG) cells are fully
permissive for HCMV infection and
are more efficiently transfected, we
often used these cells preferentially
in subsequent
transfection-infection experiments. However, many
experiments were also
reproduced in HEL cells to ensure that the
results were consistent
within the context of normal human cells.
Deletion analysis of the UL94 promoter.
To more precisely
define the important functional regions of the UL94 promoter, we
generated a series of deletion mutants of the original 525-bp construct
and analyzed the ability of these constructs to support expression of
CAT in transfection-infection experiments. As can be seen in Fig.
4A, deletion of sequences between +130
and +335 resulted in no substantial loss in CAT activity as measured at
72 hpi in U373(MG) cells. In contrast, deletion of sequences between +2
and +130 resulted in at least a 60% reduction in CAT activity relative
to the full-length construct. The relative decrease in activity
observed between constructs 9414CAT and 9413CAT (i.e., 3-fold) is
identical to the reported decrease in activity of HCMV DNA polymerase
promoter-reporter constructs following deletion of the essential IR1
sequence element and analysis by transient transfection-infection
(38). Thus, these results suggest that while sequences
between +130 and +335 of the UL94 promoter region do not contribute
significantly to the activity of the UL94 promoter, a putative positive
regulatory region is located between +2 and +130.

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FIG. 4.
Deletion and point mutation analysis suggests that three
important regulatory elements located within 130 bp of the UL94 mRNA
start site affect UL94 promoter activity: a 3' PRE, a 5' NRE, and a
TATA box. (A) Progressive deletions in downstream sequences (with
respect to the RNA start site); (B) progressive deletions in the
upstream region, as well as point mutations in the TATA box. All
constructs were generated by subcloning the regions shown in the
diagram into pCATBasic. Plasmids were transfected into U373(MG) cells
and subsequently infected with HCMV (Towne) or mock infected. The
relative activity determined for triplicate samples of each construct
following standardization by -Gal activity is shown.
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To examine the influence of sequences upstream of the TATA box on UL94
promoter activity, we also created a series of 5'-deletion
mutants, as
shown in Fig.
4B. To minimize any confounding effects
of the downstream
positive regulatory region mapped above, we
initially constructed a
series of 5'-deletion constructs which
extended only to the RNA start
site and thus did not include the
downstream regulatory region. As
shown in Fig.
4B, when these
constructs were analyzed by
transfection-infection of U373(MG)
cells, no significant CAT activity
was observed in mock-infected
cells; in addition, we observed a
relatively low CAT activity
from constructs containing 210 or 120 bp of
upstream sequence.
However, deletion of all sequences upstream of the
TATA box (9137CAT)
resulted in CAT activity at least threefold greater
than for constructs
which contained 120 bp or more of upstream
sequence. The CAT activity
from this minimal construct was similar to
that observed with
the 9414CAT construct, which contained 210 bp of
upstream sequence
as well as the putative downstream regulatory region.
Since addition
of 120 bp of upstream sequence resulted in diminished
CAT activity
relative to the minimal construct containing only the
region immediately
proximal to the TATA box and RNA start site, this
experiment suggested
that a possible negative regulatory region is
located upstream
of the TATA box in the UL94 promoter.
To demonstrate that the TATA sequence found in our promoter-CAT
constructs was indeed a TATA box, we created a minimal promoter
construct (94310CAT) in which specific point mutations were introduced
into the TATA sequence (TATTATTAA to TAGGAGTAA). As shown in Fig.
4B,
the level of CAT activity from this construct was threefold
lower than
that of the otherwise identical wild-type construct
(compare 94310CAT
and 9437CAT). This reduction in CAT activity
is similar to that
observed in constructs which contain a wild-type
TATA box and the
putative 5' NRE, indicating that the wild-type
TATA sequence is
essential to maximum promoter activity.
To determine the effect of the putative 3' PRE on promoter activity,
with or without the presence of the 5' NRE, we created
an additional
construct which contained no sequences upstream
of the TATA box but
extended 3 to +130 (i.e., into the PRE). As
shown in Fig.
5, there was no significant difference in
CAT activity
between constructs 9447CAT and 9437CAT at 72 hpi. This
finding
suggested that the PRE region did not significantly add to the
promoter activity that was observed with the TATA box alone at
late
times of infection. In contrast to these results, however,
CAT activity
from construct 9414CAT, containing the TATA box,
PRE, and NRE, was
significantly higher at 72 hpi than the activity
of construct 9413CAT,
which contains only the TATA box and NRE.
These results suggested that
the positive effect of the PRE is
dominant over the negative effect of
the NRE at late times of
infection.

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FIG. 5.
(A) The putative downstream PRE is dominant to the
upstream NRE at late times of infection. (B) The dominant effect of the
PRE over the NRE is not obviously observed prior to the onset of viral
DNA replication (24 hpi) or if viral DNA replication is inhibited (72 hpi + DHPG [10 µM]). Shown are the relative CAT activities of
triplicate samples for each plasmid construct standardized by -Gal
activity. Transfection-infection was carried out in U373(MG) cells, and
cells were harvested at 24 or 72 hpi as indicated. (C) Constructs
containing the UL94 TATA box as well as the PRE (9447CAT), the NRE
(9413CAT), both elements (9414CAT), or neither element (9437CAT).
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Taken together, the results of this series of 5'- and 3'-deletion
constructs, as well as the TATA-box point mutants, suggests
the
existence of three important regulatory elements within a
region
encompassing

120 to +130 of the UL94 promoter: a 5' NRE,
a 3' PRE,
and a TATA box. At late times of infection, the repressive
effect of
the 5' NRE is observed only when the 3' PRE is absent,
indicating that
PRE function is dominant to NRE function at late
times of infection.
However, constructs which contain only the
TATA box and the 5' NRE
exhibit only minimal activity in comparison
to the TATA-only construct
or constructs containing the 3' PRE.
Thus, the PRE appears to function
as a derepression element, as
it has the capacity to overcome the
negative effect exerted by
the NRE on the TATA box region of UL94
promoter at late times
of infection.
UL94 promoter activity at 24 hpi and in the presence of
ganciclovir.
True late viral promoters are active only after the
onset of viral DNA replication. Deletion mutagenesis of late promoters from HSV has suggested that in addition to the requirement for viral
DNA replication, cis-regulatory sequences located in late promoters influence promoter activity by either enhancing activity exclusively at late times of infection or by preventing late promoter activity at earlier times of infection (19, 21, 22, 27, 29,
30). Indeed, it is likely that both positive and negative regulatory mechanisms are necessary for precise regulation of late
promoters. To address this question, we performed another series of
transfection-infection experiments in which CAT activity was measured
following a 24-h infection with HCMV or a 72-h infection in the
presence of ganciclovir. Specifically, we compared the activity of our
promoter construct containing only the TATA box (9437CAT) with those of
constructs containing the TATA box and either the NRE (9413CAT),
the PRE (9447CAT), or both (9414CAT) at both 24 hpi and at 72 hpi
in the presence of ganciclovir. As can be seen in Fig. 5B, none of the
UL94 promoter constructs had significant CAT activity at 24 hpi, as
directly compared to the activity of the promoterless-vector control.
There was a small but measurable increase in activity with constructs
9437CAT and 9447CAT, in comparison to the other constructs, suggesting
that lack of the NRE resulted in higher activity of the UL94 promoter at early times of infection. This conclusion was substantiated by the
results obtained at 72 hpi with ganciclovir: constructs 9437CAT and
9447CAT had significantly higher activity under these conditions than
either 9413CAT or 9414CAT; indeed, the activity of 9413CAT and 9414CAT
was no higher at 72 hpi with ganciclovir than at 24 hpi. Interestingly,
whereas at 72 hpi the activity of 9414CAT was equivalent to that seen
with 9447CAT or 9437CAT (Fig. 5A), its activity at 24 hpi and at 72 hpi
with ganciclovir was extremely low. This suggests that the dominant
effect of the PRE is a late-phase-specific event, since we do not
observe the derepression at 24 hpi or at 72 hpi with ganciclovir. In
addition, since both 9437CAT and 9447CAT, which lack the NRE, are
active both at 24 hpi and at 72 hpi with ganciclovir, it is likely that the UL94 promoter TATA box can be activated at early times of infection
in the absence of the NRE.
Additional deletion mapping of the 5' NRE.
Sequence analysis
of the UL94 promoter demonstrated that putative binding sites for
several cellular transcription factors, including p53, were located
within the NRE region (Fig. 2). It has previously been reported that
whereas p53 generally activates transcription in a
DNA-binding-dependent manner, in the presence of viral proteins such as
HCMV IE2-86, adenovirus E1A or E1B, hepatitis B virus (HBV) X protein,
or SV40 large T antigen, transcription from promoters with p53-binding
sites is repressed (12, 28, 48, 55, 57, 62, 64, 71, 72).
Since the NRE appears to be involved in repression of the UL94
promoter, we tested the effect of deletion of either one or both p53
half-sites on UL94 promoter activity in transfection-infection
experiments. There was an additive effect of deletion of either one or
both p53 sites: when both sites were deleted, there was an
approximately 2.5-fold increase in UL94 promoter activity at 72 hpi in
comparison to constructs containing the p53-binding-site region (Fig.
6A). The effect was even more pronounced
at 72 hpi with ganciclovir: as much as a fivefold increase in UL94
promoter activity was seen when the region containing the p53 sites was
deleted (Fig. 6B). In addition, we detected a close to twofold increase
in promoter activity at late times of infection when point mutations
were introduced into the upstream p53-binding site (Fig. 6C). These results suggest that the region containing the p53-binding sites contributes to the repression activity observed with the UL94 promoter
NRE. Since deletion of the p53-binding sites did not restore promoter
activity to that observed with deletion of the entire NRE, we conclude
that other sequences besides the p53-binding-site region play a role in
full NRE activity.

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FIG. 6.
Deletion or mutation of the consensus p53-binding sites
in the putative NRE region leads to increased UL94 promoter activity at
late times of infection or when viral DNA replication is inhibited. (A)
CAT activities at 72 hpi for UL94 promoter constructs containing both
p53 sites (9413CAT) or with deletions in the perfect consensus p53 site
(9438CAT), both (9436CAT) p53 sites, or all sequences upstream of the
TATA box; (B) CAT activities of the same constructs at 72 hpi with DHPG
(10 µM); (C) CAT activities at 72 hpi from constructs containing both
(9439CAT) or neither (9437CAT) p53 site, or point mutations in the
first perfect consensus p53 site (94313CAT). The mean relative activity
of triplicate samples of each construct, standardized by -Gal
activity, is shown. All constructs were transfected into U373(MG)
cells, infected with HCMV 24 h later, and harvested for CAT
activity at 72 hpi.
|
|
Effect of p53 on UL94 promoter activity in cotransfection
assays.
To determine the effect of p53 on UL94 promoter activity,
we cotransfected p53-negative Saos-2 cells with plasmids expressing either wild-type or mutant p53 and UL94 promoter construct 9439CAT, which contains the putative p53-binding sites. Cotransfection of
9439CAT with wild-type p53 resulted in an approximately 20-fold increase in promoter activity compared to cotransfection with mutant
p53 or vector alone controls (Fig. 7A).
Likewise, wild-type p53 had no effect on the promoterless vector
control. In addition to promoter construct 9439CAT, we tested several
other UL94 promoter constructs for responsiveness to p53 in Saos-2
cells (Fig. 7B). All of the constructs
containing both p53-binding sites were significantly activated by
cotransfection with wild-type p53, whereas constructs lacking the
p53-binding sites were not activated. Interestingly, construct 9436CAT,
which contains only the downstream, nonconsensus p53-binding site, and
construct 94313CAT, which contains point mutations in the upstream
p53-binding site, were also not activated by p53 in Saos-2 cells. These
results imply that both p53-binding sites are necessary for
responsiveness to p53 or, alternatively, that the downstream p53 site
is simply unresponsive to p53. These two possibilities are addressed
below.

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FIG. 7.
Stimulation of UL94 promoter activity by p53 in Saos-2
cells. (A) Saos-2 cells were cotransfected with UL94 promoter construct
9439CAT, containing both p53 sites, or pCATBasic, along with expression
plasmids for wild-type (wt) or mutant (mut) p53. (B) UL94 promoter
constructs containing both p53 sites (9415CAT, 9439CAT, and 9413CAT),
neither p53 site (9437CAT and 9436CAT), the downstream nonconsensus p53
site (9438CAT), or point mutations in the upstream perfect consensus
p53 site (94313CAT) were cotransfected with expression plasmid for
wild-type p53. For both panels, the relative mean activity for
triplicate samples of each construct and/or condition is shown.
|
|

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FIG. 8.
Binding of baculovirus-expressed p53 to the UL94
promoter p53 sites by EMSA. (A) Free, labeled, wild-type (wt) (lane 1)
or mutant (mut) (lane 2) oligonucleotide probes, or wild-type (lane 3)
and mutant (lane 4) probes incubated with purified, histidine-tagged
p53; (B) p53 binding to labeled wild-type p53 probe containing both p53
sites of UL94 promoter (lane 10, W3C3) compared to only the upstream
consensus p53 site (lane 9 and 11, W2C2) as well as both probes alone
(lane 5 and 6, respectively), and supershift/stabilization of p53
binding to UL94 promoter p53 sites with p53-specific antibodies 421 (lanes 7) and DO-1 (lane 8), respectively.
|
|
Binding of p53 to the UL94 promoter.
To demonstrate binding of
p53 to the UL94 promoter, we used, in EMSA, oligonucleotides containing
either one or both UL94 promoter p53-binding sites, or oligonucleotides
containing mutated p53 sites, and purified baculovirus-expressed p53.
As shown in Fig. 8, p53 bound to the wild-type but not the mutated UL94
p53 sites (lanes 3 and 4). This binding could be specifically competed by excess unlabeled wild-type (W3C3) but not mutant (m1/m2) UL94 p53
site probe (data not shown). We could also supershift the p53-UL94
promoter complex with p53-specific antibodies (lanes 7 and 8). In
addition, p53 protein bound at a much higher affinity to probes
containing both p53 sites (lane 10 [with W3C3 probe]) than a probe
containing only the upstream consensus p53-binding site (lane 9 [with
W2C2]). This result suggests that binding of p53 to the UL94 promoter
requires both p53-binding sites and is consistent with previous reports
which indicate that binding of tetrameric p53 to responsive promoters
requires more than one 10-bp p53 consensus sequence. These results also
suggest that the downstream p53 site in the UL94 promoter is likely to
be necessary for stabilization of the p53-DNA interaction, despite the
fact that this element alone cannot support p53-mediated
transactivation. It should be noted that while the gel shift and CAT
assay data demonstrate that the two 10-bp p53-binding sites in the NRE
are essential to obtain p53 binding to the NRE (EMSA) and
transactivation (p53 expression alone) or suppression (coexpression of
p53 and IE2-86 [see below]) of NRE-containing promoters (CAT assays), we have not yet determined which NRE nucleotides are bound to p53.
Effect of HCMV IE2-86 on the UL94 promoter.
Since the
p53-binding sites in the UL94 promoter appear to contribute to
repression of the UL94 promoter during infection, we wondered why they
mediated p53-dependent activation in Saos-2 cells. As mentioned
earlier, the HCMV IE2-86 protein has been reported to tether a
transcriptional repression domain to p53 through protein-protein
interaction (71). The effect of this interaction is a
p53-binding-site-dependent IE2-mediated repression of transcription by
p53. To examine the effect of IE2-86 on p53-mediated activation of the
UL94 promoter, we cotransfected Saos-2 cells with UL94 promoter
construct 9439CAT and expression plasmids for both p53 and IE2. As can
be seen in Fig. 9A, IE2-86 alone had no
effect on UL94 promoter activity; in contrast, when cotransfected with
p53, IE2-86 abrogated p53-mediated activation of the UL94 promoter. The
level of repression that we observed is consistent with previously
published data showing repression of p53-mediated transcription by
IE2-86. Furthermore, Western blot analysis showed this repression was
not due to a decrease in p53 levels in the presence of IE2-86 (data not
shown). These results demonstrate that IE2-86-mediated repression of
p53 can recapitulate the transcriptional repression observed during
infection by the UL94 promoter NRE region.

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FIG. 9.
IE2-mediated inhibition of p53 transactivation of UL94
promoter constructs, with or without the PRE region, recapitulates NRE
function. (A) Cotransfection of UL94 promoter construct 9439CAT, which
lacks the PRE, with expression vectors for p53, p53 plus IE2-86, or the
empty expression vector (pCDNA); (B) transfection-infection experiment
demonstrating that UL94 promoter construct 94115CAT, which contains an
additional deletion in the PRE region, has levels of activity
comparable to those of 9414CAT at late times of infection; (C)
IE2-86-mediated inhibition of p53 transactivation of UL94 promoter
construct 94115CAT, containing the reduced PRE region. The relative
mean activity of triplicate samples for each condition is shown in each
case.
|
|
Of the functionally important UL94 promoter regions, construct 9439CAT
contains only the TATA box and NRE; however, we also
wanted to measure
the effect of p53 on promoter constructs containing
the PRE region,
since our transfection-infection data suggested
that the PRE had the
capacity to disrupt NRE function at late
times of infection. In
addition, we were interested in more precisely
localizing the PRE
region. To address the second point, we generated
an additional
deletion mutant, 94115CAT, which extends to +48
with respect to the RNA
initiation site. As can be seen in Fig.
9B, when this construct was
tested for functionality in infection-transfection
assays, its activity
was similar to that of 9414CAT, which contained
an additional 82 bp of
downstream sequence. We conclude from this
experiment that PRE function
resides in the first 48 bp downstream
of the RNA initiation site. To
determine the effect of p53 and
IE2 on 94115CAT, we cotransfected
Saos-2 cells with 94115CAT and
expression plasmids for p53 and IE2-86,
as before. The results
(Fig.
9C) indicated that 94115CAT is also
responsive to p53 and,
further, that IE2-86 could abrogate this
stimulation. Thus, in
the absence of any other viral gene products, the
PRE region of
UL94 promoter has no obvious role in the repression of
the UL94
promoter activity by IE2-86 or p53.
 |
DISCUSSION |
In this report, we provide a characterization of the promoter
region regulating expression of the HCMV UL94 protein. We show that,
consistent with our previous data, transcription from the putative UL94
promoter occurs only at late times of infection and is sensitive to
treatment with the viral DNA replication inhibitor ganciclovir
(77). DNA sequence analysis of the UL94 promoter indicated
the presence of a TATA-box-like element at
30 with respect to the RNA
start site. Analysis of the UL94 promoter in transient transfection
assays indicated that it could support transcription of CAT during a
productive infection with HCMV. Mutagenesis of the UL94 promoter
indicated that maximum activity was dependent on the TATA box-like
element, since point mutations in this element significantly reduced
UL94 promoter activity. In the absence of any other UL94 promoter
regulatory sequences, this basic TATA box can activate transcription at
early and late times of infection.
Deletion analysis suggested that regions both upstream and downstream
of the RNA start site are important for regulation of the UL94
promoter. The downstream PRE region appears to be necessary for
stimulation of UL94 promoter activity at late times of infection, since
in context of the entire promoter, its absence leads to diminished
promoter activity. In contrast, the upstream NRE appears to prevent
activation of the UL94 promoter, since its presence curtails
TATA-box-mediated activation. The NRE appears to confer constitutive
repression on the UL94 TATA box, since promoter constructs containing
only the NRE and TATA box have diminished activity throughout
infection. In contrast, the PRE appears to enhance activation of the
UL94 promoter exclusively at late times of infection, since constructs
containing both the NRE and PRE have diminished activity at 24 hpi and
at 72 hpi with ganciclovir but are fully active at 72 hpi. Given these
observations, the primary role of the PRE appears to overcome the
repressive effect of the NRE at late times of infection, since it is
only at late times of infection in the presence of the NRE that any
effect mediated through the PRE can be demonstrated.
Mutagenesis of the PRE region indicated that the functionally important
sequences were located within the first 48 bp downstream of the RNA
start site. Mutagenesis of the NRE suggests that its activity is
mediated, in part, through two 10-bp binding sites for the cellular
protein p53. Deletion of the p53-binding sites increased UL94 promoter
activity; point mutations in the upstream p53 site had the same effect.
Purified p53 protein bound to wild-type but not mutant UL94 promoter
p53 binding sites in EMSA. This binding occurred at a much higher
affinity when a probe containing both p53 sites was used.
In addition to these experiments, the biological effect of the NRE
region was recapitulated in cotransfection experiments using expression
plasmids for p53 and HCMV IE2-86 protein in conjunction with UL94
promoter-CAT constructs. We also demonstrated that p53 stimulated UL94
promoter activity in cotransfection assays in a manner dependent on the
presence of both p53-binding sites. This stimulation was abrogated by
cotransfection with the HCMV IE2-86 protein, suggesting that a p53-IE2
interaction is important for repression of the UL94 promoter. This
effect is consistent with the observed role of the NRE region in the
transfection-infection experiments.
The exact nature of the PRE and NRE regions is unclear, although it
appears that the NRE functions, in part, via interaction with cellular
p53. As has been seen with other HCMV viral promoters that contain NRE
and PRE regions, constructs containing only the PRE were constitutively
active (31). In addition, as has been shown with at least
one other HCMV viral promoter (UL4), cellular factors bind to and are
important for the NRE function, as we have demonstrated with p53 in
this study. However, in the UL4 promoter, IE2 expression could activate
gene expression (31), whereas IE2-86 is required for the NRE
region to prevent UL94 promoter activation. Clearly, there are other
important sequences within the NRE, since deletion of the p53 sites
does not result in complete NRE inactivation. We are currently
investigating the role of other sequences within the NRE, including the
Sp1 site. Since p53 has been reported to physically interact with Sp1,
it is possible that a larger complex containing both of these proteins enhances NRE function (20).
Both IE2-86 and p53 are rapidly induced and/or their levels are
stabilized throughout HCMV infection (34, 51, 52, 62, 65);
thus, it is likely that an interaction between the two proteins results
in a constitutive inactivation of promoters containing certain p53
sites during HCMV infection. While no data addressing this possibility
have been published, it has been suggested that levels of the
p53-regulated protein p21/WafI/CipI are not altered during HCMV
infection (38). Since other stimuli which increase intracellular concentrations of p53 often lead to a p53-mediated induction of p21 (6, 14, 23), it is likely that p53, through its interactions with IE2-86, is inactivated during HCMV infection with
respect to its ability to transactivate certain promoters. This effect
of IE2-86 on p53 has been documented in other studies via transient
assays using p53-reporter constructs in cotransfections with p53 and
IE2 (65, 74). It has also been reported that p53 and IE2-86
physically interact to mediate this effect (74). Active
repression of p53-responsive promoters has also been observed in
several other viral systems, including adenovirus, SV40, and HBV; in
each case, the repressive effect is mediated by important viral
transcriptional regulators, including adenoviruses E1A/E1B, SV40 large
T antigen, and the HBV X protein (28, 55, 64, 67, 68, 70,
75). Since the HCMV IE2-86 protein shares many functional
characteristics with these proteins, it is reasonable to speculate that
it has a similar effect on p53 activity during the viral replication
cycle. In fact, it is likely that induction or stabilization of p53
during viral infection ensures that p53-responsive promoters remain
actively repressed during the replication cycle, in a manner dependent
on viral transcriptional regulators. p53 has been well documented to be
involved in both cell cycle arrest and apoptosis (1, 2, 6, 8, 11,
17, 25, 26, 45, 60, 66, 79). Whether the primary goal of the
HCMV-mediated inactivation of p53 function is to prevent p53-mediated
cell cycle arrest or, alternatively, p53-mediated apoptosis is not yet
clear. It has been reported that IE2-86 can inhibit apoptosis in
certain cell types and that HCMV infection results in cell cycle arrest in G2/M (36, 84); both of these effects are
possibly mediated through p53. Regardless of this distinction, our
results suggest that p53 is involved in regulating the UL94 promoter,
providing functional relevance, in the context of HCMV infection, for
the interaction between IE2-86 and p53.
While we have identified important cis-regulatory signals
and trans-acting factors which have the capacity to regulate
the UL94 promoter, we have not yet addressed the role of viral DNA replication. Since the UL94 promoter is not active at early times of
infection or at 72 hpi with ganciclovir in its normal genomic context,
it is clear that viral DNA replication plays an important role in UL94
promoter regulation. As has been demonstrated for other herpesvirus
late promoters, we have observed that even those UL94 promoter
constructs that have reduced activity due to mutation are not
completely inactivated in transient transfection experiments. This is
likely to be due to the fact that our promoter constructs are presented
in the context of bacterial plasmids instead of the viral genome: such
a context has been demonstrated to abrogate some aspects of viral late
gene regulation. The mechanism responsible for this effect, however, is
not known. Now that we have defined a minimal UL94 promoter region that
appears to contain all of the important cis-regulatory
regions, we would like to recombine a UL94 promoter-reporter gene
construct into the viral genome in order to study its regulation in a
more appropriate context. Such an approach has been used to study HSV
late promoters as well as the HCMV UL99 true late promoter (20,
22, 39). We anticipate that in the context of the viral genome,
the effects of mutations within the NRE and/or PRE will be
substantially greater than what has been observed in transient assays
and that we will be able to more precisely define the role of these
cis-regulatory regions as well as viral and cellular
proteins in the regulation of UL94 expression.
It is particularly intriguing that a late promoter
whose activity
requires the onset of viral DNA replication
would be regulated, in
part, through p53. Aside from its role in regulating transcription of
important cell cycle regulators such as p21 and mdm2, p53 can also
actively inhibit cellular DNA replication through protein-protein and
protein-DNA interactions (49). While the role for p53 in HCMV viral DNA replication has not been demonstrated, regulation of the
UL94 promoter by a cellular protein that can regulate both transcription and DNA replication is consistent with the association between viral late gene transcription and viral DNA replication. Thus,
our results suggest a possibly novel mechanism by which viral DNA
replication and late gene expression are concomitantly regulated.
 |
ACKNOWLEDGMENTS |
The first two authors contributed equally to this work.
We thank Eric Poma and Andrew Yurochko for critical reading of the
manuscript and Shu-mei Huong and Ke-Wu Lei for excellent technical
assistance.
This work was supported by grant AI12712 and CA 21773 from the National
Institutes of Health to E.-S.H.
 |
FOOTNOTES |
*
Corresponding author. Mailing address: 117 Lineberger
Comprehensive Cancer Center, Campus Box 7295, University of North
Carolina at Chapel Hill, Chapel Hill, NC 27599-7295. Phone: (919)
966-4323. Fax: (919) 966-4303. E-mail:
ESHUANG{at}MED.UNC.EDU.
Present address: Department of Molecular Biology, Howard Hughes
Medical Institute, Princeton University, Princeton, NJ 08544.
 |
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J Virol, March 1998, p. 1814-1825, Vol. 72, No. 3
0022-538X/98/$04.00+0
Copyright © 1998, American Society for Microbiology. All rights reserved.
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