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Journal of Virology, October 2000, p. 9054-9061, Vol. 74, No. 19
0022-538X/00/$04.00+0
Copyright © 2000, American Society for Microbiology. All rights reserved.
Novel Class of Thiourea Compounds That Inhibit Herpes Simplex
Virus Type 1 DNA Cleavage and Encapsidation: Resistance Maps to the
UL6 Gene
Marja
van
Zeijl,1,*
Jeanette
Fairhurst,1
Thomas R.
Jones,1
Steven K.
Vernon,2
John
Morin,3
James
LaRocque,3
Boris
Feld,1
Bryan
O'Hara,1,
Jonathan D.
Bloom,4 and
Stephen V.
Johann1
Department of Molecular
Biology/Virology,1 Department of
Automation and Robotics,3 and Chemical
Sciences,4 Wyeth-Ayerst Research, Pearl River,
New York 10965, and Core Biotechnology Group, Wyeth-Ayerst
Research, Radnor, Pennsylvania 190872
Received 22 March 2000/Accepted 7 July 2000
 |
ABSTRACT |
In our search for novel inhibitors of herpes simplex virus type 1 (HSV-1), a new class of thiourea inhibitors was discovered. N-{4-[3-(5-Chloro-2,4-dimethoxyphenyl)-thioureido]-phenyl}-acetamide and its 2-fluoro-benzamide derivative inhibited HSV-1 replication. HSV-2, human cytomegalovirus, and varicella-zoster virus were inhibited
to a lesser extent. The compounds acted late in the replication cycle
by impairing both the cleavage of concatameric viral DNA into progeny
genome length and the packaging of the DNA into capsids, indicative of
a defect in the encapsidation process. To uncover the molecular target
of the inhibition, resistant HSV-1 isolates were generated, and the
mutation responsible for the resistance was mapped using marker
transfer techniques. Each of three independent isolates had point
mutations in the UL6 gene which resulted in independent
single-amino-acid changes. One mutation was located in the N terminus
of the protein (E121D), while two were located close together in the C
terminus (A618V and Q621R). Each of these point mutations was
sufficient to confer drug resistance when introduced into wild-type
virus. The UL6 gene is one of the seven HSV-1 genes known to play a
role in DNA packaging. This novel class of inhibitors has provided a
new tool for dissection of HSV-1 encapsidation mechanisms and has
uncovered a new viable target for the treatment of herpesviral diseases.
 |
INTRODUCTION |
The herpesvirus family has many
members that are human pathogens and make a significant contribution to
morbidity and mortality associated with viral diseases. Based on
criteria such as host cell specificity, oncogenicity, length of
replication cycle, and genome arrangement, the herpesviruses have been
divided into alpha-, beta-, and gammaherpesviruses (31). The
alphaherpesviruses herpes simplex virus (HSV) types 1 and 2 latently
infect nerve cells. HSV-1 is primarily associated with herpes labialis,
and HSV-2 is associated with herpes genitalis, but both types have been associated with both diseases (28, 39, 47). In
immunocompetent adults, these diseases often recur due to reactivation
of the virus from the latent state. HSV infections of immunocompromised patients such as transplant and AIDS patients are often chronic and
fatal. Current therapy for HSV disease consists of nucleoside analogs
such as acyclovir (ACV) and valacyclovir, a prodrug of ACV, and
pencyclovir (PCV) and its prodrug, famcyclovir. ACV and PCV are
selectively phosphorylated by the viral thymidine kinase in
HSV-infected cells, followed by further phosphorylation to the
triphosphate by cellular kinases. Triphosphorylated ACV and PCV are
both inhibitors of the viral DNA polymerase, and ACV also acts as a
chain terminator when incorporated into the nascent viral DNA chain
(4, 13). Drug resistance can occur in chronic infections,
where replication is ineffectively curtailed by the immune system.
Recently increasing numbers of drug-resistant HSV strains have been
isolated from immunocompromised people. The mechanism of
resistance of most ACV-resistant isolates is associated with
thymidine kinase alterations, but some have mutations associated with
the viral DNA polymerase (9, 10, 27). It is clear that
alternative treatment options which have new mechanisms of action are
needed. This will enable dual therapy and provide alternatives for
patients with drug-resistant infections.
The life cycle of herpesviruses is a highly regulated process
(31). After entry of the virus into the cell, the
nucleocapsid migrates to the nucleus, where the viral DNA is deposited
and transcription of so-called immediate-early genes occurs. The
resulting immediate-early proteins initiate transcription of early
genes, some of which encode proteins from the viral DNA replication
machinery. Viral DNA is then replicated in what is believed to be a
rolling-circle mechanism, resulting in concatameric DNA. At
approximately the same time, the assembly of viral procapsids commences
in the nucleus. During the process of encapsidation, the progeny viral
DNA is cleaved to monomeric forms, and in a closely coupled process, the monomeric DNA is packaged into these immature capsids. Encapsidated genomes then migrate out of the nucleus, acquire a lipid envelope containing viral glycoproteins, and leave the cell (15, 32). Each of these steps in the replication cycle, in theory, could be
inhibited by small-molecule therapeutics.
We have discovered a new class of compounds in our search for novel HSV
inhibitors. We describe here two thiourea molecules that inhibit HSV
through a novel mechanism. Instead of inhibiting the replication of
viral DNA, we show that these compounds prevent the cleavage and
packaging of viral DNA. Seven HSV-1 genes have been shown to be
involved in the encapsidation process, ULs 6, 15, 17, 25, 28, 32, and
33 (1, 2, 3, 8, 20-22, 25, 26, 35, 41, 46, 48). When HSV
viruses containing loss-of-function mutations in these encapsidation
genes are used to infect cells, the viral progeny DNA fails to be
packaged into capsids.
Experiments with laboratory-generated mutants resistant to the
compounds described here indicated that resistance was associated with
mutations in the UL6 open reading frame. The UL6 product is a 75-kDa
protein that is a component of capsids (24). UL6 deletion
mutants are defective in both DNA packaging and cleavage (20,
24).
The results presented here suggest that the encapsidation process in
general, and the UL6 gene product in particular, are valid targets for
antiherpesvirus chemotherapy.
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MATERIALS AND METHODS |
Cells and viruses.
Vero cells were cultured in Dulbecco's
minimal essential medium (DMEM; Mediatech, Herndon, Va.) supplemented
with 5% fetal bovine serum, 5% calf serum (CS), penicillin,
streptomycin, and L-glutamine. HSV-1 strain Patton was
obtained from R. Hyman (The Pennsylvania State University College of
Medicine, Hershey, Pa.). HSV-1 strain E377 and HSV-2 strains 12 and 186 were obtained from C. P. Cerini (Wyeth Lederle Vaccine Research,
Pearl River, N.Y.). HSV types I and II were propagated on Vero cells in
the presence of 2% CS. Varicella-zoster virus (VZV) strain Ellen was
obtained from the American Type Culture Collection (no. 1367-VR) and
propagated in human foreskin fibroblast (HFF) cells in DMEM with 2% CS.
The construction and isolation of recombinant mutant human
cytomegalovirus (HCMV), designated RV12174, containing the
-glucuronidase gene under the control of the US3 immediate-early
promoter was done by the general method described previously
(17). Plasmid pd1US3-Bgluc was constructed. Sequentially,
this plasmid contains the 1.706-kb PstI-PstI
fragment (HCMV AD169 bases 196447 to 194741 [GenBank accession number
X17403] containing the US6 flanking sequences and the
US3 promoter), the
-glucuronidase gene, and the 2.075-kb
Asp718-ApaI fragment (HCMV AD169 bases 194108 to 192033, containing the US3 polyadenylation sequence and the US2-US1 flanking sequences). Following plasmid linearization and cotransfection with HCMV wild-type strain AD169 genomic DNA, plaques containing
-glucuronidase-expressing virus were picked and purified. The proper
genomic organization of the mutant HCMV was verified by DNA blot
hybridization analysis (data not shown) as previously described
(17).
Compounds.
CL-253824 was obtained from Alfred Bader Chemical
Company (catalog no. S68470-8). WAY-150138 was prepared in a three-step procedure from commercially available starting materials.
N-BOC-p-phenylenediamine (Fluka, Milwaukee, Wis.)
was acylated by standard methods with 2-fluorobenzoyl chloride. The
resulting amide was treated with trifluoroacetic acid to give the free
aniline. This material was reacted with
5-chloro-2,4-dimethoxyphenylisothiocyanate (Aldrich, St. Louis, Mo.) to
give the desired product.
Virus infection and treatment with compounds. (i) Automated ELISA
format.
Growth of HSV in the presence of compounds was monitored
after 1 day by enzyme-linked immunosorbent assay (ELISA) in microtiter plates (3.5 × 104 Vero cells/well in 96-well plates
[Corning]), using primary antibodies against gD (DL6 Mab; A. Abramovitz, Wyeth Lederle Vaccine Research, Pearl River, N.Y.)
(16). Growth of VZV in the presence of compounds was
monitored after 3 days by ELISA in microtiter plates. VZV-infected cells were mixed with HFF cells at an empirically established ratio.
Reagents used for the VZV ELISA were anti-VZV gpII primary antibody
(Advanced Biotechnologies Incorporated, Columbia, Md.). The assays were
developed with
-galactosidase-linked secondary antibodies A131GN
(for HSV) or A106GS (VZV) (American Qualex, La Miranda, Calif.) and the
fluorogenic substrate
4-methylumbelliferyl-
-D-galactoside (Sigma).
(ii) Automated
-glucuronidase assay.
Growth of
HCMV-infected HFF cells in the presence of compounds was monitored
after 4 days (3.5 × 104 cells/well in a 96-well
microtiter plate). The medium was aspirated, and cells were lysed in
the presence of fluorescent
-glucuronidase substrate (0.1%
4-methylumbelliferyl-
-D-glucuronide [Sigma], 31.7 mM
Na2HPO4, 39.8 mM
NaH2PO4 · 1 H2O, 10 mM KCl, 0.86 mM MgSO4 · 7H2O, 0.1% Triton X-100).
After incubation at 37°C for 20 min, fluorescence was measured
(excitation at 365 nm and emission at 450 nm).
(iii) All other assays.
Vero cells were plated in 35-mm
dishes as a confluent monolayer in DMEM with 2% CS and infected the
next day as follows. Cells were washed in DMEM-2% CS, and HSV-1 virus
was added in 1 ml of DMEM-2% CS at a multiplicity of infection (MOI)
of 5. Virus was removed after 1 h of infection and replaced with 2 ml of DMEM-2% CS. Antiviral compounds were diluted from a stock of 10 mg/ml in dimethyl sulfoxide into DMEM-2% CS to a final concentration of 10 µg/ml (WAY-150138) or 30 µg/ml (CL-253824) and added to cells
at the times indicated in the text. Untreated cells were processed for
yield reduction or DNA cleavage analysis at 2, 4, 6, 8, 10, and 24 h postinfection (h.p.i.); compound-treated cells were processed at
24 h.p.i.
Virus yield titration.
Dishes with HSV-1-infected Vero cells
(MOI, 0.05 to 1) were frozen at
70°C and thawed at room temperature
(RT). Cell lysates were collected in 15-ml tubes and sonicated in a
sonicator waterbath (Branson, Shelton, Conn.), and cell debris was
removed by centrifugation at 1,000 rpm for 5 min at RT in a GPKR
centrifuge (Beckman, Fullerton, Calif.). Supernatants were transferred
to a new tube, and serial 10-fold dilutions were prepared in DMEM-2%
CS. Vero cells were plated at 4 × 105 cells per well
in 12-well plates 1 day before use. Virus dilutions were added to Vero
cells, 1 ml per well, and incubated for 1 h. Virus inocula were
aspirated and replaced with 1 ml of DMEM-2% CS, and cells were
incubated for 2 days. Cells were fixed by addition of 20%
trichloroacetic acid to a final concentration of approximately 10% and
incubated for 5 min at RT. Cells were stained with 1% crystal violet
in 20% methanol in phosphate-buffered saline (PBS; Mediatech, Herndon,
Va.) for 10 min at RT. Plaques were counted manually.
Analysis of DNA cleavage.
HSV-1-infected Vero cells were
washed twice with PBS and lysed by the addition of 0.5 ml of 10 mM
Tris-Cl (pH 7.5)-10 mM EDTA (TE) with 0.45% sodium dodecyl sulfate
(SDS). The viscous cell lysates were scraped into a microcentrifuge
tube. RNA was degraded by the addition of 2.5 µl of 10-mg/ml RNase A
(Sigma) and incubated at 37°C for 15 min. Protein was degraded by
addition of 27.5 µl of 20-mg/ml pronase (Sigma), and incubated at
37°C overnight. Alternatively, cells were lysed essentially as
before, but DNA was precipitated with NaCl according to Rosenthal et
al. (33) before phenol extraction. Lysates were extracted
with phenol followed by chloroform-isoamyl alcohol (24:1) and
precipitated with ethanol. DNA pellets were air dried and resuspended
in 150 µl of TE.
Viral DNA was digested with
BamHI (New England Biolabs,
Beverly, Mass.) and separated on a 1% agarose gel in Tris-borate-EDTA
or Tris-acetic acid-EDTA buffer (
37). The DNA was
transferred
to 0.45-µm-pore Nytran membrane (Schleicher and Schuell,
Keene,
N.H.) by capillary transfer as described in Sambrook et al.
(
37).
DNA was cross-linked to the membrane by UV
cross-linking in a
Stratalinker (Stratagene, La Jolla, Calif.). The DNA
blot was
processed as described by Sambrook et al. (
37) and
probed with
the
BamHI SP fragment of HSV-1 (F strain)
(
34), which was labeled
by the random primer method
(
14).
Generation of resistant virus.
To generate HSV-1 isolates
resistant to the compounds, HSV-1 virus was repeatedly passaged in Vero
cells at a low MOI (0.01) in the presence of increasing concentrations
of compounds. At each passage, the culture was frozen when 90 to 100%
cytopathic effect (CPE) was observed. The cell suspension was thawed
and transferred to a 15-ml tube, sonicated for 1 min, and centrifuged at 1,000 rpm in a GPKR centrifuge (Beckman) to remove cell debris. Virus in the supernatant was counted and used in the next round of
infection. Two isolates of HSV-1 resistant to WAY-150138 were generated. One, 138R/5, was grown by serial passage from
0.5 to 1 to 5 µg of compound per ml (one round each), followed by one
round of plaque purification. The second, 138R/30, was
grown at a high (30 µg/ml) concentration of WAY-150138. It took 10 days for full CPE to develop. This virus was plaque purified four
times. Virus resistant to CL-253824 was generated in the presence of
increasing concentrations of CL-253824 (2.5 to 5 µg/ml, one round
each) followed by three rounds at 10 µg/ml, resulting in virus
253R. This virus was plaque purified four times.
Marker transfer.
To isolate infectious viral DNA, Vero cells
grown in T175 flasks were infected in DMEM-2% CS with wild-type or
resistant HSV-1 isolates at an MOI of 1. Cells were grown at 34°C
until maximum CPE was reached (2 days). Cells were collected by shaking
the flasks, pouring the cells into 50-ml tubes, and spinning at 2,000 rpm for 10 min. The medium was removed, and the cells were resuspended in 5 ml of TE per pellet. After pooling two pellets, SDS was added to
0.45% and pronase to 1 mg/ml, and the lysates were incubated at 37°C
overnight. After the addition of saturated NaI in TE (15.5 ml) and 11 µl of 10-mg/ml ethidium bromide, 70Ti centrifuge tubes were filled.
Tubes were spun at 45,000 rpm in a 70Ti rotor (Beckman) for 65 h.
The lower band containing the viral DNA was recovered by aspiration
with a syringe through the tube wall, extracted with TE-saturated
butanol, and dialyzed against 100 mM NaCl in TE.
Marker transfer experiments were conducted using the calcium phosphate
precipitation method (
37). Approximately 1 µg of
infectious DNA was precipitated with
EcoRI-digested plasmid
DNA
(10- to 50-fold molar excess) and salmon sperm DNA (Sigma; total
DNA, 10 µg per dish). The precipitate was placed onto a 60-mm
dish
containing 10
6 Vero cells. Cells were incubated for 5 h at 37°C, and the medium
was removed and replaced with 15% glycerol
in buffered saline.
Cells were incubated for 2 min, and the medium was
replaced with
DMEM-2% CS and incubated overnight. The next day, cells
were put
under selection with 30 µg of either WAY-150138 or CL-253824
per
ml. Plaques were allowed to develop for 2
days.
For subcloning of DNA fragments, DNA from wild-type and resistant
viruses was isolated as described by Mohr and Gluzman (
23)
and digested with
EcoRI or
BglII. All
EcoRI fragments and the
10.5-kb
BglII K fragment
were subcloned into the
EcoRI and
BamHI
sites,
respectively, of pT7-1 (US Biochemical, Cleveland, Ohio).
The
BglII-
ScaI fragments from the plasmids containing
each of
the resistant UL6 genes were subcloned into pBluescript II
SK
+ digested with
BamHI and
EcoRV to
create pBSwt, pBSR (from 253
R), pBS5 (from
138
R/5), and pBS30 (from 138
R/30).
The entire
BglII-
ScaI fragments from
253
R and wild-type virus and the entire UL6 gene from
138
R/5 and 138
R/30 were
sequenced.
To show that the mutations found in the UL6 gene were responsible for
the resistant phenotype, the
AscI-
AscI fragment
in pBSwt
was replaced with the same
AscI fragment from
132
R/5. Also, the
XhoI-
HindIII
fragment from pBSwt was replaced with
the same fragment from pBS30, and
the
Age1-
Age1 fragment was replaced
with the same
fragment from pBSR. All subcloning of the mutations
was confirmed by
sequencing.
Electron microscopy.
Vero cells grown in T175 flasks were
infected with wt HSV-1 or 253R virus at an MOI of 2 in the
absence or presence of CL-253824 (30 µg/ml) and grown for 24 h.
Cells were harvested by scraping, washed twice, and fixed sequentially
with 3% glutaraldehyde and 0.8% OsO4, both in 0.1 M
sodium cacodylate (pH 7.5). During subsequent dehydration in graded
ethanol and propylene oxide, the cells were stained with 50% saturated
uranyl acetate in 50% ethanol. They were embedded in Poly/Bed
812/Araldite 502 (Polysciences, Inc. Warrington, Pa.). Thin sections
were stained with Reynolds' lead citrate (30) and examined
in a JEOL 100CX electron microscope using an accelerating voltage of 60 kV.
 |
RESULTS |
During an automated screen of a proprietary chemical
library for molecules with antiherpesvirus activity, a compound,
CL-253824, with modest activity against HSV-1 was discovered (Fig.
1). The 50% inhibitory concentration
(IC50) against HSV-1 (Patton) in an ELISA assay was 3 µg/ml (7.9 µM) (Table 1). Antiviral
activity was slightly less against another HSV-1 strain (E377;
IC50, 9.3 µg/ml) and HSV-2 strains 12 and 186 (IC50, 11 and 27 µg/ml, respectively). CL-253824 had even
less inhibitory activity against HCMV, VZV, and other nonherpesviruses
tested (influenza virus, respiratory syncytial virus, and parainfluenza
virus type 3; data not shown). In an effort to increase the antiviral
activity, a 2-fluoro-benzamido analogue (WAY-150138; Fig. 1) was
synthesized, which had a more than 10-fold increased potency
(IC50 of 0.2 µg/ml [0.43 µM]) against HSV-1 Patton
(Table 1). Activity against HSV-2 and HCMV was not improved as
dramatically as against HSV-1 (two- to sixfold), but no increase in
activity was seen against VZV.
Effect of time of inhibitor addition on virus yield.
To
investigate the mode of action of this new class of thiourea HSV-1
inhibitors, an experiment was performed in which the compounds were
added at different times after infection. Vero cells were infected with
HSV-1, and CL-253824 or WAY-150138 was added at 2-h intervals from 0 to
10 h.p.i. Virus was harvested from all plates at 24 h.p.i.
and counted (Table 2). When added at 0 or
2 h.p.i., CL-253824 reduced the viral yield by almost 37-fold and
WAY-150138 by over 750-fold; when the compound was added at 4 h.p.i., virus yield was still significantly inhibited. In contrast,
these compounds had no effect on virus yield when added at 6 h.p.i. or later. Viral DNA synthesis in HSV-1-infected cells starts
around 3 h after infection (32) (see also Fig. 2). If a compound added after viral
replication has started still has an inhibitory effect, it must affect
a process later in the viral life cycle. Thus, these results suggested
that the compounds did not inhibit DNA replication, but likely affect a
later step in the viral life cycle, such as late protein synthesis, DNA
processing, or capsid maturation. To further confirm the lack of DNA
replication inhibition, viral DNA isolated at various times
postinfection from mock-treated and CL-253824-treated infected cells
was analyzed by slot blot hybridization. Viral DNA from 104
cells was loaded on a slot blot with a titration of purified HSV DNA
and probed with a radiolabeled HSV-1 EcoRI-A fragment. Quantitation of the resulting autoradiograph by densitometry showed the
presence of 10 ng of DNA in CL-253824-treated cells versus 13 ng in
untreated cells at 14 h.p.i. At 18 h.p.i. the amount of viral
DNA in treated versus untreated cells was 20 versus 18 ng (data not
shown). The effects of the compounds on protein synthesis were
examined, but no differences with untreated infected cells were
detected (data not shown).

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FIG. 2.
Time course of DNA cleavage. (A) Representation of the
HSV-1 genome, indicating the positions of internal joint
BamHI-K and the terminal BamHI-P and -S
fragments. (B) Time course of DNA synthesis and cleavage in infected,
untreated cells. Vero cells were infected at an MOI of 5 with HSV-1 and
harvested at 0, 2, 4, 6, 8, 10, or 24 h.p.i. (lanes 1 to 7). Viral
DNA was extracted, digested with BamHI, separated on a 1%
agarose gel, and analyzed by Southern blotting using the
BamHI-K fragment, which spans the cleavage joint, as a
probe. The positions of BamHI fragments K (joint) and S and
P (termini) are indicated. The image has been chosen intentionally dark
to show the presence of cleavage products at 6 h.p.i. (C) Effect
of WAY-150138 on DNA cleavage. Vero cells were infected at an MOI of 5 with HSV-1. WAY-150138 (10 µg/ml) was added at 0 to 10 h.p.i.
(lanes 1 to 6). Lane 7 had no compound added. Viral DNA was harvested
at 24 h.p.i. Viral DNA was extracted, digested with
BamHI, and analyzed by Southern blotting using the
BamHI K fragment as a probe. The image has been chosen
intentionally dark to show the presence of cleavage products at 4 h.p.i.
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Inhibition of viral DNA cleavage.
One of the processes in the
viral life cycle which starts between 4 and 6 h.p.i. is capsid
maturation (32). During capsid maturation, the newly
replicated viral DNA is cleaved into unit length and packaged into
capsids (15, 32). To analyze the kinetics of viral DNA
cleavage, Vero cells were infected with HSV-1, and viral DNA was
harvested at various times after infection. The DNA was then analyzed
by Southern blot for assessment of total DNA synthesis and cleavage.
To facilitate cleavage analysis, DNA was digested with
BamHI
restriction enzyme prior to gel electrophoresis. The HSV-1 genome
contains inverted repeats bordering each of two unique DNA components
(L and S). After cleavage, each unit-length genome has internal
repeats
at the junction of the L and S components (i.e., the joint)
and two
terminal repeats (i.e., the molecular ends of each genome)
(Fig.
2A).
The DNA blot was probed with the
BamHI K fragment,
which
spans the joint and is partly repeated in each of the terminal
BamHI fragments S and P. Viral DNA synthesis was initially
detected
after 4 h.p.i., and terminal fragments were observed at
6 h.p.i.
(Fig.
2B). Thus, the time of initial DNA cleavage is
similar to
the time when the compounds fail to inhibit virus (Table
2).
To confirm this, Vero cells were infected with HSV-1, and WAY-150138
was added at 2-h intervals and maintained for 24 h, at
which time
DNA was harvested and analyzed by DNA blot (Fig.
2C).
When the compound
was added prior to 4 h.p.i., substantial amounts
of viral DNA were
detected, but no free termini were observed,
indicating that the
progeny DNA had not been cleaved. When compound
addition was delayed to
6 h.p.i., DNA cleavage was detected, indicating
that the process
that the compound inhibited had presumably already
commenced. Viral DNA
replication was not affected even when WAY-150138
was present from the
start of infection (0 h.p.i.), as indicated
by the presence of
uncleaved (i.e., joint)
DNA.
Effect of inhibitors on capsid morphology.
The cleavage of
viral DNA and the packaging of the DNA into capsids are closely linked.
The lack of viral DNA cleavage is usually accompanied by the
accumulation of immature (empty) B-type capsids in the nucleus of
infected cells and a decrease in the number of mature, DNA-containing C
capsids (1, 15). We examined the morphology of the HSV-1
capsids in infected cells treated with CL-253824 by electron
microscopy. Representative electron micrographs of the cells show that
while both immature B capsids and mature C capsids could be found in
untreated cells (Fig. 3A), no mature C
capsids were found in any of the compound-treated cells that we
examined (Fig. 3B). The large cluster of capsids in the nucleus shown
in Fig. 3B, a common feature of HSV-1 infection (32), was
also observed in untreated HSV-1-infected Vero cells. HSV-1 can produce
up to 100 infectious progeny virus particles per cell (45).
With a yield reduction of up to 750-fold (Fig. 2), it was not
surprising that we could not detect any C capsids in treated cells.

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FIG. 3.
Electron micrographs of virus-infected cells. Vero cells
were infected with wild-type (A and B) or 253R (C and D)
HSV-1. One hour after infection, the medium was replaced with medium
without (A and C) or with 30 µg of CL-253824 (B and D) per ml and
processed for electron microscopy as described in Materials and
Methods. Solid arrows, B capsids; open arrows, C capsids; N, nucleus.
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Selection of resistant virus.
To unravel the mechanism of
action of the compounds at the molecular level, HSV-1 was serially
passaged in Vero cells in the presence of inhibitor, resulting in the
generation of compound-resistant mutants. Three independent mutants
were purified: one resistant to CL-253824 (253R) and two
resistant to WAY-150138 (138R/5 and 138R/30).
All isolates grew with wild-type kinetics (Fig.
4). All isolates were resistant to high
(10 times the IC50) concentrations of inhibitor and
cross-resistant to the other compound (data not shown).

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FIG. 4.
Growth analysis of wild-type and resistant viruses. Vero
cells were infected with wild-type ( ) or resistant HSV-1 Patton
isolates 253R ( ), 138R/5 ( ), and
138R/30 ( ) at an MOI of 0.05 to 0.1 and harvested at
various times between 0 and 24 h.p.i. Virus yields were determined
by plaque assays and plotted.
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Characterization of resistant virus.
Initial characterization
of the resistant viruses consisted of analysis of the capsid morphology
by electron microscopy and DNA cleavage analysis by DNA blot. When Vero
cells were infected with HSV-1 253R in either the absence
or presence of CL-253824, examination by electron microscopy revealed
no differences. Mature C capsids were detected in both the absence
(Fig. 3C) and presence (Fig. 3D) of compound. The morphology of the
capsids was indistinguishable from that of capsids found in untreated
wild-type virus (Fig. 3A).
The extent of DNA cleavage in Vero cells infected with 253
R
in the presence of CL-253824 (Fig.
5a) or
WAY-150138 (Fig.
5b)
was also analyzed. In the presence or absence of
compounds, DNA
termini were detected in cells infected with resistant
viruses
(lanes 3 and 4). In contrast, in cells infected with wild-type
HSV-1 DNA, termini were not detected in the presence of compound
(lanes
2).

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FIG. 5.
Analysis of DNA cleavage in resistant virus-infected
cells. (a) Vero cells were infected at an MOI of 3 with wild-type (wt,
lanes 1 and 2) or 253R virus (lanes 3 and 4) in the absence
(lanes 1 and 3) or presence (lanes 2 and 4) of CL-253824 (75 µg/ml)
for 14 h. (b) Vero cells were infected at an MOI of 5 with
wild-type (wt, lanes 1 and 2) or 138R/5 virus with
WAY-150138 (10 µg/ml) (lanes 3 and 4) and cultured for 24 h.
Viral DNA was harvested, digested with BamHI, separated on a
1% agarose gel, and analyzed by Southern blotting using the
BamHI K fragment, which spans the cleavage joint (see Fig.
2A), as a probe. The positions of BamHI fragments K (joint)
and S and P (termini) are indicated.
|
|
Identification of the resistance gene.
To date, at least seven
HSV gene products have been implicated in participating in the
encapsidation process. These include UL's 6, 15, 17, 25, 28, 32, and
33. To determine which HSV gene carried the mutation that conferred
resistance to our inhibitors, marker transfer experiments were
performed. To facilitate this, EcoRI restriction fragments
of the resistant viruses were subcloned and individually cotransfected
into Vero cells with infectious wild-type DNA. After the cells were
allowed to recover for 24 h, either CL-253824 or WAY-150138
selection was applied. In all cases, only the EcoRI-D
fragment conferred resistance (i.e., allowed viral growth), whereas no
virus growth was observed with any other fragment (Table
3). The EcoRI-D fragment was
further subcloned, and the marker transfer procedure was repeated. The
smallest fragment tested that conferred resistance to the compounds was
the 4-kb BglII-ScaI subfragment (see Fig.
6) (Table 3). The
BglII-ScaI fragment contains the entire UL6, UL7,
and UL8 open reading frames (ORFs) and the 3' end of the UL5 gene. UL5
and UL8 are part of the helicase-primase complex which is involved in
DNA replication (11, 42). HSV-1 UL7 has an unknown function,
but its homologue in bovine herpes virus has been shown to be a
nonessential cytoplasmic protein (38). UL6 was the most
interesting candidate, since its involvement in the encapsidation
process has been documented (20, 24, 25). At this point, the
4-kb BglII-ScaI fragments were sequenced in their
entirety, revealing that each resistant isolate contained one point
mutation in the UL6 gene (Table 4). The
mutation in HSV-1 138R/30 resulted in a change of glutamic
acid 121 into aspartic acid, a conservative amino acid change since
both are negatively charged. The other two viruses had mutations at the
C terminus; in 253R, alanine 618 was mutated to a valine,
and in 138R/5, glutamine 621 was changed to an arginine.
The mutation in 138R/5 resulted in the most drastic change,
from an uncharged glutamine to a positively charged arginine.
View this table:
[in this window]
[in a new window]
|
TABLE 3.
Marker rescue efficiencies of restriction fragments
derived from resistant viruses in the presence of
the compoundsa
|
|

View larger version (17K):
[in this window]
[in a new window]
|
FIG. 6.
Marker transfer strategy. 1. Schematic representation of
the HSV-1 genome. 2. Location of the EcoRI-D fragment in the
HSV-1 genome. The locations of restriction sites used for finer mapping
are indicated (Bg, BglII; BH, BamHI; E,
EcoRI; S, ScaI). 3. Designation of the
EcoRI-D subfragments used for marker transfer. 4. Locations
of ORFs on the BglII-ScaI fragment. Restriction
sites used for subcloning of the minimal fragment conferring resistance
are indicated (A, AscI; G, AgeI; H,
HindIII; X, XhoI).
|
|
The ultimate proof that each of these mutations conferred resistance to
the compounds was shown by subcloning a minimal fragment
containing the
mutation into the wild-type
BglII-
ScaI fragment.
The 210-bp
XhoI-
HindIII fragment of the
138
R/30
BglII-
ScaI fragment, the
231-bp
AscI fragment of 138
R/5, and the 953-bp
AgeI fragment of 253
R were separately subcloned
into a plasmid containing the wild-type
BglII-
ScaI fragment, and the resulting plasmids
were cotransfected
with wild-type HSV-1 DNA. Each of these fragments
enabled the
viruses to grow in the presence of compound (Table
3),
whereas
the wild-type
BglII-
ScaI fragment did
not. Therefore, three independent
point mutations in the UL6 gene were
each sufficient to confer
the compound-resistant
phenotype.
 |
DISCUSSION |
We have presented here two members of a novel class of compounds
that are potent inhibitors of HSV-1. These compounds inhibit HSV-1 by
interfering with the virus encapsidation process. These inhibitors
therefore block HSV replication through an entirely novel mechanism
compared to the nucleoside drugs currently used in the clinic to treat
HSV infections.
The encapsidation of HSV DNA occurs when preformed viral capsids
receive progeny DNA. The replicated viral DNA exists as polygenomic concatamers in the infected cell nucleus. During the process of encapsidation, these concatamers are cleaved in such a way that a DNA
molecule of one unit length is packaged into a preformed, immature
capsid. When this process goes awry, concatameric, uncleaved viral DNA
and immature, empty capsids accumulate. The timing of the events during
herpesvirus encapsidation is poorly understood. More knowledge has been
acquired on the encapsidation of bacteriophage genomes due to the
powerful genetics in those systems. In the double-stranded DNA
bacteriophages such as lambda and T4, an encapsidation complex is
assembled on the concatameric DNA and the first end of the progeny
genome is generated by endonucleolytic cleavage. This protein-DNA
complex then binds to the preassembled procapsid (prohead) at the
portal vertex; DNA is subsequently packaged and cleaved again. The
encapsidation protein complex mainly consists of a heterodimeric
terminase and phage structural components such as the portal proteins
(5, 7). From genetic analysis, it is known that for HSV, at
least seven genes are involved in the encapsidation process, ULs 6, 15, 17, 25, 28, 32, and 33 (1, 2, 8, 20, 21, 25, 26, 35, 41).
All seven genes are essential for growth of the virus, and known
loss-of-function mutations in most of these genes result in a very
similar phenotype: concatameric DNA and empty capsids accumulate.
Exactly this phenotype was observed after treatment of HSV-1-infected
cells with the compounds described here. To dissect the exact mode of
action, we generated HSV-1 virus resistant to the compounds and mapped the location of the resistance-conferring mutation. Analysis of the
smallest fragments that conferred resistance to the compounds revealed
three independent point mutations in the UL6 ORF, a member of the
encapsidation gene group.
For some of the HSV-1 encapsidation gene products, additional
information is emerging that allows further dissection of the DNA-packaging process. The UL32 and UL17 proteins might have early roles in the process in that they appear to have an effect on the
localization of capsids and capsid proteins to replicative sites
(21, 40). The UL15 and UL28 gene products have a potential role in the cleavage of the progeny DNA, based on the following findings: UL15 has homology with gp17, one of the terminase genes of
bacteriophage T4 (12), and is the best candidate to date to
perform this function for HSV, perhaps in conjunction with the UL28
protein. The involvement of UL28 in DNA cleavage is suggested by the
data published by Bogner et al. (6), implicating the HCMV
homologue of UL28, HCMV UL56, in DNA-binding and nuclease activity. In
addition, there are data which suggest that UL15 and UL28 interact:
some forms of UL15 protein products fail to localize to B capsids when
the UL28 protein is not expressed (36, 48). This could be
explained by recent results from Koslowski et al. (18) that
indicate that UL28 can mediate the nuclear import of the UL15 protein.
Only one of the encapsidation genes does not seem to play a role in DNA
cleavage. HSV-1 defective in UL25 is able to cleave DNA, but the DNA
fails to be packaged (22). Also, in cells infected with this
UL25-defective virus, there is an increase in empty or A-type capsids,
which has been interpreted to indicate that the UL25 protein plays a
role in stabilizing the DNA-filled capsids (22). This
indicates that the UL25 protein has a role late in the encapsidation
process. Apart from being essential for DNA packaging, very little was known about the UL33 protein (2). Just recently, Reynolds et al. (29) reported that the UL33 protein is a 19,000-Da
protein that localizes to the cytoplasm and replication compartments in the nucleus, but could not be detected in purified virions or capsids.
The UL6 protein is associated with B and C capsids and is a component
of the mature virion (24, 48), and like the UL28 protein,
UL6 influences the cellular localization of UL15 proteins (36,
48). By uncovering a new class of encapsidation inhibitors, we
may have found a way to analyze the role of the UL6 protein in this
process. Three independent point mutations, two close to each other
near the C terminus and one close to the N terminus of UL6, each
causing an amino acid change in the UL6 ORF (Table 4), can each render
HSV-1 resistant to the inhibitors. Two of the mutations are
conservative (E121D and A618V) and cause only a change in the size of
the amino acid side chain, but one mutation (Q621R) is more drastic,
acquiring a charged and bulkier side chain. Each of these mutations
conferred the same level of resistance to high concentrations of
compound. Limits to compound solubility did not allow us to test
whether a combination of these mutations into the same UL6 gene
increased the level of resistance. We have also not tested the effect
of a combination of these mutations on the ability of the UL6 gene to
support viral growth. One can speculate that the two areas of UL6 that
carry mutations come together in the three-dimensional structure of the
protein to form interaction surfaces with the compounds. Determination
of the significance of these mutations will have to wait until more information about the UL6 protein becomes available.
Another class of Herpesviridae inhibitors has recently been
reported which have a mechanism of action similar to that of the compounds described herein. Certain benzimidazole ribosides inhibit HCMV effectively through interfering with the encapsidation process (19, 44). These inhibitors also cause the accumulation
of immature capsids and uncleaved DNA in the infected cells, but maximal resistance to these inhibitors maps to two different
encapsidation genes, UL89 and UL56, homologues of the HSV-1 genes UL15
and UL28, respectively (19). One of these benzamidazole
ribosides, BDCRB (43), indeed inhibited HCMV in our assays
(IC50, 1.6 µM), but not HSV-1 or -2 (data not shown). Our
inhibitors appear to be most potent against HSV-1 and less so against
HSV-2 and HCMV.
The level of similarity between HSV-1 UL6 (strain Patton) and its HCMV
homologue UL104 (strain AD169) is 21% (data not shown). This might
indicate that the actual function of these proteins is conserved but
that the points of contact of the proteins with the compounds are
probably not. However, the level of similarity between the UL6 gene
products from HSV-1 and HSV-2 is 84.5%, yet there is a 10-fold
difference in sensitivity to WAY-150138. The amino acids which are
mutated in the resistant HSV-1 isolates (Table 4) are conserved in
HSV-2 UL6 (by comparison to strain HG52, GenBank accession number
Z86099; data not shown). It is possible that the HSV-2 strains that we
tested have amino acid substitutions at those positions. Alternatively,
the compounds may have a larger interaction interface with UL6 outside
the mutated residues, which includes amino acids not conserved between
HSV-1 and -2. More detailed knowledge of the molecular interaction
between the compounds and the UL6 protein is necessary to understand
the decreased potency against HSV-2 and HCMV.
Protein-protein interactions are likely to be crucial for the formation
of an encapsidation complex. These interactions can influence the
encapsidation process at various levels: (i) the correct subcellular
localization of the protein components; (ii) assembly of the
encapsidation protein complex; (iii) interaction of the proteins with
DNA; (iv) interaction of the encapsidation proteins with the capsid
proteins; and (v) stabilization of the DNA-capsid complex. Each of
these steps is a viable target for the action of novel inhibitors. Our
compounds have demonstrated that DNA packaging is a novel, viable
target for chemotherapy of HSV. Further studies are required to
determine how the thiourea inhibitors affect UL6 in the encapsidation process.
 |
ACKNOWLEDGMENTS |
We thank J. Upeslacis, R. Visalli, T. Mansour, and J. O'Connell
for editing the manuscript and helpful discussions. We thank A. Abramovitz and C. Cerini for viruses and reagents and Megan Thorn for
help with the automated assays. Thanks to L. Townsend and J. Drach
(University of Michigan, Ann Arbor) for the gift of BDCRB.
 |
FOOTNOTES |
*
Corresponding author. Mailing address: Department of
Molecular Biology/Virology, Wyeth-Ayerst Research, N. Middletown Road, Pearl River, NY 10965. Phone: (845) 732-5000. Fax: (845) 732-2480. E-mail: vanzeim{at}war.wyeth.com.
Present address: Progenics Pharmaceuticals, Tarrytown, NY 10591.
 |
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