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Journal of Virology, June 2005, p. 7641-7647, Vol. 79, No. 12
0022-538X/05/$08.00+0 doi:10.1128/JVI.79.12.7641-7647.2005
Copyright © 2005, American Society for Microbiology. All Rights Reserved.
CR-UK Institute for Cancer Studies, Department of Pathology, University of Birmingham, B15 2TT, Birmingham, United Kingdom,1 German Cancer Research Center, Department of Virus-Associated Tumours, Im Neuenheimer Feld 242, 69120 Heidelberg, Germany2
Received 2 October 2004/ Accepted 14 February 2005
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The essential cis elements that lead to herpesviral encapsidation have been identified (2). These include the terminal repeats (TRs) located at both ends of the linear genome that are involved in the excision of individual viral genomes from the concatemers formed during viral lytic replication as well as in their packaging. Detailed analysis has shown that packaging is actually mediated by the pac1 and pac2 motifs present within the TRs of herpesvirus genomes (3, 15). In addition, packaging of the Epstein-Barr virus (EBV) genome requires the presence of the 9-bp and 11-bp cassettes adjacent to the pac1 and pac2 sequences (22).
Little is known about the mechanism of cleavage and circularization of EBV DNA during infection. The terminase subunits pUL56 and pUL89 of human cytomegalovirus play an important role in concatemer excision and packaging of the viral genome (1, 19). Two EBV homologues of these proteins (BALF3 and BdRF1) have been identified on the basis of DNA and protein sequence homology, but there is no experimental evidence that these proteins possess terminase activity (21). Earlier work done on Epstein-Barr virus in fact suggests that the production of single linear viral DNA might result from homologous recombination rather than from cleavage by a terminase (22). The cellular protein Sp1 has been identified in a protein complex that binds to the TRs and could be involved in circularization of the linear EBV genome after infection (20).
We have previously reported the construction of an EBV mutant strain in which the terminal repeats had been exchanged against the kanamycin antibiotic resistance cassette (5). A 293 cell line carrying this TR-negative (TR) virus (293/TR) efficiently encapsidates EBV reporter plasmids and can therefore be used as a packaging cell line. Upon induction of the lytic cycle, we found that the TR-negative virus could not be encapsidated. We now report that induction of the lytic cycle in 293/TR cells leads to the production of a large amount of empty viral particles. In addition, we have recently shown that recombinant viruses constructed from the B95.8 genome such as our TR-negative mutant contain abnormally low amounts of the viral gp110 protein (encoded by the EBV BALF4 gene) (16). We have therefore reanalyzed the infectious potential of the helper virus under conditions that lead to the incorporation of large amounts of gp110 in the viral envelope and show that rare infectious viruses carrying the TR-negative DNA can be isolated.
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Recombinant DNA plasmids and cell lines. Plasmid 2089 is a plasmid comprising the EBV wild-type genome, the F-factor origin of replication, the gene for hygromycin resistance in eukaryotic cells, and the gene for green fluorescent protein (GFP) (4). The EBV wild-type TRs were replaced by the kanamycin resistance gene by homologous recombination to generate the TR mutant as described previously (5). The 293 cells stably carrying the 2089 or TR EBV genome are designated 293/2089 and 293/TR, respectively.
Plasmid rescue in E. coli.
Circular DNA molecules were extracted from 293/TR-inf cells (see below) using a denaturation-renaturation method as described previously (9). Escherichia coli strain DH10B was transformed with the extracted viral recombinant DNA by electroporation (1,000 V, 25 µF, 100
), and cells were plated onto agar plates containing chloramphenicol (15 µg/ml) for selection.
Virus induction and infection of target cells. For induction of the EBV lytic phase, 293/2089 and 293/TR cells were transfected in six-well cluster plates with expression plasmids encoding the BZLF1 and BALF4 gene products (0.5 µg each/well) using lipid micelles (Lipofectamine; Invitrogen). In some experiments, transfection of the BALF4 gene was omitted. Three days after transfection, virus supernatants were harvested, filtered through a 0.8-µm filter, and kept frozen at 80°C. One million target cells were infected using 1 ml of TR or 2089 supernatant. For selection of stably infected 293-E1 cell clones, cells were transferred to a 150-mm tissue culture dish 24 h after infection, and hygromycin was added to the culture medium (100 µg/ml). Four weeks later, outgrowing single clones were expanded and named 293/TR-inf (for 293-E1 cells infected with TR mutant virus).
Electron microscopy. Lytically induced 293/2089 or 293/TR cells were washed three times in phosphate-buffered saline (PBS) and fixed with 2.5% glutaraldehyde in the same buffer for 20 min at 4°C. Samples were postfixed in 2% osmium tetroxide in cacodylate buffer for 1 h at 4°C, stained with uranyl acetate (0.5%) for 16 h at 25°C, washed twice in distilled water, dehydrated in ethanol, and embedded in Epon 812. Thin sections were examined by using a Zeiss electron microscope.
Gardella gel electrophoresis and Southern blot analysis. Preparation of genomic DNA and Southern blot analysis were performed as described previously (4). Gardella gel electrophoresis followed by Southern blotting was used to detect viral DNA bound to target cells or in virus supernatants (6). In this experiment, 0.5 million BJAB cells previously incubated with infectious supernatants (0.5 ml supernatant; 3 h on ice) or ultracentrifuged virus from lytically induced cells (1 ml of supernatant; 22,000 rpm, 3 h at 4°C) were lysed directly in gel slots by adding sodium dodecyl sulfate (5% final concentration). Following electrophoresis, the gel was blotted onto a Hybond N+ membrane and hybridized with a radioactively 32P-labeled plasmid encompassing EBV-specific sequences (as indicated).
EBV binding assay, blocking experiments, and DNase I digestion. B cells (0.5 million) were incubated with 0.5 ml of 2089 or TR virus supernatant for 3 h on ice. Cells were washed three times in PBS and fixed on glass slides for 20 min using pure acetone for immunostaining. Slides were incubated for 30 min with a purified mouse monoclonal antibody directed against EBV glycoprotein gp350/220 (ATCC 72A1 hybridoma; dilution of 1:2,500 in PBS) or gp110 (dilution of 1:1,000, MAB 8184; Chemicon), washed three times in PBS, and incubated for 30 min with a secondary goat-anti-mouse antibody conjugated with the Cy-3 fluorochrome (dilution of 1:300; Dianova). After several washes in PBS, slides were embedded with 90% glycerol and immunofluorescence evaluated by using an inverted fluorescence microscope (Nikon).
To assess the specificity of EBV binding to its target cells, 500 µl viral supernatant was first incubated for 1 h at 37°C with 100 µg of purified anti-gp350/220 antibody before infection. After incubation for 3 h on ice, cells were washed three times in PBS to remove unbound virus particles, and the cells were immunostained as described above. In some experiments, infectious supernatants were pretreated with DNase I (10 units for 1 ml supernatant; Roche) for 1 h at 37°C.
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FIG. 1. Supernatants from lytically induced 293/TR cells contain empty virus particles. (A) Binding of TR virus-like particles to primary B cells. Cells were incubated for 3 hours with supernatant from induced 293/TR or 293/2089 cells, washed extensively to remove unbound virus, and immunostained with an antibody directed against gp350 and a secondary antibody coupled to the Cy3 fluorochrome. Cells were observed both under UV light and using phase contrast. With both types of supernatants, virus bound to the cells could be identified (left panel). Preincubation of the supernatants with a neutralizing gp350 antibody specifically inhibited binding (right panel). (B) Gardella gel analysis of virus bound to BJAB cells. Supernatantsfrom two different 293/TR inductions were analyzed. BJAB cells were incubated with 293/TR or 293/2089 supernatants for 3 h on ice, and cells were washed and submitted to Gardella gel electrophoresis, Southern blotting, and hybridization with the nonrepetitive EBV-specific probe BLLF1. No viral DNA bound to BJAB cells could be detected after incubation of BJAB cells with TR supernatants. Wild-type EBV (2089) bound to BJAB cells provided the appropriate positive control. B95.8 cells spontaneously replicate and contain both EBV linear and circular forms and provided a further positive control. Untreated BJAB cells were used as a negative control.
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FIG. 2. (A) Gardella gel analysis of viral supernatants. One milliliter of supernatant from induced 293/TR or 293/2089 cells was ultracentrifuged, and the pellet was loaded onto a Gardella gel. No viral DNA could be detected in the TR virus pellet. The 2089 virus pellet gave rise to a strong signal, as expected. (B) Electron micrographs of induced 293/TR and 293/2089 cells. Cells were harvested at day 3 postinduction and fixed, and thin sections were prepared. Numerous A capsids (arrowheads) and B capsids (black short arrows) are visible within the nuclei of induced 293/TR cells. In contrast, induced 293/2089 cells contain mainly mature virions with packaged EBV genomes (black long arrows).
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(ii) Supernatants from induced 293/TR cells contain rare infectious units carrying the TR mutant genome. In a further set of experiments, we wished to evaluate the ability of viral structures present in TR supernatants to infect target cells. We knew from previous experiments that induction of the lytic cycle in 293/TR cells was not associated with encapsidation of the TR genome (5). However, these experiments were not performed with induced 293/TR cells cotransfected with BZLF1 and a BALF4 expression plasmid. We now know that the viral strain B95.8 and all its derivates, such as the 2089 recombinant wild-type genome from which the TR mutant is derived, express abnormally low levels of the BALF4 gene product gp110 (16). We therefore repeated these experiments with TR viruses containing high amounts of gp110. We incubated 293 cells that stably carry an EBNA1 expression plasmid, termed here 293-E1 (courtesy of B. Sugden, McArdle Institute, Madison, Wis.), with 293/TR supernatants overnight. Quite unexpectedly, incubation of 293-E1 cells with supernatants from 293/TR cells cotransfected with a BZLF1 and BALF4 expression plasmid led to the infection of rare cells as attested by GFP fluorescence (Fig. 3A). Incubation of 293-E1 cells with 293/2089 wild-type supernatants resulted in 29% of the cells being infected, whereas only 0.001% GFP-positive cells were obtained after incubation with 293/TR supernatants (Table 1).
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FIG. 3. TR supernatants contain rare TR genomes packaged in infectious particles. (A) Infection of 293-E1 cells. One million 293-E1 cells were infected with 1 ml of 293/2089 or 293/TR supernatants. Target cells were incubated with untreated supernatants or with supernatants pretreated with DNase I or with a neutralizing antibody directed against gp350. Similar numbers of GFP-positive cells were observed with or without pretreatment with DNase I of 293/TR and 293/2089 supernatants. This shows that DNase treatment had no influence on the infectious process and excludes that 293/E1 cells acquired the TR genome through direct transfer of naked DNA. In addition, pretreatment of both types of supernatants with a gp350-specific neutralizing antibody markedly reduced the number of GFP-positive cells. We therefore conclude that 293/TR supernatants contain rare infectious particles that express gp350 at their surface. (B) Infection of Raji cells. One million Raji cells were infected with 1 ml of either 293/2089 or 293/TR supernatants. Infected cells express GFP and can be detected upon exposure to UV light. Rare GFP-positive cells are visible after infection with 293/TR supernatants.
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TABLE 1. Rare infectious particles among TR viruses expressing high amounts of gp110a
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To demonstrate that the GFP-positive cells we detected after infection with the 293/TR supernatants actually carry TR mutant genomes, infected 293-E1 cells were submitted to hygromycin selection (the TR genome carries the hygromycin resistance gene). After 3 weeks, hygromycin-resistant cells (termed 293/TR-inf, for infected 293-E1 cells) grew out and were expanded for further characterization. A Southern blot analysis of these hygromycin-resistant cells was first performed using a probe specific for the EBV terminal repeats (Fig. 4A). This experiment confirmed that the 293/TR-inf cells carried the TR mutant genome. We used the same method to confirm that the hygromycin-resistant infected clones carry the EBNA1 expression plasmid and therefore are genuine 293-E1 cells (Fig. 4B). This excludes a potential contamination of the infected population by 293/TR cells. It was important to further show that the genome present in the 293/TR-inf population was intact. To this aim, the viral genome present in these cells was isolated and transformed into E. coli DH10B. The genome of the TR mutant carries a prokaryotic replicon and can therefore be propagated in prokaryotic hosts. Preparation of plasmid DNA from the transformed bacterial cells showed that the viral genome present in 293 cells after infection with TR supernatants was intact. Minor differences were observed only in the highly repetitive region of the NotI repeats and within the F plasmid as indicated (Fig. 4C).
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FIG. 4. 293/TR infected cells carry the mutant TR genome. (A and B) Southern blot analysis of 293/TR cells, 293/2089 cells, and 293/TR-inf cells obtained by infection of 293-E1 cells with TR supernatants. (A) BamHI-digested genomic DNA was submitted to Southern blot analysis using the EBV terminal repeat fragment as a probe. No TRs could be detected in both the 293/TR and 293/TR-inf cell lines. (B) BamHI-digested genomic DNAs were hybridized with an EBNA1-specific probe (BamHI K fragment). This experiment confirmed that the 293/TR-inf cells carry an integrated EBNA1 plasmid (stars) and do not result from a contamination with cells from the 293/TR producer cell line. (C) Restriction fragment analysis of viral plasmid DNA isolated from 293/TR-inf cells. Plasmid wild-type EBV DNA was used as a reference. The overall structure of the TR genome present in 293/TR-inf cells is preserved and identical to that of wild-type recombinant EBV genome except for three restriction fragments that differ between both plasmids. The BamHI 10.7-kb fragment carrying the TRs in wild-type EBV has been exchanged for an 8.7-kb fragment in the mutant virus. In addition, the number of BamHI W and NotI repeats appears to differ between both viruses with wild-type EBV carrying a lower number of NotI repeats but a higher number of BamHI W repeats. Finally, a 700-bp deletion within the F plasmid that explains the shift from an 11.2-kb BamHI fragment to a 10.5-kb BamHI fragment could be identified. (D) Analysis of the BamHI W repeats in 293/TR cells, 293/2089 cells, and 293/TR-inf cells using Southern blot analysis. Genomic DNA was cleaved with SpeI and PmeI, and the blot was hybridized with the BamHI W fragment as a probe. This assay shows that 293/TR-inf cells contain a virus with a lower number of BamHI W repeats than the helper virus present in 293/TR cells. These results confirm the data obtained by restriction analysis of the EBV wild-type and TR mutant genomes.
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The other conclusion from these observations is that synthesis and egress of virions are independent of the presence of TRs on the viral genome. Empty or defective particles are commonly observed in human strains of cytomegalovirus, where a high level of lytic replication is paralleled by the presence of empty viral particles (10). In this case, however, empty viral particles are mixed with fully infectious particles, whereas in contrast, induction of lytic replication in 293/TR cells leads to the largely predominant production of empty viral particles. Selective elimination of the rare particles containing viral genomes should therefore provide a pure population of empty viral particles with B-cell tropism. Empty viral particles have been preferentially used for vaccination against several viruses such as hepatitis B and papillomavirus (8, 13). Further work to investigate the immunogenicity and safety of these empty particles as a potential multipeptidic EBV vaccine is therefore warranted.
The results of this work should be considered for the use of EBV-derived vectors for gene replacement purposes. The 293/TR cell line can be used as a helper cell line to encapsidate EBV-derived vectors. To avoid potential harmful consequences of infection with a transforming virus, one of the properties expected from such a cell line is that the helper virus does not get encapsidated. In this regard, therefore, and even if the number of infectious TR-negative viruses is very low, security concerns are legitimate. Removing all immortalizing EBV sequences from the helper virus would overcome the potentially harmful effects of infection. The EBV immortalizing genes are not required for lytic replication, and an EBV genome in which the latent genes have been deleted should keep its ability to package EBV reporter genes.
Our results contradict previous observations from our group in which encapsidated TR genomes could not be detected. These discrepancies can be explained by the use of recombinant EBV containing variable amounts of gp110. Recombinant B95.8 viruses contain abnormally low amounts of gp110, and it is therefore necessary to artificially increase gp110 incorporation to reach levels found in common laboratory strains such as Akata or M-ABA (16). The much higher infectious potential of viruses containing high amounts of gp110 is likely to explain our observation of rare infectious TR genomes. The production of empty viral particles, in contrast, does not seem to be influenced by the amount of gp110 present in the mature virion.
We thank B. Hub for expert technical assistance with the electron microscope.
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