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Journal of Virology, January 2005, p. 39-46, Vol. 79, No. 1
0022-538X/05/$08.00+0 doi:10.1128/JVI.79.1.39-46.2005
Copyright © 2005, American Society for Microbiology. All Rights Reserved.
RIKEN Discovery Research Institute, Wako-shi,1 Graduate School of Science and Engineering, Saitama University, Shimo-Okubo, Saitama-shi, Saitama,2 RIKEN Harima Institute, Hyougo, Japan3
Received 20 May 2004/ Accepted 12 August 2004
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hr sequence elements have been identified in the genomes of many baculoviruses (see reference 20). The BmNPV genome possesses five hr elements, which are dispersed at map units (m.u.)
18 (hr2-left),
19 (hr2-right),
51 (hr3),
67.5 (hr4-left),
70 (hr4-right),
83.5 (hr5), and
96.5 (hr1) on the
128-kbp genome (23). The BmNPV hrs are characterized by a series of
75-bp DNA repeats, with each containing a 30-bp imperfect palindrome with an EcoRI site at its core (23). When viral early genes are cis-linked to the hr sequences, IE1-mediated activation of their transcription is greatly enhanced (9, 12, 25). Gel shift assays and mutational analyses have shown that IE1 binds directly to the hr sequences, which serve both as enhancers and as putative replication origins (3, 4, 8, 12, 16, 25, 28, 32, 33). It has also been reported that the palindrome in the hr sequences is essential for the direct interaction between the hr sequences and the IE1 protein (5, 7, 18, 32). While the binding of IE1 to hr sequences is clearly evident, the functional details of its binding for DNA replication and RNA transcription are still unknown.
By employing green fluorescent protein-tagged IE1 (IE1-GFP) as a reporter protein, we recently demonstrated temporal changes in BmNPV IE1 localization in living cells (13a). IE1 initially appears as small foci in the nucleus prior to the onset of DNA replication. As viral DNA synthesis proceeds (<8 to 24 h postinfection [hpi]), these IE1-associated structures gradually expand (26). At the end of the DNA replication period (24 to
36 hpi), the expanded structures containing IE1 accumulate large amounts of DNA and seem to establish the site for nucleocapsid assembly, the virogenic stroma (13a). Although IE1 shows focal distribution at early stages of viral infection, the transfection of insect cells with a DNA fragment containing the ie1 gene led to a relatively diffuse distribution of IE1 throughout the nucleoplasm rather than subnuclear localization (29; also see below). The establishment of IE1 localization during infection therefore must require a viral factor(s) other than IE1. What is the factor(s) that determines IE1 distribution? A previous report by Okano et al. showed that the number of IE1 foci in a nucleus is affected by the multiplicity of infection (MOI) (with a range of 0.4 to
10), suggesting that the viral DNA genome itself is important for establishing IE1 localization (26).
In this study, we show that the hr DNA elements of the viral genome are needed for the focal distribution of IE1 and that no viral proteins other than IE1 are required for IE1 localization. In addition, by using a mutant IE1-GFP that lacks hr-binding ability, we demonstrate that direct binding of IE1 to the hr elements is essential for the subnuclear localization of IE1. We also report that BmNPV IE1, in conjunction with BmNPV hr, forms discrete foci in non-BmNPV-susceptible cells. This result suggests that no species-specific factors are required for hr-dependent IE1 focus formation.
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Plasmid construction. A plasmid expressing GFP-tagged IE1 (pKm-IE1-GFP) was constructed as described elsewhere (13a). For the cloning of BmNPV hr3, the termination codon of the p91 coding sequence and the next 3 bp (TAAACA) in the PstI-K fragment (m.u. 48.4 to 52.3) of the BmNPV genome were replaced with an XhoI site (CTCGAG) by site-directed mutagenesis. The XhoI-NdeI subfragment of the mutagenized fragment (a 630-bp fragment of the hr3 region) was inserted into pBluescript (Stratagene). The SmaI-XhoI fragment from the resulting plasmid (pBS-hr3) was subcloned into the Eco47III and XhoI sites of pKm-IE1-GFP to create pKm-IE1-GFP-hr3, which carries both the IE1-GFP gene and hr3. Deletion mutants of hr3 were generated from pBS-hr3 by use of a Kilo-Sequence deletion kit (Takara Bio, Shiga, Japan). A plasmid containing the hr palindrome, pBS-palind, was constructed by ligating the annealed oligonucleotides 5'-TCGACGTTTTACACGTAGAATTCTACTCGTAAAGCA-3' and 5'-AGCTTGCTTTACGAGTAGAATTCTACGTGTAAAACG-3' into the XhoI and HindIII sites of pBluescript (Stratagene). For the construction of a plasmid expressing a mutant IE1-GFP that lacks hr-binding ability, the IE1-GFP gene (BglII-XbaI fragment) from pKm-IE1-GFP was inserted into the BamHI and XbaI sites of pUC19 to facilitate site-directed mutagenesis. The resulting plasmid (pUC-IE1-GFP) was mutagenized to make a plasmid (pUC-BIB-GFP) that has the sequence GGATCC (G162/S163 in IE1) instead of the sequence AAGAAA (K162/K163). The hr3 sequence (XhoI-SmaI fragment) in pBS-hr3 was inserted into the XhoI and SmaI sites of the plasmids pUC-IE1-GFP and pUC-BIB-GFP to produce pUC-IE1-GFP-hr3 and pUC-BIB-GFP-hr3, respectively. Transfections of BmN cells with pUC-IE1-GFP-hr3 showed similar efficiencies of IE1 focus formation to those with pKm-IE1-GFP-hr3 (data not shown).
Plasmid transfection and viral infection. For live-cell microscopy, all cell lines were seeded onto 27-mm-diameter glass-bottomed dishes (Matsunami, Tokyo, Japan) and allowed to stand for several hours or overnight for cell attachment. For the introduction of plasmids, the cells were transfected with 0.5 µg of each plasmid DNA sample by the use of Lipofectin reagent (Invitrogen). The transfected cells were incubated at 28°C for 24 h and analyzed directly with a confocal microscope or were infected with BmNPV at an MOI of 10. For immunocytochemistry, BmN cells were plated onto 22- by 22-mm coverslips (no. 1; Matsunami). The cells were allowed to attach for several hours and then transfected by the use of Lipofectin reagent (Invitrogen). Transfected BmN cells on coverslips were fixed for 10 min with 3.7% paraformaldehyde in phosphate-buffered saline (PBS) and then were washed three times with PBS. The fixed cells were treated with 0.1% Triton X-100 and 10% fetal bovine serum in PBS (TF-PBS) for 1 h and then incubated with a 1:100 dilution of guinea pig anti-IE1 antiserum (a gift from H. Bando, Hokkaido University) in TF-PBS for 1 h at room temperature. After four wash steps with PBS, incubation with fluorescein isothiocyanate-conjugated goat anti-guinea pig immunoglobulin G (1:200 dilution in TF-PBS; Cappel) was performed at room temperature for 1 h. The stained cells were washed four times with PBS and mounted by use of a Slow Fade light antifade kit (Molecular Probes).
Confocal microscopy.
Confocal images were obtained with a Leica TCS NT microscope. For evaluations of the numbers of IE1-GFP foci within the entire nuclei, randomly selected fields of view which contained 5 to 10 cells expressing IE1-GFP were analyzed by use of the confocal microscope system. Eight consecutive optical sections of cell nuclei for each field were collected and projected onto a single image by the use of Leica software (26). The numbers of foci were counted in the cells presenting GFP fluorescence, which formed
50% of all cells under our transfection conditions.
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600-bp DNA fragment specific to the hr3 region. As shown in Fig. 2, IE1-GFP foci within the nucleus were seen in >80% of the cells that were transfected with the plasmid carrying IE1-GFP and hr3, while
80% of the cells that were transfected with the IE1-GFP gene alone failed to form IE1-GFP foci. This result demonstrates that IE1-GFP foci can be induced by the hr element alone. On the other hand, since the BmNPV genome was sparsely examined (Fig. 1A), we could not exclude the possibility that viral factors other than hr function as inducers of focus formation for IE1. Next, to rule out the suspicion that the GFP tag had an effect on the formation of the IE1-GFP foci, we conducted an immunocytochemical experiment with an anti-IE1 antibody instead of employing the GFP fusion construct. BmN cells were cotransfected with two plasmids, one carrying the hr3 region and the other carrying the EcoRI G fragment (m.u. 90.5 to 96.4) of the BmNPV genome, which carries the ie1 gene. When stained with an anti-IE1 antibody, the transfected cells exhibited IE1 foci (Fig. 2D). Together, these results suggest that the presence of the hr DNA elements is sufficient to generate IE1 foci in ie1-expressing insect cells.
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FIG. 1. Effects of BmNPV genomic fragments on IE1-GFP distribution. (A) Diagram showing the BmNPV genomic fragments used for transfection of BmN cells. Solid bars indicate the regions of the hr sequences. (B to M) Confocal images of BmN cells. Cells were transfected with a plasmid expressing IE1-GFP (B), infected with BmNPV (D), and cotransfected with a plasmid expressing IE1-GFP and either the entire BmNPV genomic DNA (C) or the indicated fragments of the genome (E to M). The transfected and infected cells were analyzed by confocal microscopy at 24 h posttransfection and at 2 h postinfection, respectively.
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FIG. 2. Effect of hr3 on IE1-GFP distribution. BmN cells were transfected with a plasmid containing either the IE1-GFP gene alone (A) or the IE1-GFP gene and hr3 (B) and were analyzed by confocal microscopy at 24 h posttransfection. (C) Proportion of transfected cells containing IE1-GFP foci, with the number of foci per nucleus being estimated for a total of 119 cells without hr (open columns) and 108 cells with hr (closed columns). (D) Immunochemical detection of IE1 foci. Cells were transfected together with hr3 and the ie1 gene and then stained with an anti-IE1 antibody.
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FIG. 3. Effects of hr3 deletion mutants on IE1-GFP distribution. (A) Diagram showing the construction of deletion mutants. Arrows and their hatched regions indicate the direct repeat sequences of hr3 and their imperfect palindrome, respectively. (B to H) BmN cells were cotransfected with a plasmid expressing IE1-GFP and the indicated deletion construct and were analyzed at 24 h posttransfection.
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IE1-GFP with a mutation in the hr-binding domain results in a loss of hr-dependent IE1 focus formation. As described above, we have shown that hr is required for the formation of IE1 foci. Several lines of evidence have already demonstrated the direct binding of IE1 to hr (4, 7, 16, 18, 32). Consequently, we next examined whether direct binding of IE1 to the hr elements is necessary for IE1 focus formation. To this end, we used an hr-binding-domain mutant of IE1-GFP in which two basic residues (K162/K163) that are essential for hr binding were replaced with noncharged residues (G162/S163) (Fig. 4A). This type of mutation in IE1 results in defective hr binding and a loss of hr-dependent transcriptional enhancement but has no effect on IE1 oligomerization or nuclear localization (27). In the absence of hr elements, BmN cells transfected with a plasmid containing a gene for a mutant IE1-GFP exhibited GFP fluorescence that was evenly distributed throughout the nucleoplasm, similar to unmodified IE1-GFP (Fig. 4B and D). As expected, this mutation had no effect on nuclear localization. In the presence of hr elements (i.e., transfected with a single plasmid carrying both the mutated IE1-GFP gene and hr3), while the unmodified IE1-GFP localized to small foci, the mutated IE1-GFP failed to form nuclear foci (Fig. 4C and D). This result, therefore, indicates that the hr-binding ability of IE1 is essential for the induction of IE1 focus formation.
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FIG. 4. Intracellular distribution of mutant IE1-GFP lacking hr-binding ability. (A) Diagram showing the mutagenized site of IE1-GFP. (B and C) BmN cells were transfected with a plasmid containing either the mutant IE1-GFP gene alone (hr) or the mutant IE1-GFP gene and hr3 (+hr) and were analyzed by confocal microscopy at 24 h posttransfection. (D) Proportion of transfected cells containing mutant IE1-GFP foci, with the number of foci per nucleus being estimated for a total of 110 cells without hr (open columns) and 121 cells with hr (closed columns). (E to G) Cells were transfected with a plasmid expressing mutant IE1-GFP and then infected with BmNPV. At the indicated times postinfection, the infected cells were analyzed by confocal microscopy.
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B. mori cell-specific factors are not required for hr-dependent focus formation of BmNPV IE1. BmNPV replicates in B. mori (BmN) cells, but not in Trichoplusia ni (High Five) cells or Spodoptera frugiperda (Sf21) cells (14). To examine if BmNPV IE1 focus formation is also species specific, we used these non-BmNPV-permissive cells for transfections with BmNPV genes. In High Five cells and Sf21 cells that were transfected with the IE1-GFP gene in the absence of hr elements, diffuse distributions of nuclear GFP fluorescence were observed, revealing that the BmNPV ie1 gene promoter and its protein nuclear localization signal function in both cell lines (Fig. 5A, C, and G). When High Five cells and Sf21 cells were transfected with the BmNPV IE1-GFP gene in association with BmNPV hr, IE1-GFP foci were clearly detected in both species of the non-BmNPV-permissive cells as well as in BmN cells (Fig. 5B, D, and G). This suggests that no species-specific factors are required for hr-dependent IE1 focus formation.
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FIG. 5. IE1-GFP focus formation in different cell lines. High Five cells (A and B), Sf21 cells (C and D), and S2 cells (E and F) were transfected with a plasmid containing either the IE1-GFP gene alone (A, C, and E) or the IE1-GFP gene and hr3 (B, D, and F) and were analyzed by confocal microscopy at 24 h posttransfection. (G) Proportion of transfected cells containing IE1-GFP foci, with the number of foci per nucleus being estimated for a total of 124 (hr) and 126 (+hr) High Five cells, 104 (hr) and 104 (+hr) Sf21 cells, and 107 (hr) and 101 (+hr) S2 cells.
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IE1 foci (0.5 to 2 µm in diameter) induced by hr transfection are similar to those generated at the early stages of viral infection (
4 hpi) in size and shape (26) (Fig. 1). At present, however, we cannot definitively determine the identities of these two types of IE1 foci, i.e., we cannot provide direct evidence to prove that in infected cells the initial step in the formation of IE1 foci and IE1-associated structures (virogenic stroma) that subsequently develop is the assembly of IE1-hr complexes on parental viral genomes. In the baculovirus infection cycle, after the entrance of parental genomes into the nucleus, immediate-early genes on the genomes are transcribed more rapidly than other genes (6). After the translation of its mRNA in the cytoplasm, the immediate-early protein IE1 is transported into the nucleus. Some of the IE1 molecules in the nucleus must encounter and interact with hrs on the parental genomes to activate IE1-dependent genes prior to viral DNA replication (6). These IE1-hr complexes can induce IE1 focus formation, as they do in hr-transfected cells. Therefore, it is most likely that the IE1 foci that appear early during infection develop from IE1-hr complexes assembling on parental genomes. Moreover, Okano et al. previously demonstrated that the average number of IE1 foci per infected cell nucleus is well correlated with the MOI (with a range of 0.4 to 10), suggesting that the number of viral genomes that enter the nucleus exerts a critical influence on the number of IE1 foci (26). This observation also supports the parental genome-dependent mechanism of IE1 focus formation. We thus propose that the IE1 foci that appear during the early stages of infection are generated from IE1-hr complexes assembling on parental viral genomes. This mechanism of hr-dependent IE1 focus formation may serve to exclude the formation of prereplication compartments lacking viral genomes, as the IE1 foci later develop into sites for viral DNA replication (26).
Several studies of IE1 function have reported by the use of plasmid transfection assays that IE1 can dramatically augment the expression of genes that are cis-linked to hr elements (9, 12, 25). In similar assays, IE1 has also been shown to be essential for the replication of hr-containing plasmid DNAs (1, 15, 21). In these plasmid transfection assays, in which insect cells were cotransfected with plasmids containing both the ie1 gene and hr elements, hr-containing plasmids should have induced IE1 focus formation. Hence, the formation of IE1 foci in these assays may have significant effects on IE1-mediated transactivation or DNA replication. It is possible that IE1 and hr contribute to IE1 focus formation in plasmid transfection assays such that the IE1 foci serve as nuclear compartments that promote DNA replication or RNA transcription.
This study sheds light on the initial step of IE1 focus formation. At the early stages of infection, the IE1-hr complex associated with the parental genome appears to induce the formation of IE1 foci in which DNA replication and the transcription of early genes occurs. IE1 foci therefore appear to be functionally important for baculovirus replication, although their structural details are not clear. Our finding that only two viral factors, IE1 and hr, are sufficient for IE1 focus formation should serve to facilitate future work to explore the molecular architecture of IE1 foci, and possibly the virogenic stroma. The structural information gleaned from further studies should help us to more precisely define the functions of these nuclear structures.
This research was supported by the Bioarchitect Research Program and the Chemical Biology Research Program of RIKEN.
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