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Journal of Virology, July 2005, p. 8591-8601, Vol. 79, No. 13
0022-538X/05/$08.00+0 doi:10.1128/JVI.79.13.8591-8601.2005
Copyright © 2005, American Society for Microbiology. All Rights Reserved.
Department of Microbiology, Mie University School of Medicine, 2-174, Edobashi, Tsu-shi, Mie Prefecture, 514-8507 Japan,1 Department of Genetics and Microbiology, University of Geneva School of Medicine, CMU, 9 Ave. de Champel, CH-1211 Geneva, Switzerland2
Received 16 December 2004/ Accepted 8 March 2005
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Viruses of the Paramyxovirinae subfamily are presently classified within five genera (respiro-, morbilli-, rubula-, avula-, and henipaviruses). This classification is based in part on the genetic organization and expression of their P genes, named for the P protein that is an essential component of the viral RNA-dependent RNA polymerase. Paramyxovirus P genes are divided in half by an mRNA editing site, at which pseudotemplated nucleotides are inserted during mRNA synthesis. Thus, all three open reading frames (ORFs) downstream of this site are now available for translation, yielding the P, V, and W/I proteins. In contrast to the other genera, in which the unedited P gene mRNA codes for the P protein, and in which (except for avulaviruses) a C protein(s) is expressed from an overlapping ORF upstream of the editing site, the unedited rubulavirus P gene mRNA codes for the V protein and rubulaviruses do not express C proteins. Except for the essential P protein, the other P gene products are referred to accessory proteins.
The accessory V and C proteins of the Paramyxovirinae are multifunctional and are associated not only with virus pathogenesis. V and C also participate directly in virus replication, and the SV5 V protein is known to modulate the cell cycle (22). Paramyxovirus V proteins are composed of an N-terminal domain that is shared with the P and W/I proteins and a unique, highly conserved C-terminal domain (due to P gene mRNA editing) that is approximately 50% identical in amino acid sequence between all these viruses. Paramyxovirus V proteins have no cellular homologues but are readily identifiable by seven conserved cysteines at their C termini that bind two atoms of zinc (13, 34, 40). These conserved Cys residues play a critical role in specifically binding to DDB1 (1, 23). However, the binding of MuV V to STAT proteins in vitro occurs via a tryptophan-rich motif that lies just upstream of the Cys cluster, and the cysteine residues are not required for this binding (24). A selective defect in STAT2 protein synthesis has also been suggested to play a role in lowering STAT2 levels by the hPIV2 V protein (25). In this study, we have used hPIV2 V protein-expressing HeLa cells, and recombinant hPIV2s (rPIV2s) carrying V protein mutations, to examine various regions of this V protein that are essential for STAT protein degradation and the inhibition of IFN signaling, as well as its ability to promote virus replication independent of its anti-IFN activity. We find that both the Trp motif and the Cys cluster are required for both IFN-dependent and IFN-independent activities. Furthermore, two Phe residues that are important for activity, one within the Cys cluster and one in the N-terminal domain, have been identified.
SV5 antagonizes alpha and beta IFN (IFN-
/ß) in primate cells but not in mouse cells, effectively restricting SV5 host range (50). The basis for this species specificity was demonstrated to be differences between human and murine STAT2 (31). hPIV2 also shows host range restriction, and we have used our panel of rPIV2s to examine this process. We have found cell lines in which either STAT1 or STAT2 or both STAT1 and STAT2 are specifically degraded, and this specificity also appears to be related to the species of the host cell.
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Antibodies. Monoclonal antibodies (MAbs) against hPIV2 P/V protein (85A), hPIV2 V protein (53V), and hPIV2 NP protein (20A) were as described previously (26, 27). MAb against hPIV2 P/V protein 85A has cross-reactivity with SV41 P/V protein (47). Anti-STAT1 MAb was purchased from BD Transduction Laboratories (Lexington, KY). Monoclonal antibody against actin and rabbit polyclonal antibodies against STAT2 (N17 or C20) were purchased from Santa Cruz Biotechnology (Santa Cruz, CA).
Construction of expression plasmids. Various V genes and the hPIV2 NP gene, P gene, and L gene were cloned into pTM1, which contains a T7 promoter and an encephalomyocarditis virus internal ribosome entry site (B. Moss, National Institutes of Health). Expression plasmids encoding substitution mutant and chimeric mutant V proteins were prepared by PCR mutagenesis, and all constructs were confirmed by nucleic acid sequencing.
The plasmids encoding N-terminal Flag-tagged STAT1 or STAT2 (pCI-neo-Flag-STAT1 or -STAT2) (49) were provided by N. Yokosawa, Sapporo Medical University.
Immunoprecipitation analysis. A monolayer of BSR T7/5 cells in six-well plates was transfected with 2 µg of pTM1-V or mutants, 2 µg of pCI-neo-Flag-STAT-1 or -2, and 7 µl of FuGENE 6 (Roche) according to the manufacturer's instructions. After 40 h of culture, the transfectants were lysed in lysis buffer (50 mM Tris-HCl [pH 7.5], 150 mM NaCl, 0.6% NP-40, and 4 mM phenylmethylsulfonyl fluoride). The supernatants obtained by centrifugation were incubated with an anti-Flag M2 agarose affinity gel (Sigma, St. Louis, Mo.) for 6 h at room temperature. The agarose beads were washed three times with lysis buffer and then extracted with sodium dodecyl sulfate-polyacrylamide gel electrophoresis sample buffer for analysis by a Western blotting technique with anti-Flag MAb (Sigma) or anti-hPIV2 P/V MAb.
Reporter gene assay with luciferase.
Various rubulavirus V protein genes and their chimeras were cloned into the episomal Epstein-Barr virus-based expression plasmid pEBS-PL. The IFN-
/ß-responsive reporter plasmid p(9-27)4tk (39) lecter, referred to here as pISRE-(f)-luc, contains four tandem repeats of the IFN-inducible gene 9-27 IFN-stimulated response element fused to the firefly luciferase gene. pTK-(r)-luc, used as a transfection standard, contains the herpes simplex virus thymidine kinase (TK) promoter region upstream of the Renilla luciferase gene (Promega). For the luciferase assays, 2fTGH cells were transfected with 1 µg of pEBS-V, 1 µg of pISRE-(f)-luc, 0.3 µg of pTK-(r)-luc, and 7.5 µl of FuGENE 6. At 24 h posttransfection, the cells were treated with or without 1,000 IU of recombinant IFN-
2/
1 per ml. At 14 h post-IFN treatment, the cells were harvested and assayed for firefly and Renilla luciferase activity (dual-luciferase reporter assay system; Promega). Relative expression levels were calculated by dividing the firefly luciferase values by those of the Renilla luciferase.
Establishment of cell lines constitutively expressing virus-specific proteins.
A cDNA clone of the mutated hPIV2 V or chimera V gene was inserted into plasmid pcDL-SR
296 between PstI and KpnI sites. The cDNA fragment was inserted between the ClaI and SalI sites of the vector pkan2, which contains the G418 resistance gene. HeLa or L929 cells were transfected with each plasmid, and cell lines expressing virus-specific proteins were established as described previously (28). Briefly, after 2 days of transfection, the culture medium was changed to MEM containing 10% fetal calf serum, 1-mg/ml G418, and 0.1% agarose, and the cells were cultured for 3 weeks. When colonies resistant to G418 became visible, they were transferred into 24-well plates. Three independent clones that exhibited high expression levels of the V protein were analyzed.
Construction of hPIV2 full-length plasmids. pPIV2, containing the full-length cDNA (15,654 nucleotides [nt]; GenBank accession number AB176531) of the hPIV2 Toshiba strain, was constructed, and two additional restriction enzyme sites (EagI, nt 1977 at the NP/P intergenic region, and MluI, nt 3255 at the P/M intergenic region) were created as genetic tag sequences. To construct rPIV2/P-edit and various rPIV2 mutants, the EagI-SacI (nt 2673 of the full-length cDNA) fragment containing the P/V gene from pPIV2 was subcloned into plasmid pDrive (Qiagen). Mutations were introduced into the V gene by PCR. To construct rPIV2/P-edit, we introduced six nucleotide changes to disrupt the P/V gene editing site and added 2 nt to code for P protein. For maintaining the genome length as a multiple of 6 (3), we deleted 2 nt just before the MluI site at the P/M intergenic region by PCR. The mutation introduced with rPIV2/P-edit was silent with regard to the P reading frame.
Generation of rPIV2 mutants. BSR T7/5 cells in a six-well plate were transfected with each hPIV2 full-length plasmid (10 µg) together with the following expression plasmids: pTM1-NP (nucleoprotein) at 2 µg, pTM1-P (phosphoprotein) at 1 µg, and pTM1-L (RNA-dependent RNA polymerase) at 2 µg. The transfection was carried out using FuGENE 6, according to the manufacturer's instructions. After 2 days, the supernatants of the transfected cells were further amplified in Vero cells. Virus stock was propagated twice in Vero cells before sequence analysis. Total RNA from infected cells was prepared using Isogene (Nippon Gene, Toyama, Japan). The introduction of mutations was confirmed by reverse transcription-PCR followed by sequencing analysis.
Viral growth kinetics. Monolayers of Vero, HeLa, and PMK cells were infected with several viruses at a multiplicity of infection (MOI) of about 0.01 and incubated at 37°C in MEM with 2% fetal calf serum. Supernatants were harvested at appropriate intervals, and virus titers were determined by plaque assay on Vero cells. Briefly, serial 10-fold dilutions of the virus samples were prepared in serum-free medium, and 100 µl of each serial dilution was added to each well of a 12-well plate. After 1 h of adsorption, the cells were overlaid with MEM containing 2% fetal calf serum in 0.6% agarose and incubated for 6 days. The cells were stained with neutral red for examination of plaques. Since plaque formation by rPIV2/P-edit could scarcely be detected, 96-well plates containing Vero cells were infected with serial twofold dilutions of the sample, and the presence of the virus was determined by enzyme-linked immunosorbent assay using an anti-hPIV2 NP MAb at 2 days postinfection.
Infection, cell extraction, and Western blot assay. For examination of STAT degradation, cells were infected with or without rPIV2, mutant rPIV2, or SV41 at an MOI of 3, and the cell lysates were prepared for analysis at 48 or 72 h postinfection (hpi). Cytoplasmic extracts were analyzed by a Western blotting technique with appropriate antibodies as described previously (24).
Nucleotide sequence accession numbers. GenBank accession numbers for STAT1 and STAT2 of Vero and BHK cells are AB177382, AB177398, AB177396, and AB177399, respectively.
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FIG. 1. V-specific regions of paramyxovirus V proteins. The V-specific regions of six paramyxoviruses and a chimeric virus, PIV2/SeV-H178W/E182W, were aligned. The amino acids are numbered from the amino terminus of each V protein. The asterisks indicate conserved cysteines; squares indicate conserved tryptophans.
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TABLE 1. Summary of the various properties of the hPIV2 V protein mutants
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FIG. 2. V protein complex formation with STATs. (A and B) BSR T7/5 cells were transfected with either pFlag-STAT1 or pFlag-STAT2 plus pTM1 carrying one of the V genes indicated in panel A (lanes 2 to 5, panel B) or an empty pTM1 (lanes 1). Whole-cell extracts were prepared at 48 h posttransfection, and samples containing equal amounts of total protein were assayed by Western blotting for their levels of Flag-STAT1 or Flag-STAT2 (anti-Flag) and V proteins (anti-V). Other samples were first immunoprecipitated (IP) with Flag affinity gel (Sigma), and the selected materials were then assayed by Western blotting for their levels of V proteins. (C and D) The same experiment as above, except that tryptophan mutants are examined, and only the results of STAT2 complex formation are shown. The asterisks on the right indicate the immunoglobulin light chain.
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STAT binding is necessary but insufficient to interdict IFN signaling.
We next examined the abilities of the various MuV V and hPIV2 V proteins to interdict IFN-
-induced signaling to an IFN-responsive reporter gene. 2fTGH cells were transfected with a luciferase reporter construct and V protein expression plasmids and subsequently treated with IFN-
under the protocol indicated in Fig. 3. In cells transfected with a green fluorescent protein expression plasmid as an irrelevant control, firefly (f) luciferase activity was increased ca. threefold by treatment with IFN-
. Expression of the MuV V, hPIV2 V, and Sendai virus C proteins, as positive controls, all suppressed the activation of the IFN-
-responsive promoter. In contrast, all the mutant V proteins tested had lost the ability to interdict IFN signaling. These included the MuV V Cys mutants C189/193A and C214/217A and hPIV2 V Cys mutants C193/197A, C209/211/214A, and C218/221A, as well as the MuV V and hPIV2 V Trp mutants in which the first and second Trp residues are mutated to His and Glu, respectively (Fig. 3). Mutation of the sole Phe examined within the N-terminal portion of V, namely, MuV V F139S and hPIV2 V F143S, also led to the loss of the antisignaling activity. As summarized in Table 1, although Cys/Ala substitution mutants of the V protein had the ability to associate with STAT proteins, all the V mutants tested, except for W178Y, had lost anti-IFN activity.
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FIG. 3. Effects of V proteins on IFN- -stimulated gene activation. This experiment was carried out as described in Materials and Methods. Briefly, 2fTGH cells were transfected with a reporter plasmid [pISRE-(f)-luc] and a V expression vector (pEBS-V) or relevant control (see text), along with pTK-(r)-luc as an internal reference for transfection efficiency. After incubation for 24 h, the cells were treated with or without IFN- 2/ 1 (1,000 IU/ml) for 14 h and then lysed. The levels of both firefly (f) and Renilla (r) luciferase activities were determined. Data represent the mean values of the normalized firefly luciferase activities from triplicate samples. The V proteins in expression vectors used in this experiment are mumps virus (MuV) V, mutant MuV V (C189/193A, C214/217A, W184H/W188E, and F139S), hPIV2 V, and mutant hPIV2 V (W178H/W182E, C193/197A, C209/211/214A, C218/221A, and F143S) proteins. Green fluorescent protein alone and Sendai virus C protein (SeV C) were used as negative and positive controls, respectively.
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FIG. 4. STAT1 and STAT2 levels in HeLa cells constitutively expressing V proteins. Samples of cytoplasmic extracts containing equal amounts of total protein of HeLa cells constitutively expressing various V proteins (listed above each lane) or nonexpressing HeLa cells (lanes 1) were assayed by Western blotting for their levels of endogenous STAT1 and STAT2, as well as that of the various V proteins, using anti-P/V, anti-STAT1, and anti-STAT2, as indicated to the left of each panel. The asterisk on the right indicates a cross-reacting host band. These results, and those of other mutants (data not shown), are summarized in Table 1.
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All the rPIV2-expressing mutated V proteins were recovered and are listed in Table 1 and Fig. 5A. Their growth characteristics, compared to those of rPIV2 wt, were investigated under multiple-step growth conditions, using the PMK, HeLa, and Vero cells (Fig. 5B). We note that the HeLa cells used in our laboratory produce extremely low levels of IFN upon virus infection (data not shown) and in this respect are closer to Vero cells. rPIV2s were classified by their growth patterns into three groups. (i) W178Y (amino acid 178 is Y in SV5) and P199R had growth rates comparable to that of wt rPIV2 in the three cell lines. (ii) F143S and F207H had growth rates in Vero and HeLa cells similar to that of wt rPIV2, but their virus yields in PMK cells were 20-fold lower. (iii) The strongest overall effects were found with the three Cys mutants C193/197A, C209/211/214A, and C218A, as well as with W178H/W182E and F207E. In Vero and HeLa cells, their yields were 100- and 1,000-fold lower than those of wt rPIV2. In PMK cells, the virus yields of these five mutant viruses were even lower, namely, 10,000-fold. Given that the growth of these latter rPIV2s is clearly debilitated even in Vero cells that do not secrete IFN, both the Trp motif and the Cys cluster (including F207) appear to also be important for promoting virus growth in an IFN-independent manner.
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FIG. 5. Growth kinetics of rPIV2s carrying V protein mutations in tissue culture. Monolayers of Vero, HeLa, and PMK cells were infected with the various rPIV2s (A) at an MOI of ca. 0.01. Samples of the supernatants were harvested at various times postinfection, and their titers (PFU/ml) were determined by plaque formation on Vero monolayers (Materials and Methods). The symbols below the sequences indicate the positions of the mutations. (B). The three groups of virus mutants are listed (for details, see text).
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FIG. 6. Generation of a recombinant hPIV2 which completely lacks expression of V protein (rPIV2/P-edit). (A) The expressed ORFs of the wt P and V mRNAs and the P-edit P mRNA are shown as boxes. The positive-sense nucleotide sequences around the editing site of each mRNA are shown above; the two pseudotemplated G's added during P mRNA synthesis are underlined. The encoded protein sequence is shown in single-letter code. Nucleotides in lowercase letters show the six silent mutations used to inactivate the mRNA editing signal (AAGAGGGGGGG). The expected patterns of P gene expression are indicated. (B) Samples of cytoplasmic extracts of wt rPIV2 (lane 1)- and rPIV2/P-edit (lane 2)-infected Vero cells (72 hpi) were examined by Western blotting with anti-P/V MAb.
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FIG. 7. STAT2 levels of HeLa cells infected with rPIV2s. HeLa cell monolayers were infected with the various rPIV2s listed above lanes 2 to 11, at an MOI of 3, or mock infected (lane 1). Cytoplasmic extracts were prepared at 48 hpi, and samples containing equal amounts of total protein were examined by Western blotting for their levels of P and V proteins and endogenous STAT1 and STAT2. Actin levels were also examined as a loading control. The asterisk beside the STAT2 blot indicates an unknown host band that also may serve as a loading control.
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/ß signaling in mouse cells (31). We therefore examined STAT degradation during infection of various cells with our panel of rPIV2s. Infection of Vero (African green monkey kidney) cells with rPIV2s (48 hpi) showed the same pattern of STAT2 degradation as seen in HeLa cells (Fig. 8A), whereas STAT1 levels in Vero cells were not affected by any rPIV2 (Fig. 8A). Remarkably, infection of (hamster) BHK cells with the same panel of rPIV2s (48 hpi) showed precisely the same pattern of STAT degradation as in HeLa or Vero cells, except that in this case the rPIV2 infections reduced STAT1 but not STAT2 protein levels (Fig. 8B). Note that SV41, which lowers STAT1 in HeLa cells, also reduced STAT1 (but not STAT2) levels in BHK cells (Fig. 8B, lane 11). In murine L929 cells, rPIV2s (72 hpi) failed to degrade either STAT protein (Fig. 8C). The replication of hPIV2 is incomplete in murine cells (15). To examine the possibility that the absence of STAT degradation is due to lower growth of hPIV2 and less V protein expression, we analyzed the levels of STAT1 and STAT2 in two L929 cell lines constitutively expressing the hPIV2 V protein (L929-V cells). The expression of hPIV2 V protein did not result in a decrease in either the STAT1 or STAT2 level in these murine cells (Fig. 8D). In addition, infection of murine DBT cells similarly showed no reduction of STAT1 or STAT2 (data not shown). The hPIV2 V protein apparently cannot influence STAT levels in murine cells. Finally, to complete the circle of possibilities, we found that wt rPIV2 and rPIV2/V-F207H diminished both STAT1 and STAT2 levels in canine MDCK cells (72 hpi) (Fig. 8E), even though hPIV2 grew to a lower level in MDCK cells (as in L929 cells) and V protein levels were significantly lower. Thus, the V protein of hPIV2 can induce the loss of STAT1 or STAT2, or both proteins, apparently in a cell-specific manner.
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FIG. 8. STAT2 levels of Vero, BHK, L929, and MDCK cells infected with rPIV2s. Vero cell (monkey) (A), BHK cell (hamster) (B), L929 cell (murine) (C), and MDCK cell (canine) (E) monolayers were infected with the various rPIV2s listed above the lanes at an MOI of 3 or mock infected (lanes 1). Cytoplasmic extracts were prepared at 48 and 72 hpi, and samples containing equal amounts of total protein were examined by Western blotting for their levels of P and V proteins and endogenous STAT1 and STAT2. Actin levels were also examined as a loading control. Panel D shows Western blots of two independent L929 cell lines constitutively expressing hPIV2 V protein (lanes 2 and 3) and their progenitor cells (lane 1).
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These studies were motivated in part by finding that V bound to STAT1, STAT2, or STAT3 in vitro with little or no specificity via the Trp motif, whereas STAT degradation in vivo was highly specific. Our present finding that V/STAT complex formation via the Trp motif is necessary, but not sufficient, for STAT degradation helps explain this apparent discordance. It also suggests that these Trp side chains interact predominantly with surfaces of STAT1, -2, and -3 that are conserved and that the specificity of STAT degradation lies downstream, in the interaction of V and DDB1. This view is supported by the fact that V/DDB1 interactions involve not only the Trp motif but the Cys cluster and residues throughout the N-terminal domain as well. Assuming that the two V proteins are associated with each STAT dimer, the choice of which subunit of the dimer is targeted for ubiquitination presumably depends on which of the two V proteins preferentially interact with DDB1. This choice may depend not only on more subtle V/STAT interactions than can be measured in crude binding assays but also on direct contacts between the various STATs and DDB1 that are specific for each STAT protein (see below). Given that V presumably acts by connecting a STAT homo- or heterodimer to DDB1 and its associated ubiquitin-ligase and that V apparently does so via domains that are so very closely apposed, presumably only one ubiquitin-ligase complex can be bound to the V/STAT complex at any one time, for steric reasons, and this may contribute to the specificity of STAT degradation.
Parisien et al. (31) reported that STAT2 acts as a host range determinant for species-specific paramyxovirus IFN antagonism. Murine and human STAT1 proteins are 92.4% identical at the amino acid level, while murine and human STAT2 proteins are more divergent, with a modest 68.6% overall identity (35). hPIV2 infection induces STAT2 degradation in Vero (African green monkey kidney) cells, as in HeLa cells. Interestingly, hPIV2 infection induces STAT1 degradation in baby hamster kidney cells, similar to SV41 and SV5 infection in HeLa, Vero, and BHK cells. Thus, we sequenced STAT1 and STAT2 of Vero and BHK cells (GenBank accession numbers AB177382, AB177398, AB177396, and AB177399, respectively). Monkey and human STAT1 proteins are 99.3% identical, and those STAT2 proteins are 97.8% identical in sequence (unpublished data). However, hamster and human STAT1 proteins are 93.9% identical, and those STAT2 proteins are only 73.6% identical (unpublished data). The differences between human and hamster STAT2 orthologues presumably determine which STAT protein is ubiquitinylated in cells of these different species.
Recombinant morbilliviruses (39), respiroviruses (4, 16), and NDV (14, 33) that cannot express their V and W proteins have been recovered, and all these viruses grow similarly to their respective wt virus at least in some cell lines, e.g., in Vero cells. NDV, the only nonmammalian virus, was previously classified as a rubulavirus because its proteins and genomic promoters most resemble those of mammalian rubulaviruses. However, the avian paramyxoviruses have recently been reclassified in the new Avulavirus genus, in part because their P genes are organized and their P gene mRNAs are edited, unlike those of mammalian rubulaviruses but like those of morbilli- and respiroviruses. rPIV2/P-edit is thus the only fully V-minus mammalian rubulavirus that has so far been recovered, and for good reason. In strong contrast to the equivalent viruses in the other three genera, rPIV2/P-edit barely grows relative to its wt parent even in Vero cells. rPIV2/V
C, which expresses a W- or I-like protein in place of V, also grows very poorly in Vero cells (18), unlike SV5 V
C (12). The growth defect of rPIV2/P-edit thus appears to be due to the absence of an intact V protein, and in this case this defect apparently cannot be compensated for by the overexpression of a W/I-like protein as in SV5 V
C. Transient expression of the carboxyl portion of the NDV V protein enhanced the growth of NDVs in which the V or both the V and W proteins were not expressed (14). However, the growth rate of our rPIV2 mutant viruses did not improve in HeLa cells constitutively expressing the hPIV2 V protein (data not shown). Mammalian rubulavirus V proteins thus appear to act differently than NDV V and are unique among paramyxoviruses in that they are so clearly important in promoting virus growth, independent of their anti-IFN activity. The proposed role of rubulavirus V proteins in associating with unassembled NP protein, a process thought to be critical for genome replication, may be one reason for the defect in rPIV2/P-edit replication. However, rubulavirus V proteins are also unique in being incorporated into the virions, where they are associated with the N:RNA along with P and L (34, 36). The precise defect(s) in rPIV2/P-edit replication remains to be investigated.
This study was supported in part by a Grant-in-Aid for Scientific Research from the Ministry of Education, Science, Culture, Sports, and Technology of Japan.
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is not necessary for its ubiquitination and degradation caused by mumps virus V protein. J. Virol. 76:12683-12690.
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