Herpes simplex virus UL56 interacts with and regulates the Nedd4-family ubiquitin ligase Itch
Herpes simplex virus type 2 (HSV-2) is one of many viruses that exploits and modifies the cellular ubiquitin system. HSV-2 expresses the tegument protein UL56 that has been implicated in cytoplasmic transport and/or release of virions, and is a putative regulatory protein of Nedd4 ubiquitin ligase. In order to elucidate the biological function of UL56, this study examined the interaction of UL56 with the Nedd4-family ubiquitin ligase Itch and its role in the regulation of Itch. Additionally, we assessed the similarity between UL56 and regulatory proteins of Itch and Nedd4, Nedd4-family-interactins proteins (Ndfip).
UL56 interacted with Itch, independent of additional viral proteins, and mediated more striking degradation of Itch, compared to Nedd4. Moreover, it was suggested that the lysosome pathway as well as the proteasome pathway was involved in the degradation of Itch. Other HSV-2 proteins with PY motifs, such as VP5 and VP16, did not mediate the degradation of endogenous Itch. Ndfip1 and Ndfip2 were similar in subcellular distribution patterns to UL56 and colocalized with UL56 in co-transfected cells.
We believe that this is the first report demonstrating the interaction of a HSV-specific protein and Itch. Thus, UL56 could function as a regulatory protein of Itch. The mechanism, function and significance of regulating Itch in HSV-2 infection remain unclear and warrant further investigation.
KeywordsHerpes Simplex Virus Vero Cell HaCaT Cell Herpes Simplex Virus Infection Tegument Protein
Viruses act as intracellular parasites, depending heavily on functions provided by their host cells, and have evolved diverse strategies to exploit the biology and biochemistry of hosts for their benefit . The ubiquitin system is one of the mechanisms exploited by many viruses; it is involved in viral assembly and release, viral transcriptional regulation, viral immune invasion, and the suppression of apoptosis [2, 3]. The ubiquitin system is a key regulatory mechanism for a diversity of cellular processes including protein turnover, protein sorting and trafficking, signal transduction, and cell-cycle control . Ubiquitination is executed by a hierarchical cascade of enzymes . E3 ubiquitin ligases act as major specificity determinants of the ubiquitin system by facilitating the transfer of ubiquitin to lysine residues of the target proteins. The human genome encodes more than 600 putative E3 ligases , which generate the diversity in the ubiquitin system. E3 ligases are classified into two main groups: really interesting novel genes (RING) and homologous to E6AP carboxyl terminus (HECT) proteins. The neuronal precursor cell-expressed developmentally down-regulated 4 (Nedd4) family, comprised of nine members, is one of the main HECT E3 protein families.
Viruses encode their own E3 ligases, de-ubiquitinating enzymes (DUBs) and adaptor/regulatory proteins to modify the host's ubiquitin system [2, 3]. Herpes simplex virus (HSV) is a large, enveloped, double-stranded-DNA virus, which can cause various mild and life-threatening diseases, including herpes labialis, genital herpes, keratitis, encephalitis, and neonatal herpes . HSV encodes a ubiquitin ligase (ICP0) [8, 9] and a DUB (UL36) . In addition, we identified that the HSV type 2 (HSV-2) tegument protein UL56 is a putative regulatory protein of Nedd4 E3 ligase , specifically involved in protein stability and subcellular localization. UL56 induces phosphorylation of Nedd4 and promotes the proteasome-mediated degradation by increasing ubiquitination of Nedd4, however UL56 itself is not ubiquitinated . UL56 relocates Nedd4 primarily to the trans-Golgi network (TGN) and partially to endosomes .
Approximately half of the 74 genes encoded by HSV are accessory genes that are not essential for viral replication in cell-culture system [7, 13, 14]. UL56 gene is an accessory gene encoded by most members of the Alphaherpesvirinae family (References are listed in ). Interestingly, UL56-deficient HSV-1 is substantially less neuroinvasive in vivo [15, 16], although little is known about the molecular mechanisms of the attenuation. Previously, we have shown that UL56 deficiency reduces the titer of extracellular HSV-2 . These data suggest that UL56 facilitates the cytoplasmic transport of virions from the TGN to the plasma membrane and/or the release of virions. In addition, we found that UL56 interacts with two other proteins: KIF1A , the neuron-specific kinesin; and HSV-2 UL11 , a tegument protein that has dynamic membrane-trafficking properties  and plays a role in the envelopment and egress of viral nucleocapsids . These interactions also support the view that UL56 is involved in transports of vesicles and virions, however the precise roles and functions of UL56 remain elusive.
In a previous study, Itch, a Nedd4-family ligase, was identified as a UL56-interacting protein by a yeast two-hybrid screen . Itch is widely expressed in mammalian tissues, and Itch-deficient mice develop a systemic and progressive autoimmune disease that proves lethal beginning at 6 months of age . Itch is composed of 862 aa with a domain architecture similar to other Nedd4-family ligases: an amino-terminal C2 domain; four protein-protein interacting WW domains, which most commonly recognize PY motifs of binding proteins; and a carboxyl terminal catalytic HECT domain (Fig. 1A). Itch targets numerous proteins and has been implicated in signal transduction, endocytosis, differentiation, and transcription [23, 24].
The catalytic activities of Nedd4-family ligases are in part regulated by some PY-motif containing membrane proteins such as Nedd4-family-interacting protein-1 (Ndfip1), -2 (Ndfip2), and Nedd4-binding partner 1 (N4BP1) , although the mechanisms regulating the catalytic activity of Nedd4-family ligases have not been clearly defined. Ndfip proteins function as regulatory proteins of multiple Nedd4-family ligases, including Itch and Nedd4, by recruiting ligases to substrates and controlling ligase activity .
In this study, to elucidate the biological function of UL56 we studied the kinetics of Itch expression in HSV-2-infected cells, and also assessed the similarity between UL56 and Ndfip proteins.
Cells and viruses
Vero cells (African green monkey kidney cells) and HEp2 cells (human laryngeal carcinoma cell line) were obtained and maintained as previously described . HaCaT cells (human keratinocyte cell line)  were kindly provided by Dr. Norbert E Fusenig (German Cancer Research Center, Heidelberg, Germany). HaCaT cells were maintained in Dulbecco's modified Eagle's medium supplemented with 10% fetal calf serum, 100 U/ml penicillin and 100 μg/ml streptomycin. Cell lines constitutively expressing GFP-UL56 (Vero-GFP-UL56) or GFP (Vero-GFP) were constructed as previously described . Briefly, Vero cells were transfected with pEGFP-UL56 or pEGFP-N3 (Clontech, Mountain View, CA) and selected with G418 (SIGMA, St. Louis, MO). The expression of GFP-UL56 or GFP was verified with Western blot analysis and Immunofluorescence confocal microscopy. Vero-GFP-UL56 and Vero-GFP were maintained in Eagle's minimum essential medium (MEM) supplemented with 8% calf serum (CS), 100 U/ml penicillin, 100 μg/ml streptomycin, and 350 μg/ml G418. The wild-type HSV-2 strain (186) was used as the prototype strain in this study. The generation of the UL56-deletion mutant virus (ΔUL56Z) , the UL56-reverted virus based on ΔUL56Z (ΔUL56Zrev) , and the US3-deletion mutant virus (L1BR1)  was previously described in detail. The HSV-1 wild type strain F, the US3-deletion mutant (R7041), the UL13-deletion mutant (R7356), and the γ134.5-deletion mutant (R3616) viruses were generously provided by Dr. Bernard Roizman. HSV-1 mutant HF10 , lacking the functional expression of UL43, UL49.5, UL55 and UL56, and latency-associated transcripts  was also used. Viruses were propagated and the titers of viral stocks were determined as previously described .
Antibodies and reagents
The following antibodies were used: polyclonal anti-WWP2 (Abcam, Cambridge, UK), anti-Nedd4 (Millipore, Billerica, MA), anti-GFP (MBL, Nagoya, Japan) and anti-c-Myc (Santa Cruz Biotechnology, Santa Cruz, CA); monoclonal anti-VP5 (Abcam), anti-Itch (BD Transduction Laboratories, Franklin Lakes, NJ), anti-β-actin, anti-α-tubulin (SIGMA), and anti-c-Myc (Santa Cruz Biotechnology); horseradish peroxidase-conjugated goat anti-rabbit and anti-mouse IgG (Invitrogen), and Alexa Fluor 488-conjugated goat anti-rabbit and 594-conjugated goat anti-mouse IgG (Invitrogen). Protein G affinity-purified normal mouse IgG was purchased from Millipore. Polyclonal anti-UL56  and anti-VP16  antisera were described previously. Reagents were purchased from the following suppliers: cycloheximide (CHX) and chloroquine (CQ), SIGMA; MG132, BIOMOL International (Plymouth Meeting, PA).
Itch (GenBank: NM_031483), Ndfip1 (GenBank: NM_030571) and Ndfip2 (GenBank: NM_019080) cDNA were obtained from HEp-2 cells and cloned into plasmids to generate pcDNA-Itch, pMyc-Itch, pNdfip1-EGFP, and pNdfip2-EGFP. Total RNA was extracted using ISOGEN (NIPPON GENE, Tokyo, Japan), and then first-strand cDNA was synthesized by polymerase chain reaction with reverse transcription (RT-PCR) using Transcriptor First Strand cDNA synthesis Kit (Roche Applied Science, Mannheim, Germany) in accordance with the manufacturer's instructions. Fragments of Itch, Ndfip1 or Ndfip2 cDNAs were amplified by PCR with KOD FX (TOYOBO, Osaka, Japan) and cloned into pcDNA3.1(+) (Invitrogen), pCMV-Myc, or pEGFP-N3 (Clontech). To generate pMyc-ICP0, HSV-2 ICP0 cDNA (GenBank: NC_001798) was reverse transcribed and amplified from total RNA from 186-infected Vero cells (multiplicity of infection (MOI) 3 PFU/ml, 6 h post-infection) using the same procedures described above, and then cloned into pCMV-Myc. To generate pcDNA-VP5, the HSV-2 VP5 ORF (GenBank: NC_001798) was amplified from HSV DNA which was extracted from 186-infected Vero cells using QIAamp DNA Blood Mini Kit (QIAgen, Hilden, Germany), and cloned into pcDNA-3.1(+). pcDNA-UL56  and pcDNA-UL48 (pcDNA-VP16)  were generated as described previously. The UL56 ORF was amplified by PCR from pcDNA-UL56 and cloned into pEGFP-N3 to generate pEGFP-UL56.
Transfection and infection
Cells plated in 35-mm dishes were transfected or infected as previously described . Briefly, cells were transfected with 1 μg of each plasmid using Lipofectamine 2000 (Invitrogen), and in some experiments, further infected with HSV-2 at 48 h post-transfection. Infections were routinely performed at an MOI of 3 PFU/cell (except where otherwise indicated).
Cell lysates were extracted and analyzed as previously described .
In assays on infected cells, Vero cells were pre-cultured with CQ (100 μM) for 12 h, then infected with 186 and harvested at 9 h post-infection. In assays on Vero-GFP-UL56 or Vero-GFP, cells were cultured with CQ (100 μM) for 24 h and harvested. Harvested cells were lysed and clarified by centrifugation . The lysates were incubated for 1 h at 4°C with the Protein G Dynabeads (Invitrogen) which were pre-incubated with anti-Itch antibody or normal mouse IgG according to the manufacturer's instructions. After washing with lysis buffer (10 mM Tris-HCl, pH 7.4, 150 mM NaCl, 1% Nonident P-40, 1 mM EDTA, 10 mM NaF, Protease Inhibitor Cocktail [SIGMA]), the immunoprecipitated proteins were eluted in 2x SDS sample buffer and subjected to Western blot analysis.
Immunofluorescence confocal microscopy
Indirect immunofluorescence confocal microscopy was performed as previously described . In brief, cells grown on cover slips were fixed in 4% paraformaldehyde for 15 min, permeabilized with 0.1% Triton X-100 for 5 min, and incubated for 1 h at room temperature sequentially with 20% normal goat serum (DAKO, Glostrup, Denmark), primary and secondary antibodies. Confocal images were captured using the Zeiss LSM510 system (Carl Zeiss, Oberkochen, Germany).
siRNAs for human Itch (ON-TARGETplus SMARTpool L-007196-00, siItch), and a non-targeting control pool of siRNA (ON-TARGETplus Non-targeting Pool D-001810-10, siCont) were obtained from Dharmacon (Lafayette, CO). Vero cells were transfected using Lipofectamine RNAiMAX (Invitrogen) according to the manufacturer's instructions. At 48 h post-transfection, cells were used for further experiments.
Viral replication kinetics assay
Single-step and multi-step growth experiments were performed using Vero cells as previously described . Cells were treated with siRNA for 48 h, and subsequently infected with the indicated viruses at an MOI of 3 (single-step) or 0.003 (multiple-step) PFU/cell.
HSV infection causes a marked decrease of Itch in the presence of UL56
Initially, we investigated the kinetics of Itch expression after HSV infection. Itch was markedly decreased in Vero cells infected with wild-type and various mutant HSV that expressed UL56, but not UL56-deficient mutants (HSV-1, HF10; HSV-2, ΔUL56Z) at 24 h post-infection (Fig. 1B). Itch showed no decrease in cells infected with HF10, and remained at detectable level in cells infected with ΔUL56Z. Nedd4 was detected in two forms with different electrophoretic mobilities and had decreased levels in cells infected with HSV-2 viruses except ΔUL56Z, as previously reported . In contrast, WWP2, another Nedd4-family ubiquitin ligase, which has been also identified as a UL56-interacting protein by a yeast two-hybrid screen , showed no remarkable change after viral infection. In time-course experiments, Itch decreased markedly as the infection with wild-type (186) or UL56-reverted (ΔUL56Zrev) viruses in multiple cell lines: Vero, HEp-2 and HaCaT cells (Fig. 1C). In ΔUL56Z-infected cells, Itch was maintained at almost constant levels for up to 12 h post-infection whereas slightly decreased at 24 h post-infection (Fig. 1C, D). Thus, HSV infection causes a decrease of Itch, and HSV-1 and -2 UL56 have a prominent role in the process. In addition, the small decrease of Itch in cells infected with ΔUL56Z suggests the presence of additional viral factors responsible for the decrease of Itch in the course of HSV-2 infection.
UL56 causes the decrease of intrinsic Itch in the absence of other viral proteins
We further explored other possible HSV-2 proteins involved in the decrease of Itch. HSV-1 and -2 genomes encode four proteins with PY motif(s): VP5, a major capsid protein, with one motif; VP16, a tegument protein which activates the transcription of immediately early gene, with one motif; ICP0, a promiscuous transactivator, with one motif ; and UL56, a tegument protein with three motifs. None of the three viral proteins with one PY motif (VP5, VP16, ICP0) decreased endogenous Itch (data for VP5 is shown in Fig 2B), whereas VP5 and VP16 caused the decrease of overexpressed Itch in co-expressing cells (Fig. 2C). These results indicated that VP5 and VP16 modulate the protein level of overexpressed Itch in the absence of other viral proteins.
On the other hand, overexpression of Itch did not affect the level of VP5, VP16, or ICP0 in co-expressing cells (Fig. 2D). In infection experiments, both VP5 and VP16 were detected at the same level in cells infected with 186 and those infected with ΔUL56Z despite the substantially different level of Itch expression (Fig. 1D). These results suggest that VP5 and VP16 induce the decrease of overexpressed Itch although Itch has no apparent effect on VP5, VP16, or ICP0 levels.
UL56 promotes lysosome- and proteasome-mediated degradation of Itch
HSV-2 UL56 interacts with Itch and changes the subcellular localization of Itch
Confocal immunofluorescence analysis revealed the colocalization of UL56 and Itch in HSV-2-infected cells and transiently UL56-expressing cells. Myc-tagged Itch (Myc-Itch) was mainly distributed throughout the cytoplasm with partial vesicular distribution in uninfected cells (Fig. 4C, top left panel). The Myc-Itch showed reduced signal intensity and altered subcellular distribution after 6 hpi, concomitant with UL56 detection (Fig. 4C, middle and bottom panels). Myc-Itch accumulated in the perinuclear region with punctate distribution and colocalized with UL56 at 6 hpi and 9 hpi. These results support the view that Itch interacts with UL56, and decreases during HSV-2 infection. Co-expression with UL56 also reduced signal intensity and altered the distribution of Myc-Itch (Fig. 4D); Myc-Itch showed the clear vesicular distribution and colocalized with UL56. These results highlight that UL56 interacts directly with Itch and causes Itch to decrease even without other viral proteins.
siRNA knockdown of Itch has no apparent effect on the growth of either wild-type or UL56-deficient HSV-2
HSV-2 UL56 colocalizes with Ndfip proteins
This study demonstrates that HSV-2 UL56 interacts with the Nedd4-family ubiquitin ligase Itch, and moreover, targets Itch for degradation primarily via the lysosome pathway and partially via the ubiquitin-proteasome pathway in the course of HSV-2 infection. UL56 interacted with Itch and induced the degradation of Itch independent of any other viral proteins. To the best of our knowledge, this is the first report demonstrating that an HSV protein interacts with Itch. In addition, UL56 and Ndfip proteins, regulatory proteins of Nedd4 and Itch, showed similar subcellular distribution and colocalized.
Itch differed from Nedd4, another UL56-interacting E3 ligase, in the following aspects: Itch decreased in both HSV-1-infected cells and HSV-2-infected cells, whereas Nedd4 decreased only in HSV-2-infected cells; endogenous Itch was degraded much more efficiently than Nedd4 in UL56-expressing cells; Itch was degraded primarily by the lysosome pathway whereas Nedd4 was degraded by the proteasome pathway ; and Itch was co-immunoprecipitated with a major tegument protein VP16 whereas Nedd4 was not . UL56 caused more striking changes in Itch than in Nedd4 as a whole. The distinct effects of UL56 on Itch and Nedd4 support the view that each of Nedd4-family ligases is regulated in the specific way in spite of sharing many common properties . HSV-1 UL56 (234 aa) and HSV-2 UL56 (235 aa) share three PY motifs and one C-terminal transmembrane domain, and exhibit 62.6% identity on the amino acid level. UL56 itself and/or other viral proteins could account for the different effect of HSV-1 and HSV-2 on Nedd4 and Itch.
To our knowledge, UL56 is the first example of a protein which induces Itch to degrade except Itch itself. Itch is regulated by multiple mechanisms: phosphorylation mediated by Jun amino-terminal kinase  and Fyn ; conformational change and relocation induced by adaptor/regulatory proteins (Ndfip-1  and -2 , and N4BP1 ); and modulation of the level of Itch ubiquitination mediated by Itch itself , FAM/USP9X , and Akt1 . Little has been done to clarify how Itch degradation is controlled because of its high stability, and moreover, the limited results obtained so far are controversial. One report showed that autoubiquitinated Itch is degraded by the proteasome , however others showed Itch is very stable even in polyubiquitinated state, and the level of ubiquitination has no discernible impact on Itch stability [40, 41]. UL56 originally induced Itch to degrade via primarily the lysosome and partially the proteasome pathways. From the view point of the degradation of ubiquitinated proteins, this result concurs with the report which showed ubiquitinated proteins can undergo lysosomal degradation . In addition, a proteasome inhibitor blocked the degradation at 12 hpi but not at 24 hpi, whereas a lysosome inhibitor blocked both at 12 and 24 hpi. These data suggest that the degradation pathway could change during the course of HSV-2 infection.
Of the three viral proteins with PY motif(s) other than UL56, only VP16 was detected in the Itch-immunoprecipitates, albeit at a much lower level than UL56. VP16 is a tegument protein which activates viral transcription of immediate early genes after infection and plays an essential role during assembly in the late phase of infection . VP16 interacts with multiple envelope- and tegument- proteins including UL36 (VP1/2), and appears to function in linking the outer tegument/glycoprotein and capsid/inner tegument complexes [44, 45]. UL36 is a large inner tegument protein with the deubiquitinating activity , and required for the addition of VP16 to the viral capsid . It is noteworthy that VP16 associates with Itch, a cellular E3 ligase, and also with UL36, a viral DUB.
We explored the possibility that additional viral proteins mediated the decrease of Itch, since there was a small decrease in cells infected with UL56-deficient HSV-2. Two of three HSV-2 proteins with one PY motif other than UL56, VP5 and VP16 caused the decrease of overexpressed Itch in co-expressing cells. In contrast, ICP0, a viral component with promiscuous transactivity and ubiquitin ligase activity, did not influence Itch expression. These results indicate that only specific viral proteins with PY motifs are capable of inducing Itch degradation. In addition, transient expressions of VP5 and VP16 caused no decrease of endogenous Itch, whereas stable expression of UL56 caused the striking decrease of endogenous Itch. These results support the notion that UL56 plays a prime role, and VP5 and VP16 can play secondary roles in the decrease of Itch during HSV-2 infection. The reason why UL56-deficient HSV-1 did not cause the decrease of Itch remains unknown.
The experiments with inhibitors provided insights into the mechanism of UL56 degradation. Treatment with a lysosome inhibitor caused the increase of UL56 in cells stably expressing UL56. This result suggests that UL56 is also degraded via the lysosome pathway in UL56-expressing cells. Interestingly, treatment with a proteasome inhibitor also caused the increase of UL56, although the effect was minimal, suggesting that the proteasome pathway is also involved in UL56 degradation. Given that UL56 is lysine-free and not ubiquitinated , some additional factors may be involved in the degradation of UL56. In this study, we used only one lysosome-inhibitor and one-proteasome-inhibitor, and did not analyze ubiquitinated substrates or free ubiquitin. Further investigation is needed concerning the turnover of UL56.
We also investigated whether Itch can change the protein levels of VP5, VP16, and ICP0 because they contain a PY motif and also lysine residues, which are targets of ubiquitination. Contrary to expectations, overexpression of Itch did not affect the level of VP5, VP16, or ICP0, and knockdown of Itch did not change the expression patterns of VP5 and VP16 during the course of infection. Thus, the levels of these three viral proteins do not appear to be regulated by Itch.
siRNA knockdown of Itch has no apparent effect on the growth of either wild-type or UL56-deficient HSV-2 in Vero cells. Itch is reported to be involved in viral replication and pathogenicity in Epstein-Barr virus (EBV), which belongs to Gammaherpesvirinae family, and Moloney murine leukemia virus (MoMLV). Itch interacts with latent membrane protein (LMP) 2A of EBV and down-regulates LMP2A activity in B-cell signaling [47, 48], and rescues a release-deficient MoMLV independent of PY motif of the Gag protein . More investigations are needed to elucidate how the decrease of Itch is involved in the replication and pathogenicity of HSV-2.
UL56 and Ndfip proteins share some common features: small membrane proteins (Ndfip1, 221 aa; Ndfip2, 336 aa; and UL56, 234 aa); contain multiple PY motifs in the cytoplasmic domains (Ndfip1, two; Ndfip2 and UL56, three); interaction with Nedd4 and Itch via PY motifs; and relocate Nedd4 and Itch for degradation. This study revealed that UL56 and Ndfip proteins are similar in their subcellular localization. In co-expressing cells, UL56 and Ndfip proteins colocalized to the vesicles. UL56 localized primarily the TGN and early endosomes , while Ndfip proteins localized to the TGN, early endosomes, and late endosomes/multi vesicular bodies [33, 34]. The partial colocalization of UL56 and either Ndfip-1 or -2 in infected cells suggests that UL56 and Ndfip proteins behave similarly during the course of HSV infection. It is interesting that the viral protein UL56 shares so many properties with cellular regulatory proteins of Itch and Nedd4.
This study demonstrates that HSV-2 UL56 interacts with a Nedd4-family ubiquitin ligase Itch, and moreover, relocates Itch and induces Itch to degrade in the course of HSV-2 infection. UL56 caused more striking changes in Itch than in Nedd4 as a whole. In addition, UL56 shared multiple common properties with Ndfip proteins. In light of these results, we propose that UL56 functions as a regulatory protein of Itch. The mechanism, function and significance of regulating Itch in HSV-2 infection remain unclear and warrant further investigation.
We would like to thank Bernard Roizman for HSV-1 F, R7041, R7356, and R3616; and Norbert E Fusenig for HaCaT cells. We would also like to thank Akane Ohta, Yoshifumi Muto, and Seiko Iwata for technical suggestions and discussions, and Hiromi Noma for technical assistance. This study was supported by grant-in-aid for scientific research on priority areas (18073007 to YN) and grant-in-aid for Japan Society for the Promotion of Science (JSPS) fellows (20•7388 to YU) from the Ministry of Education, Culture, Sports, Science and Technology of Japan. YU was supported by Research Fellowships for Young Scientists from JSPS.
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