Review

Cell Death and Differentiation (2006) 13, 393–403. doi:10.1038/sj.cdd.4401833; published online 6 January 2006

Viruses, endoplasmic reticulum stress, and interferon responses

Edited by J Yuan

B He1

1Department of Microbiology and Immunology, College of Medicine, The University of Illinois at Chicago, 835 South Wolcott Avenue, Chicago, IL 60612, USA

Correspondence: B He, Department of Microbiology and Immunology (M/C 790), College of Medicine, The University of Illinois at Chicago, 835 South Wolcott Avenue, Chicago, IL 60612, USA. Tel: +1 312 996 2391; Fax: +1 312 996 6415; E-mail: tshuo@uic.edu

Received 20 July 2005; Revised 2 November 2005; Accepted 4 November 2005; Published online 6 January 2006.

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Abstract

Viral infection induces endoplasmic reticulum (ER) stress and interferon responses. While viral double-stranded RNA intermediates trigger interferon responses, viral polypeptides synthesized during infection stimulate ER stress. Among the interferon-regulated gene products, the double-stranded RNA-dependent protein kinase (PKR) plays a key role in limiting viral replication. Thus, to establish productive infection, viruses have evolved mechanisms to overcome the deleterious effects of PKR. It has become clear that ER stress causes translational attenuation and transcriptional upregulation of genes encoding proteins that facilitate folding or degradation of proteins. Notably, prolonged ER stress triggers apoptosis. Therefore, viruses are confronted with the consequences of ER stress. Emerging evidence suggests that viruses not only interfere with the interferon system involving PKR but also manipulate the programs emanating from the ER in a complex way, which may facilitate viral replication or pathogenesis. This review highlights recent progress in these areas.

Keywords:

virus, endoplasmic reticulum, interferon, unfolded protein, apoptosis

Abbreviations:

ATF4, activating transcription factor 4; ATF6, activating transcription factor 6; BiP, the ER chaperone immunoglobulin heavy-chain-binding protein; CHOP, C/EBP homologous protein; dsDNA, double-stranded DNA; ER, endoplasmic reticulum; GADD34, growth arrest and DNA damage-inducible protein 34; IRE1, ER transmembrane protein kinase/endoribonuclease; PACT, PKR-activating protein; PERK, PKR-like ER kinase; PKR, double-stranded RNA-dependent protein kinase; ssRNA, single-stranded RNA; UPR, the unfolded protein response; XBP1, X-box-binding protein

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Introduction

Virus infection of mammalian cells consists of a series of events, which involve entry, RNA expression and processing, polypeptide synthesis and modification, genome replication, and maturation. Remarkably, as intracellular parasites, viruses rely on the utilization of cellular machinery and resource to complete their life cycle. In this complex process, viruses synthesize double-stranded RNA intermediates and produce viral proteins within host cells. Consequently, viral replication elicits cellular responses, such as endoplasmic reticulum (ER) stress and interferon responses. It is, therefore, not surprising that viruses have evolved various mechanisms to cope with these responses that limit or inhibit viral replication.

The role of interferon in antiviral defense has long been recognized. This family of cytokines is produced in response to virus infection.1 Once bound to its receptor on the cell surface, interferon activates the Janus tyrosine kinase/signal transducer and activator pathway, which induces the expression of a wide spectrum of cellular genes. Among these that are extensively characterized is the double-stranded RNA-dependent protein kinase (PKR), a key player of antiviral action of interferon.2 In mammalian cells, the interferon-induced PKR is activated by double-stranded RNA. When activated, PKR phosphorylates the alpha subunit of translation initiation factor eIF-2 (eIF2alpha). This leads to the shutoff of protein synthesis and thereby inhibition of viral replication. Moreover, PKR is involved in cell growth, differentiation, apoptosis, and possibly ER stress (Table 1).3, 4, 5


Recent evidence has suggested the importance of ER stress response in virus infection.5, 6, 7, 8 As a processing plant for folding and post-translational modification of proteins, the ER is an essential organelle for viral replication and maturation. In the course of productive infection, a large amount of viral proteins are synthesized in infected cells, where unfolded or misfolded proteins activate the ER stress response. ER stress caused by viruses has been observed to modulate various signaling pathways leading to cell survival or cell death.9, 10, 11 Obviously, differential regulation of ER stress dictates the viral pathogenesis or replication. It has been suggested that in mammalian cells the ER chaperone immunoglobulin heavy-chain binding protein (BiP), also known as glucose-regulated protein 78 (GRP78), works as a master control interacting with three mediators: PKR-like ER kinase (PERK), activating transcription factor 6 (ATF6) and the ER transmembrane protein kinase/endoribonuclease (IRE1).12, 13, 14 In response to ER stress, these components function to reduce the levels of new proteins translocated into the ER lumen, to enhance the protein-folding capacity and secretion potential of the ER, and to facilitate transport and degradation of ER-localized proteins (Figures 1 and 2).

Figure 1.
Figure 1 - Unfortunately we are unable to provide accessible alternative text for this. If you require assistance to access this image, please contact help@nature.com or the author

Modulation of UPR by viruses. Upon viral infection, unfolded proteins bind to the master control protein BiP, which thereby releases ER stress transducers, including PERK, ATF6, and IRE1. Thus, PERK undergoes dimerization, autophosphorylation, and subsequent activation. Activated PERK phosphorylates eIF2alpha, which results in attenuation of general translation and induction of GADD34 and CHOP. Release of ATF6 from BiP leads to the translocation of ATF6 to the Golgi apparatus, where ATF6 is cleaved to yield a truncated form that is capable of stimulating the expression of chaperone genes in the nucleus. Release of IRE1 from BiP permits its dimerization and activation. Activated IRE1 facilitates the splicing of XBP1 mRNA, which encodes a transcription factor leading to the expression of the UPR target genes. Viruses encode functions that inhibit one or more steps in these signaling pathways. The balance between viral stimulation and inhibition determines the pathogenesis or replication of viral infection. Arrows represent activation of components or processes in the ER stress pathway upon viral infection

Full figure and legend (16K)

Figure 2.
Figure 2 - Unfortunately we are unable to provide accessible alternative text for this. If you require assistance to access this image, please contact help@nature.com or the author

The alpha subunit of eIF2 connects ER stress and interferon responses. Viral infection produces signals that activate PKR and PERK pathways, respectively. Double-stranded RNA produced by virus triggers the production of interferon, which upregulates PKR expression. Furthermore, double-stranded RNA binds to and activates PKR, which phosphorylates eIF2alpha and inhibits shutoff of protein synthesis. Unfolded protein activates PERK, which also phosphorylates eIF2alpha. There are three cellular proteins that regulate PKR and PERK in response to different signals. PACT, a stress-activated protein, binds to and activates PKR. P58IKP, an ER stress-inducible protein, is capable of binding to PKR as well as PERK. Binding of P58IKP to the two kinases suppresses their activities. GADD34, an ER stress-inducible protein, mediates dephosphorylation of eIF2alpha by recruiting protein phosphatase 1. Examples of viruses that inhibit the interferon response mediated by PKR and ER stress response are listed. Thick lines denotes inhibition or negative regulation, whereas arrows represent positive regulation or activation

Full figure and legend (21K)

BiP is a member of heat shock proteins that binds to properly folded and misfolded proteins.15 In normal cells, BiP associates with the luminal domains of PERK, ATF6, and IRE1. Under stress conditions, BiP is sequestered to misfolded or unfolded proteins in the ER, where PERK, ATF6, and IRE1 are released. BiP release from PERK or IRE1 leads to homodimerization of each protein through its luminal domain, which induces autophosphorylation and subsequent activation.13, 16 Activation of PERK attenuates protein synthesis, whereas activation of IRE1 leads to the transcription induction of a subset of genes encoding protein degradation enzymes.17 In parallel, BiP release from ATF6 leads to the translocation of ATF6 from ER to the Golgi apparatus, where it is cleaved and activated.14 Activation of ATF6 stimulates the transcription of genes encoding chaperones that refold misfolded proteins. However, when cells are unable to recover from ER stress, apoptosis occurs.

ER stress and interferon responses reflect different adaptive cellular processes, which are triggered during virus infection. Notably, viral double-stranded RNA intermediates stimulate the interferon response, whereas unfolded or misfolded proteins impose ER stress. Thus, viruses are faced with the consequences of these cellular responses. Numerous studies demonstrate that virus infection activates PKR, which plays a pivotal role in the antiviral action of interferon.2 As expected, PKR becomes a target of many viruses. Some examples are hepatitis C virus, influenza virus, vaccinia virus, papillomavirus, herpes simplex virus, and cytomegalovirus. However, the impact of ER stress on viral infection has only been recognized recently. Several studies suggested a connection of the ER stress response with viral replication. These include members of the flavivirus family, bovine viral diarrhea virus, Japanese encephalitis virus, and hepatitis C virus.9, 10, 11 Furthermore, other viruses have been shown to regulate ER stress, such as respiratory syncytial virus, simian virus 5, Tula virus, African swine fever virus, herpes simplex virus, and cytomegalovirus.7, 8, 18, 19, 20, 21 This review will summarize recent progress on ER stress relevant to viral replication. Furthermore, it will highlight the regulation of the interferon system involving PKR in the context of ER stress upon virus infection.

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Interaction with GRP78/BiP: Virus Triggers

As a resident of ER chaperone, the expression of BiP is upregulated in response to ER stress in mammalian cells.22 Although the effect of BiP induction on virus replication is not fully understood, accumulating evidence suggests that one or more viral proteins trigger BiP expression during virus infection. This phenotype becomes apparent in cells infected with paramyxoviruses, such as simian virus 5 and respiratory syncytial virus.18, 23 In addition, infection of cells with other RNA viruses, for example, flaviviruses and hantavirus, stimulates BiP expression.10, 11, 19 Intriguingly, simian virus 5 induces the synthesis of several cellular proteins, including a 78-kDa protein, BiP.23 Besides the hemagglutinin-neuroamindase glycoprotein (HN), simian virus 5 encodes the fusion glycoprotein, a small nonglycosylated integral membrane protein, the viral membrane protein, the major nucleocapsid protein, and the nucleocapsid-associated protein L, P, and V, respectively. However, among these viral proteins, only synthesis of the HN glycoprotein stimulates BiP expression.24 In virus-infected cells, the HN glycoprotein is synthesized on membrane-bound ribosomes, inserted into the ER, and then transported via the exocytic pathway to the cell surface. It seems that production of a specific viral protein in the ER stimulates transcriptional activation of BiP.

Previous studies with hemagglutinin of influenza virus revealed that the presence of misfolded viral proteins in the ER signals the induction of BiP and GRP94.25 Influenza hemagglutinin is synthesized as a monomer that is translocated across the ER membrane and assembled into a trimer. During maturation, hemagglutinin mutants which are blocked of transport from the ER are defective in protein folding. Thus, unlike wild-type hemagglutinin, the misfolded hemagglutinin induces the synthesis of Bip and GRP94.26 Recent work by Liberman et al.27 showed that ecotopic expression of the E2 protein, but not E1, core, and NS3 proteins, from hepatitis C virus activates the promoter of GRP78/BiP. Consistent with this result, mammalian cell line stably expressing the E2 protein has an elevated level of BiP. Hepatitis C virus encodes a single polypeptide precursor, which is cleaved into the mature structural (core, E1, and E2) and nonstructural (NS2–NS5B) proteins. As glycoprotein E2 is an ER resident with its carboxyl-terminal domains anchored in the ER membrane, it is postulated that E2 protein activates transcription of BiP indirectly by influencing an intracellular signaling pathway rather than acting in the nucleus.27 Upon expression, the E1 and E2 proteins form a heterodimer. In the folding process of the E1 and E2 proteins, a large portion of these proteins are trapped in aggregates, which may trigger BiP expression.28 Interestingly, hepatitis C virus replicons expressing only nonstructural proteins are also capable of stimulating BiP expression.29 Hence, either the process of viral replication or nonstructural proteins of hepatitis C virus are capable of inducing BiP expression.

Early experiments suggested that BiP associates transiently with folding intermediates of viral glycoproteins.25, 30, 31 By binding to viral proteins, BiP performs at least two distinct functions in virus-infected cells. It is a chaperone that facilitates folding or assembly of viral proteins along the maturation process. Furthermore, it is also a sensor to detect unfolded or misfolded viral proteins. In simian virus 5-infected cells, HN specifically associates with BiP during glycoprotein folding.24, 30 Elimination of glycosylation sites in HN renders the protein incapable of folding into a native conformation. Immunoprecipitation assays suggest that BiP associates with WT HN transiently, whereas it becomes more stably associated with misfolded HN.24 Although the glycosylation mutant of HN expresses at a lower level, it induces a comparable level of BiP induction as compared to WT HN. A similar phenotype is noted with glycoprotein G of vesicular stomatitis virus, hemagglutinin of influenza virus, and glycoprotein E2 of hepatitis C virus.25, 28, 31 Collectively, these experimental data support a model in which interaction of BiP with misfolded or unfolded viral proteins triggers the ER stress response during viral infection. Clearly, additional studies are required to understand the molecular mechanisms that underlie these observations.

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The PERK Pathway: Virus Modulation

Several lines of evidence have indicated a link of viral replication to the PERK pathway.5, 7, 8, 10, 20, 21 In the early phase of ER stress, accumulation of unfolded or misfoled protein activates PERK, which then phosphorylates eIF-2alpha at serine 51. This leads to inhibition of general protein synthesis and reduces the protein load in the ER.32 However, eIF-2alpha phosphorylation also induces the expression of activating transcription factor 4 (ATF4), a transcription factor that stimulates the expression of C/EBP homologous protein (CHOP), as well as growth arrest and DNA damage-inducible protein 34 (GADD34).32 CHOP, also known as growth arrest and DNA damage-inducible protein 153 (GADD153), is a dominant-negative inhibitor of the CCAAT/enhancer-binding proteins. When expressed in mammalian cells, CHOP/GADD153 facilitates apoptosis.33 GADD34 is expressed under conditions of DNA damage, growth arrest, and differentiation.34 The biochemical function of GADD34 was initially identified by genetic analysis.35 When expressed in the context of herpes simplex virus genome, GADD34 rescued protein synthesis in virus-infected cells. Further clue as to the cellular target of GADD34 has come from the yeast-two-hybrid screen, which identified GADD34 as a regulatory subunit of protein phosphatase 1. Interestingly, the carboxyl-terminus of GADD34 recruits protein phosphatase 1, forming a high-molecular-weight complex that dephosphorylates eIF-2alpha.36, 37 In uninfected cells, GADD34 is a component of the PERK pathway that serves to relief translation repression during ER stress.38 Thus, GADD34 controls ER stress-induced translation inhibition as well as gene expression under stress conditions in the ER.

The carboxyl-terminus of GADD34 is highly homologous to the corresponding region of the italic gamma134.5 protein encoded by herpes simplex viruses. Thus, the domain shared by the two proteins may perform a common function. An interesting observation came from the analysis of ER stress in cells infected with herpes simplex virus 1.20 Herpes simplex virus-1 is a DNA virus whose gene expression is regulated in a cascade fashion. In cells infected with herpes simplex virus 1, PERK is activated, as seen by an increase in autophosphorylation of PERK over the course of virus infection. Notably, phosphorylation of PERK is dependent on the production of viral protein synthesis. As PERK possesses an ER-luminal regulatory domain and a cytoplasmic kinase domain, processing or accumulation of viral proteins in the ER presumably facilitates the oligomerization of PERK. Although herpes simplex virus 1 infection activates PERK, eIF2alpha remains in the unphosphorylated state and viral polypeptide synthesis is normal in infected cells. This suggests that herpes simplex virus 1 stimulates and then disarms the activity of PERK. Indeed, the italic gamma134.5 protein, a virulence factor encoded by herpes simplex viruses, plays a critical role in mediating eIF2alpha dephosphorylation.20, 36 The expression of the italic gamma134.5 protein alleviates the translation arrest in mammalian cells treated with dithiothreitol and thapsigargin, two compounds that induce unfolded protein response.20 Like its cellular homolog GADD34, the carboxyl-terminal domain, the italic gamma134.5 protein is required to recruit protein phosphatase 1 to dephosphorylate eIF-2alpha and block translation shutoff during virus infection.36 Thus, the conserved carboxyl-terminal domain of the italic gamma134.5 protein represents a functional module. A hypothesis derived from these analyses is that, in order to cope with ER stress, herpes simplex virus acquired the italic gamma134.5 protein in order to antagonize the activity of PERK during its evolution. While this suggests a potential viral mechanism to modulate ER stress, it remains unknown whether the italic gamma134.5 protein regulates the transcription of host genes required for ER stress response that may affect viral virulence in vivo.

Recent studies have shown that cytomegalovirus and African swine fever virus also perturb the PERK pathway.8, 21, 39 Cytomegalovirus is a beta-herpesvirus, whose gene expression occurs in an ordered temporal pattern. Compared to the prototype herpes simplex virus-1, it is a slowly replicating virus. In cells infected with cytomegalovirus, PERK is not phosphorylated in the early phase. As viral replication proceeds, there is an increase in the level of PERK phosphorylation later in infection, indicating that PERK is activated. However, there is only a limited extent of phosphorylation of eIF-2alpha, which coincides with increased expression of ATF4. Despite phosphorylation of PERK and eIF-2alpha, translation is not attenuated by cytomegalovirus infection. This observation implies that a viral mediated function may act downstream of eIF-2alpha phosphorylation. Currently, it is not clear which gene product(s) is involved in reducing phosphorylation of eIF-2alpha during the ER stress. African swine fever virus is a DNA virus, which uses the ER as a site for assembly and envelopment. Thus, replication of African swine fever virus is expected to induce ER stress. However, in virus-infected cells, African swine fever virus does not induce PERK activation. Furthermore, African swine fever virus is capable of blocking the expression of CHOP/GADD153-mediated dithiothreitol, thapsigargin, and other agents.8 It will be interesting to identify gene products that inhibit PERK activation.

In addition, RNA viruses that employ the ER as a site for viral replication and maturation have been shown to regulate PERK. For example, a cytopathic strain of bovine viral diarrhea virus, a member of flaviviruses, activates PERK and increases eIF-2alpha phosphorylation.10 During peak times of virion production, PERK phosphorylation is maximal. This suggests the level of ER stress signaling increases as viral gene products accumulate during infection. Accordingly, infected cells undergo apoptosis with increased expression of GADD153/CHOP and caspase-12. This phenotype is not associated with the noncytopathic strain of bovine viral diarrhea virus, which tends to cause chronic infection. Another example is the E2 protein encoded by hepatitis C virus.40 When expressed, the E2 protein binds to PERK as a pseudosubstrate and may sequester it from its normal substrate eIF2alpha. Although a direct link between hepatitis C virus and PERK is not known in infected cells, ecotopic expression of the E2 protein inhibits PERK phosphorylation and enhances translation, which is believed to contribute to persistent hepatitis C virus infection. Additional work is needed to test this hypothesis. Thus, differential modulation of the PERK pathway is probably related to the biological properties of viruses.

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Regulation of the ATF6 and IRE1 Pathways by Viruses

Compared to PERK, ATF6 and IRE1 are two components that function in the late stages of the unfolded protein response (UPR).41 ATF6 resides in the ER membrane with a cytosolic amino-terminal domain and an ER luminal carboxyl-terminal domain. As a result of its activation, the amino-terminal domain of ATF6 is released by proteolysis. This portion of ATF6 translocates to the nucleus, where it cooperates with other proteins to form a complex that induces the expression of genes coding for chaperones or folding enzymes. ATF6 also upregulates the expression of X-box-binding protein (XBP1) mRNA, a substrate of IRE1.42 IRE1 is a protein with an ER luminal amino-terminal domain, a transmembrane domain, a serine/threonine kinase domain, and carboxyl-terminal endonuclease domain in the cytoplasm. Under ER stress, IRE1 oligomerizes, autophosphorylates, and removes an intron from the XBP1 mRNA, which produces a transcription factor that activates target genes, for example, ER degradation-enhancing alpha-mannoside-like protein (EDEM), which facilitates the degradation of misfolded proteins.

Replication of hepatitis C virus has been shown to stimulate the ATF6 pathway, but suppress the IRE1–XBP1 pathway.29, 43 In cells containing hepatitis C virus replicons, subgenomic replication promotes the cleavage of ATF6, producing a 50-kDa fragment that corresponds to the amino-terminal domain of ATF6. In correlation, there is an increased transcriptional level of BiP, an ER luminal chaperone. As the ribonucleoprotein complex of hepatitis C virus is associated with the ER membrane, viral replication may stimulate expression of BiP/GRP78. As hepatitis C virus replicons only express the structural proteins, it is not clear which nonstructural protein is involved in the induction of ATF6. Recent experiments suggest that subgenomic replication of hepatitis C virus reduces properly folded major histocompatibility complex class I, which is attributed to a decline in protein glycosylation.44 It is possible that unfolded MHC class I may account for the activation of ATF6. With respect to regulation of XPB1 by ATF6, it is notable that hepatitis C virus replicons stimulate accumulation of more unspliced XBP1 mRNA as compared to cells without hepatitis C virus replicons. Spliced XBP1 mRNA is also detected in cells containing hepatitis C virus replicons. Surprisingly, transactivating activity of XBP1 is inhibited in cells with hepatitis C virus replicons as measured by reporter assays. In parallel, ER-associated protein degradation is reduced in cells carrying hepatitis C virus replicons. A model to reconcile these findings is that hepatitis C virus encodes a function to block the effect of IRE1–XBP pathway, which enhances the translation of viral proteins.

In view of ER stress mediated by ATF6 and IRE1, a different pattern is observed in cells infected with cytomegalovirus.21 Infection of cytomegalovirus causes a transient increase in BiP levels at the early phase of viral replication, but BiP returns to basal levels at the later stage. This coincides with the appearance of other markers of UPR. In the early phase of infection, the increased BiP may inhibit the ER stress response by interacting with PERK, ATF6, and IRE1. Thus, cytomegalovirus appears to control the level of BiP that regulates the onset of ER stress. In this regard, the Us11 gene product physically interacts with BiP.39 The expression of cytomegalovirus Us11 in mammalian cells is sufficient to trigger UPR, as manifested by upregulation of Bip and production of spliced XBP-1 mRNA. This response is dependent on its interaction with a cellular protein Derlin-1 although the underlying mechanism is not known. Surprisingly, cytomegalovirus infection does not result in the proteolytic cleavage of ATF6. The full-length ATF6 is present throughout viral replication. Nevertheless, there is a limited expression of XBP1 mRNA in virus-infected cells. It seems that cytomegalovirus stimulates splicing of XBP1 in the later stages of infection as measured by RT-PCR analysis. Yet, transcriptional activation of the XBP1 target gene is inhibited in virus-infected cells.

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Viruses and Apoptosis in ER Stress

When unfolded proteins continue to accumulate beyond the capacity of the ER, apoptosis may occur. Under the ER stress, CHOP is activated to facilitate cell death. The downstream targets of CHOP remain unknown, but CHOP-mediated apoptosis has been coupled to a pathway that suppresses Bcl-2 expression, depletion of intracellular glutathionine, and an increase of free radicals.33, 45 Another pathway involves the activity of IRE1, TRAF2, and caspase-12. When activated, IRE1 recruits TRAF2 and c-Jun N-terminal inhibitory kinase; thus, IRE1 transmits a signal via apoptosis signaling kinase c-Jun N-terminal kinase. This cascade triggers caspase-12 activation and subsequent apoptosis.46, 47, 48 Several viruses induce apoptosis mediated by ER stress.10, 11, 19 Infection of Japanese encephalitis virus exhibits severe cytopathic effect, which is associated with apoptosis, as measured by nuclear condensation and DNA laddering. As Japanese encephalitis virus infection alters the structure of the ER, it is not surprising that the expression of CHOP is enhanced. Notably, the level of CHOP induced seems to correlate with the extent of apoptosis in infected cells. Overexpression of Bcl-2 reduces the virus induced cell death. In addition to CHOP, Japanese encephalitis virus infection also activates p38 MAPK. Inhibition of p38 MAPK activity alleviates apoptosis induced by Japanese encephalitis virus. Similarly, a cytopathic strain of bovine diarrhea virus induces apoptosis by stimulating CHOP activation, whereas the virus infection causes phosphorylation of PERK and eIF-2alpha. In cells undergoing apoptosis, the levels of Bcl-2 and glutathione are reduced. Collectively, these observations suggest that virus infection activates the p38 MAPK, which then acts on CHOP to initiate the death signal in infected cells.

Recent analysis suggests that Tula virus infection activates the JNK pathway.19 Notably, Tula virus infection leads to apparent phosphorylation of JNK1, and JNK2 to a lesser extent. As viral infection proceeds, both phosphorylated and nonphosphorylated c-Jun is dramatically increased. Furthermore, addition of JNK inhibitor II reduced the cleavage of PARP in infected cells. Thus, activation of the JNK pathway may contribute to the cell death mediated by Tula virus. In addition, cleavage of BAP31, a proapoptotic protein, correlates well with the activation of caspase-8. Virus infection also activates capsase-12. This activation is a late event in response to accumulation of misfolded protein in the ER, which can be blocked by the inhibitor z-VAD-fmk. Apoptosis induced by a cytopathic strain of bovine diarrhea virus coincides with caspase-12 activation. Further, infection with respiratory syncytial virus also activates caspase-12, and inhibition of caspase-12 by antisense oligonucleotides markedly suppresses apoptosis induced by respiratory syncytial virus. In fact, in cells infected with Tula virus, caspase-12, caspase-8, and caspase-3 are all activated. The kinetics of caspase-12 activation is earlier than that of caspase-8 and caspase-3, suggesting that caspase-12 might be an initiator caspase required for transduction of the death signal from the ER in infected cells. It is unknown how viruses affect the upstream modulators leading to caspase-12 activation.

Although virus-mediated apoptosis in ER stress has been recognized, the biological significance of such a process is not well defined. Simian virus 5 infection enhances the expression of BiP and GRP94. However, this does not trigger apoptosis.7 A mutant simian virus 5 with a truncation of the V protein induces cell death mediated by ER stress. Accordingly, the expression of CHOP is drastically increased and caspase-12 is activated. In a mouse model, simian virus 5 replicates more efficiently as compared to the V deletion mutant. This experimental model suggests that it is beneficial for simian virus 5 to prevent host cells from undergoing apoptosis mediated by ER stress. It should be stressed that the situation is more complex in other virus systems. For instance, it is generally less clear why some viruses promote ER-mediated apoptosis. It has been reported that murine retroviruses cause a spongiform neurodegenerative disease, which is determined by properties of viral envelope proteins.6 Infection of cells with the virulent strain FrCasE stimulates the expression of BiP and CHOP, whereas infection with an avirulent strain F43 has no effect. Importantly, the envelope protein from F43 binds to BiP transiently and is processed normally through the secretory pathway. However, the envelope protein from FrCasE binds to BiP for a prolonged period and is degraded by the proteosome. Thus, the virulent strain may cause ER stress that mediates microglial cell death and consequently results in neuronal degeneration. These studies suggest that ER-mediated apoptosis induced by virus may be related to the pathogenesis of viral infection.

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ER Stress and Interferon Responses: The eIF2alpha Connection

Unfolded proteins stimulate ER stress pathways, whereas dsRNA produced by viruses triggers the interferon pathway. These stress-responsive pathways converge at the alpha subunit of translation initiation factor 2, which is essential for protein synthesis. To date, four different eIF2alpha kinases have been identified.49, 50 These are the heme-regulated inhibitor (HRI), the homolog of Saccharomyces cerevisae protein kinase GCN2, PKR, and PERK (also known as pancreatic eIF2alpha kinase PEK). These kinases regulate the phosphorylation state of eIF-2alpha in response to heme deficiency, amino-acid starvation, dsRNA, and misfolded protein, respectively. Among these kinases, PKR as well as PERK are activated by virus infection. Notably, PKR is a cytosolic as well as nuclear protein, which acts as an intracellular receptor for dsRNA produced by viral replication. In contrast, PERK is an ER-resident membrane protein that transmits ER stress signal. Thus, PKR and PERK may coordinate to control viral replication.

PKR is a 68 kDa protein that is subjected to two levels of regulation.2 First, it is induced by interferon. In normal cells, PKR is present at a low level and remains inactive. In the presence of interferon, the expression of PKR is elevated. Secondly, PKR is activated by dsRNA. Biochemical characterization suggested that PKR contains two copies of dsRNA-binding domains in the amino-terminus and a serine/threonine kinase domain in the carboxyl-terminus. PKR binds dsRNA with high affinity and is activated by low concentrations of dsRNA. Upon binding of dsRNA, PKR forms a homodimer and autophosphorylates on multiple serine/threonine residues. These series of events convert PKR into an active enzyme, which is capable of catalyzing the phosphorylation of a number of substrates, including eIF-2alpha at serine 51. Phosphorylation of eIF-2alpha increases its affinity for guanine nucleotide exchange factor eIF-2B, thus sequestering eIF-2B in an inactive complex with phosphorylated eIF-2 and GDP. Consequently, eIF-2B is not available to catalyze nucleotide exchange on nonphosphorylated eIF-2, leading to the shutoff of protein synthesis.

PKR is a multifunctional protein that also regulates apoptosis, cell proliferation, signal transduction, and differentiation.3 Overexpression of PKR has been suggested to inhibit cell proliferation in yeast, insect, and mammalian cells.51, 52, 53 Several studies showed that the expression of PKR mediates apoptosis.54, 55 In contrast, the expression of catalytically inactive mutants of PKR in NIH3T3 cells results in tumorigenicity in nude mice, which is attributed to a dominant-negative effect of mutant PKR.53 Mouse embryo fibroblasts derived from PKR-/- mice are resistant to cell death induced by dsRNA and lipopolysaccharide.56 PKR has been suggested to be involved in dsRNA signal transduction pathways leading to NF-kappaB activation and the p38 mitogen-acitvated kinase pathway.57, 58 In PKR-/-, but not wild-type cells, dsRNA fails to induce NF-kappaB activation, which correlates with the lack of interferon-beta production.

In addition to dsRNA, PKR activity is positively regulated by a cellular protein called PKR-activating protein (PACT)/RAX.59, 60 This protein was identified as a PKR interacting protein by the yeast two-hybrid screen. PACT/RAX hetrodimerizes with PKR and activates it in the absence of dsRNA in vitro. PACT/RAX is expressed in most cell types. In mammalian cells treated with arsenite, thapsigargin, hydrogen peroxide, and interleukin-3 deprivation, PACT/RAX is rapidly phosphorylated and associates with PKR, which is followed by activation of PKR and eIF-2alpha phosphorylation. In this respect, it is notable that PKR is activated in mammalian cells in response to treatment with tunicamycin or thagasgagine, which causes ER stress by inhibiting protein folding.4, 5 Therefore, PACT/RAX may be a stress-mediated activator of PKR.

Studies have pointed to P58IPK as a tetratricopeptide repeat domain protein that negatively regulates both PKR and PERK.61, 62, 63, 64 P58IPK was originally characterized as an influenza virus-activated protein that interacts with the kinase domain of PKR and inhibits its activity. In normal cells, P58IPK associates with a heat shock protein 40 and forms an inhibitory complex. Cellular stress or virus infection induces dissociation of P58IPK from heat shock protein 40. Therefore, the released P58IPK can bind to PKR and disrupt its activity. In response to serum starvation or heat shock, P58IPK also interacts with P52rIPK, a protein homologous to heat shock protein 90.65 The response of P58IPK activation to both influenza virus infection and cellular stress suggests that it is a multifunction protein. Recent work by Katze et al.62 showed that P58IPK interacts with PERK and inhibits its activity. Overexpression of P58IPK reduces eIF-2alpha phosphorylation mediated by PERK in mouse embryonic stem cells. On the other hand, deletion of P58IPK increases eIF-2alpha phosphorylation and induction of CHOP and BiP. Moreover, P58IPK expression is induced by tunicamycin as well. This is consistent with the observation that the P58IPK promoter bears an element that is commonly found in the promoter region of other genes induced by UPR. Thus, P58IPK is also a component of the system that regulates unfolded protein response.

As mentioned earlier, GADD34 regulates the phosphorylation state eIF-2alpha, which is a physiological substrate for PKR and PERK. Expression of GADD34 is dependent on phosphorylation of eIF-2alpha, which stimulates translation of transcription factor ATF4.32 When induced, GADD34 recruits cellular protein phosphatase 1 to mediate eIF-2alpha phosphorylation. Thus, it is a control point of a negative-feedback loop that terminates the signals from PERK. In general, PKR and PERK are activated in response to different stimuli. However, a crosstalk exists between the PKR and PERK pathways.5 In response to vesicular stomatitis virus infection, phosphorylation of PKR is diminished in PERK-/- mouse fibroblasts (MEF) as compared to wild-type MEFs. In correlation, vesicular stomatitis virus replicates very efficiently in PERK-/- MEFs. This result suggests that PERK plays a role in controlling virus infection. Importantly, tunicamycin induces phosphorylation of PKR in PERK+/+, but less so in PERK-/- MEFs. Therefore, the antiviral action of PERK is mediated by PKR. The mechanism by which vesicular stomatitis virus activates PERK has not been elucidated. One interesting issue is how PERK regulates PKR. It should be pointed out that PKR may be considered as a member of the ER stress response system. In support of this notion is the recent finding that PKR is involved in ER-stress-mediated apoptosis. In neuroblastoma cells treated with tunicamycin, levels of phosphorylated PKR is increased in the nucleus.4 Together, these observations imply that coordinated interaction of PERK and PKR plays a critical role in regulating ER stress or interferon responses during viral replication.

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Virus Inhibition of the Interferon Response Mediated by PKR

It is well established that PKR plays a critical role in the antiviral action of interferon. As viruses synthesize double-stranded RNA during their replication, the interferon system will be activated upon virus infection. This is apparently detrimental to virus replication in the host cells. To survive, viruses have evolved a variety of mechanisms to disarm the interferon system.1, 2 This includes inhibition of PKR activation, the prevention of eIF-2alpha phosphorylation, or the degradation of PKR. For example, adenovirus VAI RNA, vaccinia virus K3L protein, hepatitis C NS5A protein, and influenza virus-induced p58 protein interact with PKR and block its activation. The herpes simplex virus italic gamma134.5 protein directs the cellular protein phosphatase 1 to dephosphorylate eIF-2alpha, whereas poliovirus employs a cellular proteinase to degrade PKR. In addition, viruses employ countermeasures to inhibit interferon production or signal transduction initiated by interferons.

It is apparent that while suppressing the interferon response mediated by PKR, viruses also inhibit the ER stress regulated by PERK. Such viral strategies have been suggested to operate in some DNA as well as RNA viruses. These include herpes simplex virus, cytomegalovirus, hepatitis C virus, vaccinia virus, influenza virus, and perhaps papillommavirus. Herpes simplex viruses are inherently resistant to interferon in infected cells. Among herpes simplex virus genes that interfere with interferon responses, the italic gamma134.5 protein is well characterized. In cell culture, herpes simplex virus infection leads to activation of PKR, but only infection of the italic gamma134.5 null mutant causes phosphorylation of eIF-2alpha, and subsequently attenuation of protein translation.66 A unique feature of herpes simplex virus is that during virus infection, the italic gamma134.5 is expressed to recruit cellular protein phosphatase 1, forming a high-molecular-weight complex that dephosphorylates eIF-2alpha.36, 67 Accordingly, the italic gamma134.5 protein-mediated eIF-2alpha dephosphorylation contributes to viral resistance to the antiviral effect of interferon-alpha/beta.68 This function maps to the carboxyl-terminal domain that is homologous to the corresponding domain of GADD34, which functionally substitutes for the italic gamma134.5 protein in the context of herpes simplex virus genome.35 Whether GADD34 has a role in interferon response in uninfected cells has not been established. Nevertheless, herpes simplex virus infection stimulates transient expression of GADD34. Given the role of GADD34 in ER stress, it is interesting that herpes simplex virus infection activates PERK and mediates eIF-2alpha dephosphorylation by the italic gamma134.5 protein.20 These results support the hypothesis that, during the evolution, the italic gamma134.5 protein is adapted from host cells to cope with ER stress and interferon responses. In this context, it is noteworthy that, in mammalian cells, the E6 protein of papillomavirus associates with the GADD34–PP1 complex and facilitates eIF-2alpha dephosphorylation induced by the activation of PKR.69 Thus, a strategy similar to that used by herpes simplex virus may be employed by papillomavirus. Additional studies will be required to determine whether this mechanism does indeed operate under the conditions of viral infection.

Herpes simplex virus 1 also encodes the Us11 protein that binds to and inhibits PKR.70 The carboxyl-terminus of the Us11 protein contains an RNA-binding motif that prevents PKR activation. This portion of the Us11 protein also inhibits the activation of PKR by PACT/RAX in vitro.71 It is not known whether herpes simplex virus infection regulates PACT/RAX, which is capable of activating PKR. In virus-infected cells, Us11 is expressed at the late phase of virus life cycle. When its expression is shifted from a late to early kinetics, it prevents the shutoff of protein synthesis in virus-infected cells, suggesting that herpes simplex virus may have an additional way to block the antiviral action of PKR.72 It has been suggested that the Us11 protein functions to inhibit PKR in the late stage of infection and thereby complements the activity of the italic gamma134.5 protein.70 Further work is required to understand the precise role of Us11 in herpes simplex virus infection.

Another virus that regulates the activity of PKR and probably ER stress is vaccinia virus. Vaccinia virus encodes two gene products, E3L and K3L, both of which confer viral resistance to interferon.73, 74, 75 The E3L protein, synthesized early during viral infection, contains an amino-terminal Z-DNA-binding domain and a carboxyl-terminal domain with a typical dsRNA-binding motif.74 The carboxyl-terminus of E3L sequesters dsRNA and prevents the activation of PKR and phosphorylation of eIF-2alpha. In addition, E3L prevents the activation of 2'–5' oligoadenylate synthetase. E3L deletion mutant is highly sensitive to interferon. In cell culture, the carboxyl-terminus, but not amino-terminus of E3L, is required for viral infection. However, the full-length of E3L is essential for viral pathogenesis in mice.76 The K3L protein has homology to eIF2alpha and acts as a pseudosubstrate for PKR in competition with eIF2alpha, consequently, suppressing phosphorylation of eIF2alpha and the shutoff of protein synthesis.77 Studies suggest that E3L and K3L may determine viral host range in infected cells.75 The E3L gene is required for viral replication in HeLa cells, but not in BHK cells. On the other hand, K3L gene is required for viral replication in BHK cells, but is dispensable for viral replication in HeLa cells. The biological basis for this is not fully understood. Interestingly, in a heterologous system, K3L also binds to PERK and inhibits its activation. This raises the possibility that K3L interferes with the ER stress response.78 Consistent with this notion, vaccinia virus infection does not lead to phosphorylation of PERK.79 Recent studies with cytomegalovirus revealed that TRS1 and closely related IRS1 can each rescue a vaccinia mutant that has deletion of the E3L gene. TRS1 is an RNA-binding protein that may function like E3L of vaccinia virus. Thus, cytomegalovirus has two genes that function in blocking the PKR-mediated antiviral pathway.80

The NS5A protein of hepatitis C virus is a phosphoprotein that interacts with PKR and inhibits its activation.81 The involvement of NS5A in hepatitis C virus resistance to interferon is initially suggested by clinical studies with hepatitis C virus 1b subtype from a Japanese isolate.82 Notably, a cluster of amino-acid mutations within a discrete region in NS5A seems to correlate with increased resistance of HCV-1b to interferon. This region, termed the interferon-sensitivity determining region (ISDR), is thought to mediate viral resistance to interferon therapy.83 In supporting this observation, NS5A was found to bind to and inactive PKR in vitro. Furthermore, mutations in the ISDR region disrupted the interaction between NS5A and PKR.81, 84, 85 Paradoxically, the involvement of ISDR is less clear based on clinical studies from Europe and North America.86, 87 It is clear that the clinical response to interferon therapy is a complex process that likely involves multiple viral as well as host factors. Nonetheless, expression of NS5A in a number of cell lines reduces the antiviral effect of interferon on replication of vesicular stomatitis virus or encephalomyocarditis virus.85 The mechanism by which NS5A works remains controversial. This may partly result from the fact that NS5A regulates a number of cellular pathways.88 Recent studies suggest that replication of hepatitis C virus replicons corresponds with the ability of NS5A to block the activation of PKR and interferon regulatory factor 1.89 Mutations in the PKR-binding domain of NS5A lead to the induction of regulatory factor 1-dependent antiviral genes and concomitant reduction in efficiency of viral RNA replication, suggesting that NS5A may contribute to viral persistence. Intriguingly, the glycoprotein E2 of hepatitis C virus has been reported to interact with PKR and PERK, inhibiting the activities of the two kinases.40, 90 While the role of the E2 protein in viral persistence remains to be established, it is possible that hepatitis C virus encodes multiple functions to regulate the ER stress and interferon responses.

Finally, it appears that influenza A virus has evolved mechanisms to cope with PKR and PERK. Influenza A virus is a negative-stranded RNA virus that possesses a segmented genome. Of 10 proteins encoded by influenza virus, the NS1 protein functions as an inhibitor of interferon responses during cellular infection. The NS1 protein is an RNA-binding protein, which prevents the activation of PKR by dsRNA.91, 92 The ability of dsRNA to stimulate phosphorylation of PKR is abrogated in the presence of the NS1 protein in vitro and dimerization of the NS1 protein is essential for its function. However, it has been reported that the NS1 protein directly binds to PKR and inhibits its activation.93 Whether binding of dsRNA is required for NS1 to interact with PKR is not yet resolved. Genetic analysis suggests that interaction of NS1 and PKR plays a critical role in replication of influenza A virus.94 Particularly, a recombinant virus lacking NS1 exhibits a defective viral growth in interferon-producing cells, but not in interferon-deficient cells. Thus, unlike wild-type influenza virus, infection with the NS1 deletion mutant results in hyperphosphorylation of PKR. Accordingly, similar to wild-type influenza A virus, the NS1 deletion mutant replicates efficiently in PKR-/- mice. In contrast, the NS1 deletion mutant fails to grow in PKR+/+ mice.95 Studies also showed that influenza virus infection leads to the activation of a cellular protein p58IPK, which binds to and inhibits PKR activity. These experimental results suggest that influenza A virus has an additional way of inhibiting PKR activity.63, 64 As p58IPK is induced by ER stress, it is interesting that p58IPK also interacts with PERK and blocks its activity.62 However, the possible connection between influenza virus and PERK in infected cells remains to be established. Available evidence is consistent with the hypothesis that influenza A virus regulates both the ER stress and interferon responses during infection. Such viral strategies would ensure suitable environment for virus infection.

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Conclusions

Virus regulation of cellular responses is a critical step in determining the consequences of infection. Obviously, viruses face interferon responses mediated by PKR, which is subjected to inhibition by many viruses. Moreover, viruses encounter UPR mediated by one master control protein BiP and three sensors, PERK, ATF6. and IRE1. These components respond to viral signals emanating from the ER during viral infection. Certainly, viruses have different mechanisms to modulate this response. This complex regulation by viruses is probably evolved to either optimize viral replication or regulate the pathological process. Despite some evidence, it still remains less clear how viruses interact with each component of UPR over the course of replication. Available data suggest that PERK plays a role in limiting viral replication. In this respect, there is a crosstalk between the PERK pathway and the PKR pathway. Emerging evidence also suggests that PKR may have a role in ER stress response. The fact that viruses have developed ways to subdue both the ER stress and interferon responses suggests that these cellular pathways are crucial in controlling viral infection. Further investigation on the molecular interaction between viruses, the PKR pathway, and the ER stress may yield important information.

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Acknowledgements

The work in this laboratory was supported by grant AI 46665 (BH) from the National Institute of Allergy and Infectious Diseases. I thank Dustin Verpooten for critical reading of the manuscript.

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