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Retrovirology. 2009; 6: 38.
Published online Apr 16, 2009. doi:  10.1186/1742-4690-6-38
PMCID: PMC2672920

High level expression of the anti-retroviral protein APOBEC3G is induced by influenza A virus but does not confer antiviral activity

Abstract

Human APOBEC3G is an antiretroviral protein that was described to act via deamination of retroviral cDNA. However, it was suggested that APOBEC proteins might act with antiviral activity by yet other mechanisms and may also possess RNA deamination activity. As a consequence there is an ongoing debate whether APOBEC proteins might also act with antiviral activity on other RNA viruses. Influenza A viruses are single-stranded RNA viruses, capable of inducing a variety of antiviral gene products. In searching for novel antiviral genes against these pathogens, we detected a strong induction of APOBEC3G but not APOBEC3F gene transcription in infected cells. This upregulation appeared to be induced by the accumulation of viral RNA species within the infected cell and occurred in an NF-κB dependent, but MAP kinase independent manner. It further turned out that APOBEC expression is part of a general IFNβ response to infection. However, although strongly induced, APOBEC3G does not negatively affect influenza A virus propagation.

Findings

In patients infected with HIV-1, the expression of human apolipoprotein (apo) B mRNA editing enzyme catalytic polypeptide 1-like protein 3G (APOBEC3G) was observed to be elevated [1], although this was not confirmed in cell culture experiments [2,3]. Members of the APOBEC3 family are known to act with anti-retroviral activity against HIV [4,5], but they also inhibit replication of hepatitis B virus (HBV) [6], and adeno-associated virus type 2 [7]. The anti-retroviral activity of human APOBEC3 proteins is probably conferred by cytidine deamination of the newly synthesized first viral cDNA strand. This mechanism is counteracted by the HIV-1 protein virion infectivity factor (Vif) [8-12]. However, human APOBEC3 proteins may not only have anti-retroviral or anti-HBV activity. Two findings have triggered a broader interest in these proteins with regard to a potential antiviral action against RNA viruses. First, besides its DNA deamination activity, human APOBEC3 proteins were reported to also possess RNA deamination activity [13]. Second, DNA deamination activity may not be the only antiviral action of these proteins [13-16] suggesting that APOBEC3s might possess functions that render them effective against other viruses, which do not have any DNA-intermediates during replication such as influenza A virus.

In global gene expression profiling studies of influenza A virus-infected cells, we observed strongly elevated transcription of human APOBEC3G. This finding was verified by quantitative Real-time PCR (qRT-PCR) [17] with specific primers against APOBEC3G and APOBEC3F (Figure (Figure1A)1A) [18-20] in lung epithelial cells (A549) (Figure (Figure1B)1B) and in primary human endothelial cells (HUVEC) (Figure (Figure1C)1C) infected with the human influenza virus A/Puerto Rico/8/34 H1N1 (PR8). The upregulation of APOBEC3G was also confirmed on protein level as determined in Western blot analysis (Figure (Figure1E).1E). Protein expression steadily increased with time up to 16 hours post infection but dropped again at 24 hours p.i (Figure (Figure1E)1E) most likely due to host cell protein shut-off induced by the virus. Interestingly, such an upregulation of human APOBEC3G transcription was not reported for cells infected with HIV-1 [2,3], although higher expression levels of human APOBEC3G in HIV-1 infected patients is described in the literature [1]. Upregulation of APOBEC3G was also confirmed in cells infected with the human H5N1 influenza virus isolate A/Thailand/(KAN-1)/2004 (H5N1) (data not shown), suggesting that transcriptional induction of APOBEC3G is a general phenomenon in influenza A virus infected cells. Interestingly, the paralogue human APOBEC3F was not found to be upregulated in A549 cells and was only marginally induced in HUVEC (Figure (Figure1B1B and and1C).1C). This is noteworthy, since human APOBEC3F and human APOBEC3G share more than 90% promoter sequence similarity and appear to be transcriptionally co-regulated [4,5]. However, co-regulated induction of expression was not observed in our experiments. Instead we found that the mRNA copy number of APOBEC3F remains at a constant high level in uninfected and infected A549 cells, while the copy numbers of APOBEC3G are at a low level in uninfected cells and rise upon viral infection (Figure (Figure1D),1D), suggesting distinct transcriptional regulation despite high promoter sequence similarity.

Figure 1
Virus-induced human APOBEC3G gene transcription. (A) Determination of the binding specificity of human APOBEC3F and human APOBEC3G primers in quantitative real time PCR (qRT-PCR). Serial dilutions of the C-terminally HA-tagged plasmids pcDNA_huAPOBEC3F ...

Given the particular strong induction of human APOBEC3G in influenza A virus-infected cells, we addressed the question which virus-induced intracellular signalling pathways are required for human APOBEC3G mRNA transcription. Influenza virus infection induces a variety of signalling pathways such as the Raf/MEK/ERK kinase cascade, the p38 signalling pathway and the IKK/NFκB pathway [21,22]. PMA, an effective inducer of the classical Raf/MEK/ERK cascade, has been reported to induce human APOBEC3G gene expression in H9 cells via PKC [23]. However, in the cell types used in our study, PMA (100–200 ng/ml) was only a weak inducer of APOBEC3G expression, and inhibition of the Raf/MEK/ERK cascade by the MEK inhibitor U0126 (2–10 μg/ml) did not result in reduced human APOBEC3G mRNA levels in virus-infected A549 cells (data not shown). Activation of the p38 signalling cascade by virus infection involves the phosphorylation of p38 by the MAP kinase kinase, MKK6. To block the pathway at this level of the cascade we overexpressed a dominant negative mutant of MKK6 (MKK6Ala) that was previously shown to efficiently suppress the activation of p38 [24]. Successful transduction of the retroviral vector pEGZ-MKK6Ala was monitored by FACS-analysis of GFP (data not shown) that is expressed from a second reading frame of the mRNA of the transgene [24]. Inhibition of the p38 phosphorylation by either stable overexpression of the dominant-negative form of MKK6 (Figure (Figure2A)2A) or application of the p38 inhibitor SB203580 (20 μM) (data not shown) did not affect the induced transcription of APOBEC3G. These findings argue against a prominent role of either, ERK or p38 MAPK cascade in viral APOBEC3G induction.

Figure 2
IFNβ-induced transcription of human APOBEC3G. (A and B) A549 cells stably overexpressing the dominant negative mutants IKK2KD or MKK6Ala. These mutant kinases were cloned in the retroviral pEGZ-vector. In this vector GFP is expressed by an internal ...

The IKK2/NF-κB module is another influenza virus-activated signalling cascade that is known to regulate a variety of genes. This includes IFNβ transcription, which is controlled by an enhanceosome, composed of the transcription factors IRF3/7, NF-κB, and AP-1 [22]. To assess the involvement of IKK2 and NF-κB in virus-induced APOBEC3G expression, we used A549 cells that were retrovirally transduced with the vector pEGZ-IKK2KD. This transduction allows for the stable expression of the dominant negative mutant of IκB kinase 2 (IKK2), an approach that has been successfully used previously to efficiently blunt NF-κB activity [25,26]. Upon infection of these mutant-expressing cells, APOBEC3G mRNA levels were reduced compared to control cells (Figure (Figure2A)2A) to a similar extent that was observed for the IFNβ gene (Figure (Figure2B).2B). The same pattern of APOBEC3G expression was also observed in infected cells pre-treated with the NF-κB inhibitor BAY 11–7085 (40 μM) (Figure (Figure2C).2C). Thus, NF-κB activity appeared to be crucial for viral APOBEC3G induction.

To independently analyse whether NF-κB might play a role in APOBEC3G induction, we stimulated cells with TNFα (20 ng/ml), a very strong activator of NF-κB [27]. However, TNFα stimulation did not result in enhanced APOBEC3G gene transcription (data not shown), indicating that NF-κB activity alone is not sufficient to induce human APOBEC3G gene transcription.

Influenza virus infection results in type I IFN production (Figure (Figure2B)2B) and subsequent expression of IFN-responsive genes [28-30]. So far, it was not clear from the literature whether human APOBEC3 genes are induced by type I IFNs. While IFN-dependency was reported for the hepatoma cell lines HepG2 and Huh7 [18,31] and for macrophages [32], human APOBEC3 proteins are not inducible in H9 cells by type I and type II IFN [23]. To specifically address this issue for the lung epithelial cell line used in our study, A549 cells were incubated for different time periods with recombinant IFNβ (100 U/ml) (PBL), and the levels of human APOBEC3G and human APOBEC3F mRNAs were determined by qRT-PCR (Figure (Figure2D2D).

IFNβ stimulation led to a nearly 20-fold induction of the human APOBEC3G mRNA (Figure (Figure2D),2D), which could also be observed at the protein level (Figure (Figure2E);2E); by contrast, the human APOBEC3F mRNA was not affected at all (Figure (Figure2D).2D). Strikingly, this pattern of human APOBEC3G versus human APOBEC3F expression exactly matched the results obtained upon virus infection (Figure (Figure1B).1B). This suggests that IFNβ, expressed upon virus infection in an NF-κB dependent manner, may be an indirect trigger of human APOBEC3G expression, leaving still open the question about the initial viral inducer.

IFNβ transcription in infected cells is known to be mainly induced by single-stranded or partially double-stranded RNA. Such RNA species accumulate during infection within the host cell and serve as a pathogen pattern sensed by cells [33,34]. To examine whether different RNA species serve as inducer of APOBEC3G gene expression, total RNAs isolated from influenza virus infected ("viral RNA") or uninfected cells ("cellular RNA"), or the dsRNA analogue poly (I:C), or short ssRNA bearing a 5'-triphosphate were used as stimuli to elicit a gene response. These RNAs were transfected into A549 cells, and mRNA levels of human APOBEC3G and IFNβ were determined (Figure 3A–D). While transfection of RNA from uninfected cells led to no significant gene induction, RNA from virally infected cells resulted in upregulation of both, human APOBEC3G and IFNβ transcription (Figure (Figure3A3A and and3B).3B). Stimulation using either poly (I:C) or 5'-triphosphate RNA led to even a stronger induction of APOBEC3G (Figure (Figure3C3C and and3D).3D). In summary, our findings indicate that human APOBEC3G is induced upon viral infection as a part of the antiviral response mediated by type I IFN. This response is triggered by the recognition of different RNA species by distinct receptors such as TLR3, RIG-I and/or MDA-5. Interestingly, we did not observe any human APOBEC3F induction, neither upon viral infection nor with IFNβ stimulation (Figure (Figure1B1B and and2D),2D), albeit both promoters carry ISRE elements [35]. Thus, we hypothesized that human APOBEC3G may be selectively induced and may confer a specific antiviral activity in influenza virus infected cells.

Figure 3
Induction of human APOBEC3G mRNA by different RNA species. (A and B) A549 cells (1.5 × 106/6 cm dish) were transfected with indicated amounts of total RNA from virally infected ("viral RNA") or uninfected ("cellular RNA") A549 cells. RNA from ...

To test this assumption we first transiently over expressed HA-tagged human APOBEC3G (Figure (Figure4B)4B) and assessed the efficiency of viral propagation in these cells. Surprisingly, in the presence of human APOBEC3G, progeny virus titres were slightly elevated compared to the vector control (Figure (Figure4A,4A, white bars). This correlated with a slightly higher expression level of the viral polymerase subunit PB1 (Figure (Figure4B).4B). To circumvent potential transient transfection artefacts and to enhance the number of transgene-expressing cells, we generated cell lines, stably expressing human APOBEC3G (Figure (Figure4C4C and and4D).4D). After selection of stably APOBEC3G expressing cells by antibiotic treatment, the cells were infected with different influenza A virus strains at various multiplicities of infection (MOI) (Figure (Figure4A,4A, grey and black bars). In contrast to the transient situation, viral propagation was not affected in these stably transfected cells, although the transgene was expressed well in MDCK cells (Figure (Figure4C)4C) as well as in A549 cells (Figure (Figure4D).4D). Thus, although influenza A virus induces human APOBEC3G transcription in an NF-κB and IFNβ dependent manner, the forced expression of human APOBEC3G did not result in any antiviral effect on this virus. This is different from the situation with HIV-1. APOBEC3G shows antiviral activity against HIV-1 and other retroviruses [8,2]. However, HIV-1 does not induce APOBEC3G transcription in cell culture [2,3]. In support of a specific rather than broad antiviral activity of APOBEC3G, Kremer et al. [36] had reported that overexpressed human APOBEC3G also has no antiviral effect against vaccinia virus (VACV). In summary, we conclude that human APOBEC3G is induced by influenza A viral RNA, via an NF-κB dependent mechanism as part of the antiviral IFN response program but does not exhibit an antiviral effect against influenza A virus.

Figure 4
Influence of the human APOBEC3G protein on viral replication. (A) Transiently (white bars) or stably human APOBEC3G transfected (light and dark grey bars) MDCK cells were infected with avian influenza virus A/FPV/Bratislava/79 (H7N7) (FPV) (MOI = 0.05) ...

Competing interests

The authors declare that they have no competing interests.

Authors' contributions

EKP, MS, CE and HH have performed experimental work, contributed data and gave conceptual input in the study design. EF and CM have provided important material and have been involved in drafting the manuscript and revising it critically for important intellectual content. SL has designed and has guided the study, interpreted the data and wrote the manuscript.

Acknowledgements

The following reagent was obtained through the NIH AIDS Research and Reference Reagent Program, Division of AIDS, NIAID, NIH: anti-ApoC17 from Dr. Klaus Strebel. This work was supported by several grants from the Deutsche Forschungsgemeinschaft (DFG) (Lu477-11/2, SFB293 A17, Graduate School GRK1409), the Interdisciplinary Clinical Research Centre (IZKF) of the University of Münster, the FluResearchNet funded by the German Ministry of Education and Research (BMBF), and the EC funded STREP EUROFLU.

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