Viral Interferon Regulatory Factor 1 of Kaposi’s Sarcoma-Associated Herpesvirus Interacts with a Translocation Liposarcoma Protein-Associated Serine-Arginine Protein

Objectives To confirm that Kaposi’s sarcoma-associated herpes virus openreading frame K9, viral interferon regulatory factor 1 (vIRF1), interacts with splicing factor, translocation liposarcoma protein-associated serine-arginine protein (TASR), in vivo and to establish whether interactions between vIRF1 and TASRs influence alternative splicing. Methods Association between vIRF1 and TASRs was confirmed with the glutathione S-transferase pull-down assay and coimmunoprecipitation. Further colocalization was shown by immunofluorescence. The in vivo splicing assay was performed to confirm the alterations in the splicing pattern. Results vIRF1 interacts with both TASR1 and 2 in vivo. vIRF1 has been shown to colocalize with TASR proteins in 293 T cells. However, an in vivo splicing revealed no alterations in the splicing pattern via interaction. Conclusions The study data suggest that vIRF1 interacts with the TASR protein. However, vIRF1 interactions do not affect TASR-mediated alternative splicing.


Introduction
Kaposi's sarcoma-associated herpesvirus (KSHV), also known as human herpes virus 8, is a gammaherpesvirus. Epstein-Barr virus (EBV) and saimiri herpesvirus belong to this virus group and display similar genetic properties. KSHV triggers B cell lymphoma, primary effusion lymphoma and multicentric Castleman's disease [1e3]. When the host cell is infected with a virus, interferons (IFN) are activated as part of the immune response, followed by triggering of various biological activities, including suppression of tumor, apoptosis regulated by the cell cycle, and immune activation. IFN activation is regulated by IFN regulatory factors (IRF) that recognize the IFN-stimulated response element (ISRE) [4e8]. KSHV has four open reading frames (ORF) encoding viral IRFs (vIRF) that are homologous to the cellular IRF family [3,4,9e11].
A number of studies show that vIRF1 acts as a transcriptional activator, while others have reported that vIRF4 interacts with and inhibits transactivation of various cellular factors [7]. For example, the tumor suppressor p53 interacts with vIRF1, leading to repression of the transcriptional activation of p53, and consequently, inhibition of p53-dependent apoptosis [12,13]. vIRF1 additionally interacts with GRIM19, a cell death regulator, and inhibits GRIM19-mediated apoptosis in the presence of IFN/retinoic acid [14]. Moreover, malignant tumors have been generated in nude mice injected with NIH3T3 cells stably expressing vIRF1 [4]. These studies indicate that vIRF1 influences KSHV tumorigenicity as a viral oncogene. vIRF1 also interacts with the transcriptional coactivator, p300/ CREB, and inhibits transcription of the IFNA gene by suppressing the transactivation of cellular IRFs. Earlier studies have additionally reported that vIRF1 suppresses cellular cytokine expression by inhibiting the histone acetyltransferase activity of p300 [9,15,16]. Thus, vIRF1 clearly alters the expression patterns of cellular factors.
The serine-arginine (SR) protein family is important for pre-mRNA splicing. These proteins contain two major domains. The N-terminus of SR proteins consists of ribonucleoprotein-type RNA binding domains that interact with pre-mRNA, and the C-terminus includes an arginine-serine (RS) domain required for protein-protein interactions [17,18].
The SR splicing factors, translocation liposarcoma protein (TLS)-associated serine-arginine proteins (TASRs), have been classified into two isoforms, TASR 1 and 2, composed of 183 and 262 aa, respectively. The proteins share a common N-terminal domain, but differ in the C-terminal domain. An earlier in vivo E1A splicing assay revealed differential splicing patterns. TASR 1 induces splicing to the 11S and 10S isoforms, and TASR2 to the 9S isoform [19e21]. Additionally, TASR 1 contributes to alternative splicing of type II and XI collagen genes in chondrogenic cells, but TASR2 does not [22]. TASRs interact with TLS or Ewing's sarcoma (EWS) proteins through the C-terminus. Normally, TLS and EWS link the gene transcription of RNA polymerase II to RNA splicing of TASRs. Upon replacement of the C-terminus with ETS-related gene and Friend leukemia integration-1, alternative splicing through TASRs was disrupted, and human myeloid leukemia and sarcoma were triggered, respectively [20,21,23e25].
Previously, we identified an association between TASRs and vIRF1 using the yeast two-hybrid assay [14]. Interactions with vIRF1 potentially influence the functions of cellular proteins, and we therefore assumed that vIRF1 affects the splicing function of TASRs via binding. However, the results indicate that vIRF1 does not affect the splicing function of TASRs.

Glutathione S-transferase pull-down assay and western blotting
At 48 h posttransfection, 293 T cells were lysed in EBC buffer (50 mM Tris-HCl [pH7.5], 120 mM NaCl, 50 mM NaF, 0.5% Nonidet P-40, 1 mM phenylmethylsulfonyl fluoride). Cell lysates were incubated with glutathione sepharose 4B beads (Amersham Pharmacia Biotech, Cardiff, UK) for 2 h at 4 C. Glutathione Stransferase (GST) fusion protein and GST bead complexes were washed with EBC buffer. Samples were mixed with loading buffer, heated at 100 C, separated with SDS-PAGE on a 10% gel, and transferred to PVDF membrane. Proteins were immunoblotted with a monoclonal mouse anti-Flag antibody (Sigma-Aldrich, Poole, United Kingdom), and bands detected with the enhanced chemiluminescence analysis system (Thermo Scientific, Woburn, MA, USA).

Coimmunoprecipitation
Transfected 293 T cells were lysed in EBC buffer at 48 h posttransfection. Lysates were centrifuged at 2440g for 20 min. Supernatant fractions were initially incubated with monoclonal mouse anti-Flag antibody for 1 h at 4 C with rocking, and subsequently with protein G Sepharose 4 Fast Flow (GE Healthcare, Waukesha, WI, USA) beads for 1 h at 4 C. Flag fusion protein and bead complexes were washed with EBC buffer 4 times. Samples were mixed with loading buffer and heated at 100 C for SDS-PAGE. Proteins were separated using SDS-PAGE, and immunoblotted with an anti-GST antibody.

Immunofluorescence
Transfected 293 T cells were fixed with 3.7% formaldehyde for 15 min, and permeabilized with phosphatebuffered saline (PBS) containing 0.2% Triton X-100 (PBST) for 10 min. Cells were blocked with PBST containing 1% bovine serum albumin for 30 min, incubated with anti-Flag antibodies for 1 h, and washed 3 times with PBST. Next, cells were incubated with rhodamineconjugated anti-mouse IgG antibodies for 1 h, washed 3 times with PBST, and analyzed using confocal microscopy (FV-1000; Olympus, Tokyo, Japan).
2.6. E1A pre-mRNA splicing assay COS-1 cells were cotransfected with 0.25 mg of pCS3-MT-E1A, 1.5 mg of pcDNA3-vIRF1 and 0.25 mg of pME18S-TASR1 or 2 using PolyExpress reagents. The total amount of DNA was adjusted with corresponding empty vectors. After 24 h, total RNA was extracted with TRIzol reagent and reverse-transcribed with oligo(dT) primers. Various E1a splice forms were amplified with these primers. The forward primer used was 5'-GAG CTT GGG CGA CCT CA-3' (RR67) and reverse primer was 5'-TCT AGA CAC AGG TGA TGT CG-3' (E1A2). PCR products were separated on a 1.5% agarose gel containing ethidium bromide and analyzed with gel documentation.

vIRF1 interacts with TASR1 and TASR2 in vivo
Having previously confirmed the association of vIRF1 and TASR1 using the yeast two-hybrid assay [14], we aimed to further ascertain whether TASR2 also interacts with vIRF1, since both isoforms contain identical Nterminal domains. To identify the in vivo interactions, 293 T cells were cotransfected with GST or GST-vIRF1, and Flag-TASR1 or Flag-TASR2 expression plasmids. At 48 h posttransfection, proteins were extracted from transfected cells, and GST and GST-vIRF1 precipitated with

10
S. Kim, et al glutathione sepharose 4B beads. Proteins were separated via SDS-PAGE and the western blot assay performed using an anti-Flag antibody. Both Flag-TASR1 and Flag-TASR2 coprecipitated with GST-vIRF1 ( Figure 1A, Lane 4, and Figure 1B, Lane 8), but not GST alone ( Figure 1A, Lane 3, Figure 1B, Lane 7). To verify the correct expression of GST, GST-vIRF1, Flag-TASR1, and Flag-TASR2 proteins, whole-cell lysates were immunoblotted using anti-GST and anti-Flag antibodies ( Figure 1A Lane 1, 2 and Figure 1B Lane 5, 6). In a reciprocal assay, cell lysates were incubated with anti-Flag antibody for 1 h, followed by protein G-Sepharose beads for 1 h. Precipitated proteins were separated by SDS-PAGE and immunoblotted using an anti-GST antibody. GST-vIRF1 was coprecipitated with Flag-TASR1 and Flag-TASR2 ( Figure 1C, Lane 4, and Figure 1D, Lane 8). To establish whether proteins were expressed correctly, western blot assay for total lysates was performed ( Figure 1C, Lanes 1, 2, and Figure 2C, Lanes 5, 6). Our results indicate that vIRF1 interacts with both TASR1 and TASR2 in mammalian cells.

vIRF1 colocalizes with TASR1 and TASR2
To confirm colocalization of vIRF1 with TASRs, we performed immunofluorescence assay. Green fluorescent protein (GFP)-vIRF1 proteins were predominantly expressed in the nucleus, while GFP was expressed in nucleus and cytoplasm. Flag-TASR1 and 2 were mostly localized in the nucleoplasm. 293 T cells were further cotransfected with GFP-vIRF1 and Flag-TASR1 or 2 expression plasmids, and the expression patterns analyzed using confocal microscopy. Notably, vIRF1 colocalized with TASR1 and 2 in the nucleus, particularly within the nucleoplasm region ( Figure 2).
3.3. vIRF1 has no effect on E1A mRNA splicing mediated by TASR1 and 2 TASR1 and 2 are known splicing factors. In view of the finding that TASR1 and 2 interact with vIRF1, we subsequently examined whether vIRF1 affects the splicing function of TASRs. The well-characterized E1A reporter gene is commonly employed for analysis of splicing. E1A pre-mRNA exists as five spliced isoforms ( Figure 3A). Cos-1 cells were transfected with various combinations of E1A reporter plasmids, TASRs, and vIRF1 ( Figure 3B

Discussion
KSHV proteins are significantly homologous to host cellular proteins, and may be essential to avoid host immune surveillance activated by viral infections [6]. In particular, vIRF1 (ORF9), which is homologous to cellular IRF, inhibits transcriptional processes regulated by types I and II IFN and the tumor suppressor, IRF1 [4,26]. Moreover, vIRF1 interacts with p53 and GRIM19, leading to the prevention of p53-dependent and GRIM19induced apoptosis, respectively. Based on these results, we assumed that vIRF1 affects the tumorigenicity of KSHV as a repressor of cell cycle regulation [12e14].
We identified that TASR1 interacts with vIRF1 using the yeast two-hybrid assay (data not shown). Both TASR1 and TASR2 displaying sequence homology to TASR1 interacted with vIRF1 in vivo (19). TASR1 and 2 colocalized with vIRF1 in the nucleus. TASRs, initially identified from a yeast two-hybrid assay for TLS, are recruited to TLS or EWS. In human myeloid leukemia and malignant liposarcoma, the TLS C-terminus is replaced with ERG or CHOP fusion protein, respectively. Thus, SR proteins cannot be recruited to TLS, and SR-mediated E1A pre-mRNA splicing is effectively prevented [20,21]. We assume that if vIRF1 inhibits the splicing function of TASRs, interactions between these proteins should affect tumorigenicity, since both vIRF1 and TASR1 can induce tumors. Accordingly, we aimed to establish whether interactions between vIRF1 and TASRs influence alternative splicing. An in vivo splicing assay was performed to clarify this issue. In contrast to our expectation, vIRF1 did not appear to alter the TASRmediated splicing site selection via inhibition of TASR function. In case of effects on splicing, vIRF1 should be able to regulate the host system at the posttranscriptional level. However, vIRF1-TASR interactions did not influence RNA processing.