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1 Institute for Virology, Johannes Gutenberg-Universität, Mainz, Germany
2 Institute for Zoology, Department of Cell and Matrix Biology, Johannes Gutenberg-Universität, Mainz, Germany
3 First Department of Internal Medicine, Johannes Gutenberg-Universität, Mainz, Germany
Correspondence
Bodo Plachter
plachter{at}uni-mainz.de
| ABSTRACT |
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Red-mediated homologous recombination. This method allowed the efficient and seamless insertion of the DNA sequence encoding IE1TMY in frame into the pp65 open reading frame (UL83) of the viral genome. RV-VM3 expressed its fusion protein to high levels. The fusion protein was packaged into DB and into virions. Its delivery into fibroblasts by these viral particles led to the loading of the MHC class I presentation pathway with IE1TMY and to efficient killing by specific CTLs. This demonstrated that a heterologous peptide, not naturally present in HCMV particles, can be processed from a recombinant, DB-derived protein to be subsequently presented by MHC class I. The results presented here provide a rationale for the optimization of a vaccine based on recombinant DB. Supplementary methods describing HCMV BAC recombineering using galK positive/negative selection are available with the online version of this paper.
| INTRODUCTION |
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DB are enveloped, subviral particles devoid of capsids and viral DNA. They are released from infected fibroblast cultures and enter cells presumably via the normal HCMV entry processes. The major constituent of DB is pp65 (ppUL83) (Varnum et al., 2004
), which is a prominent target of the CD4 and CD8 T-cell (CTL) responses following natural infection (Beninga et al., 1995
; McLaughlin-Taylor et al., 1994
; Wills et al., 1996
). Although pp65 by itself appears to be an attractive antigen for the design of a vaccine, other HCMV proteins may also be important and should thus be considered (Reddehase, 2002
). One of these, as far as the CTL response is concerned, is the regulatory immediate-early 1 protein (IE1) (Borysiewicz et al., 1988
; Bunde et al., 2005
; Kern et al., 1999
; Lacey et al., 2006
; Pahl-Seibert et al., 2005
; Simon et al., 2006
). However, IE1 is not contained in viral particles. Previously, we showed that a fusion protein consisting of pp65, green fluorescent protein and neomycin phosphotransferase was packaged into virions and DB during infection with an HCMV recombinant (Pepperl-Klindworth et al., 2003
). However, the efficacy of this approach was limited. More importantly, it remained unclear whether peptides from the recombinant protein were presented in an immunologically relevant way by DB-treated cells.
Here, we provide proof of principle that recombinant DB (recDB) can be designed to mediate the loading of heterologous antigenic peptides into the major histocompatibility complex (MHC) class I presentation pathway. As proof of principle, a DNA sequence encoding an immunodominant determinant of the IE1 protein (Gallez-Hawkins et al., 2003
) was inserted into the UL83 open reading frame (ORF) by using an HCMV bacterial artifical chromosome (BAC) clone. This was achieved by using
Red-mediated recombination in conjunction with positive/negative selection based on the bacterial galactokinase (galK) gene (Warming et al., 2005
), a method adopted here for the first time to modify a herpesviral genome. The resulting recombinant virus, RV-VM3, encoded a pp65 fusion protein that was expressed with similar kinetics to wild-type (wt) pp65. The fusion protein was packaged into recombinant virions and DB, and these particles were shown to be immunologically active in sensitizing target cells for CTL recognition.
| METHODS |
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US2–11 (Falk et al., 2002
US2–11 is deleted in the US2–US11 gene region and is based on RV-HB5. RVHd65 is deleted in the UL83 (pp65) gene region of Ad169-BAC, which is a US2–US6 positive revertant of RV-HB5 (Hobom et al., 2000
Plasmids.
For generation of the recombinant BAC construct, plasmids pgalK (Warming et al., 2005
) and pK65-1 were used. pK65-1 is a cloning vector based on pUC19 that contains nucleic acid sequences encoding the C-terminal part of pp65, the HLA-A2-presented peptide IE1TMY (IE1297–305) (Gallez-Hawkins et al., 2003
) and a c-myc epitope tag. To ensure efficient proteasomal processing, the minimal nonapeptide sequence was supplemented with additional amino acids flanking IE1TMY (TSDACMMTMYGGISLLSEFC). The IE1-derived peptide sequence corresponds to the respective sequence of the HCMV Ad169 genome described by Chee et al. (1990)
. The DNA sequence from pK65-1, inserted into UL83 of pHB5 by recombineering (recombination-mediated genetic engineering), was the following: 5'-ACTAGTGACGCTTGTATGATGACCATGTACGGGGGCATCTCTCTCTTAAGTGAGTTCTGTGAACAAAAACTCATCTCAGAAGAGGATCTGTG-3'.
BAC recombineering using galK positive/negative selection.
Modification of HCMV BACs was performed according to the procedure of Warming et al. (2005)
. The procedure used is detailed in the Supplementary Methods, available in JGV Online.
DB purification.
DB were purified from the supernatant of late stage-infected HFF by glycerol tartrate gradient ultracentrifugation as described by Irmiere & Gibson (1983)
.
Immunoblotting, immunofluorescence and antibodies.
SDS-PAGE, immunoblotting and immunofluorescence analyses were carried out as described previously (Schmolke et al., 1995
). mAbs directed against pp65 (65-33), against glycoprotein B (gB) (27-287; Utz et al., 1989
) and against IE1 (p63-27; Plachter et al., 1993
) (all kindly provided by W. Britt, University of Alabama, Birmingham, AL, USA), and against the c-myc epitope (9E10; Covance) were used for detection. For determination of viral infectivity, the number of IE1-positive cells (IE1p72 fluorescence) after infection was quantified as described by Andreoni et al. (1989)
.
Electron microscopy.
Six days after infection of 3x106 HFF with an m.o.i. of 2–3, cells were prefixed in a 2.5 % glutaraldehyde (Sigma-Aldrich), 0.1 M sucrose, 0.1 M cacodylate buffer (pH 7.3) (Roth) for 1 h at room temperature. After three washes for 10 min in 0.1 M cacodylate buffer, cells were post-fixed for 1 h in 1 ml 2 % OsO4, 0.1 M sucrose and 0.1 M cacodylate buffer, dehydrated in a graded series of increasing concentrations of ethanol, incubated twice for 10 min each in propylene oxide (Serva) and embedded in 1 : 1 propylene oxide : araldite resin (Plano) solution. Ultrathin sections were cut with a Leica Ultracut S microtome and were counterstained with 2 % aqueous uranyl acetate (Sigma-Aldrich). Sections were analysed in a FEI Tecnai 12 BioTwin transmission electron microscope (Philips) and imaged with an SCCD SIS MegaView III camera (Soft Imaging System).
Gamma interferon (IFN-
)-based ELISpot assay and cytotoxicity assay.
ELISpot assays and cytotoxicity assays were performed as described previously (Besold et al., 2007
; Frankenberg et al., 2002
). CTL lines specific for the HLA-A0201 (A2)-restricted HCMV-derived peptides pp65495–503 (pp65NLV-CTL) (Diamond et al., 1997
; Wills et al., 1996
) and IE1297–305 (IE1TMY-CTL) (Gallez-Hawkins et al., 2003
) were used in these analyses. The CTL lines had been generated by immunizing HLA-A2/huCD8 double-transgenic (tg) mice (Besold et al., 2007
).
| RESULTS |
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Red-mediated recombination and galK-mediated positive/negative BAC selection (Warming et al., 2005
For insertion of the IE1TMY–myc fusion peptide, a position close to the C terminus of pp65, adjacent to proline 548, was chosen. In a first step, the galK gene was amplified from pgalK and inserted into pHB5 by
Red-mediated recombination (Fig. 1a
). Correct insertion of galK in the resulting BAC-VM3-galK was verified by PCR amplification (data not shown), restriction-enzyme analysis and Southern blot hybridization (Fig. 1b, c
). In a second step, a PCR fragment was generated that encoded the IE1TMY–myc fusion peptide, flanked by 50 nt homologous to the UL83 ORF on each side of the insertion site of the galK gene. The fragment was recombined into BAC-VM3-galK (Fig. 1a
) to obtain BAC-VM3. Supplementation of minimal medium plates, containing glycerol as carbon source, with 2-deoxygalactose (DOG) enabled the selection of BAC clones defective for galK expression. Ten DOG-resistant colonies were picked and tested by colony PCR. PCR fragments of a length corresponding to a correct insertion of the IE1TMY–myc coding DNA were found in six of 10 clones tested. The correct insertion of the desired fragment was verified by restriction analysis, Southern blot hybridization (Fig. 1b, c
) and DNA sequencing (data not shown). Subsequently, DNA of BAC-VM3 was transfected into HFF and recombinant virus RV-VM3 was reconstituted for further analysis. This showed that the positive/negative selection based on a single selectable marker gene, namely galK, in combination with
Red-mediated recombination is an efficient method for rapid generation of seamless HCMV mutants.
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To test whether recDB were released from RV-VM3-infected fibroblasts, cell-culture supernatants were collected at 7 days p.i. and subjected to glycerol tartrate gradient ultracentrifugation. Gradients obtained from culture supernatants of RV-HB5-infected cells, used as a control, revealed the typical banding pattern of non-infectious enveloped particles, infectious virions and DB (Irmiere & Gibson, 1983
; Pepperl et al., 2000
) (Fig. 3c
). A similar pattern was observed with culture supernatant from RV-VM3-infected cells; however, lower numbers of DB were detected compared with RV-HB5. To analyse the packaging of the fusion protein, the virion and DB fractions were collected and subjected to immunoblotting analysis. The amount of protein loaded onto the polyacrylamide gel was determined with antibodies against pp65 (65-33) and against the myc tag (9E10) and was normalized with gB (mAb 27-287), which is contained in all three types of particle. Cells infected with RV-VM3 packaged the pp65–IE1TMY fusion protein into both virions and DB, with no significant difference from cells infected with the parental strain RV-HB5 (Fig. 3d
). Taken together, these results indicated that recDB were formed in and released by RV-VM3-infected cells and that the content of pp65–IE1TMY and pp65 in DB from RV-VM3 and RV-HB5, respectively, was comparable, relative to the amount of gB taken as standard.
Analysis of the subcellular localization of the pp65–IE1TMY fusion protein
To analyse whether the pp65–IE1TMY fusion protein expressed from RV-VM3 followed the same pattern of subcellular localization as wt pp65 at various stages of infection, immunofluorescence staining and subsequent laser-scanning microscopy were performed. After infection with the parental strain RV-HB5, pp65 was located mainly in the cell nucleus at 1 and 2 days p.i. Cytoplasmic staining became apparent at 3 days p.i. and increased at 4 and 5 days p.i. However, some pp65 still appeared to be retained in the nucleus at these late stages of infection (Fig. 4
). In RV-VM3-infected cells, the pp65–IE1TMY fusion protein was largely nuclear at 1 and 2 days p.i. The shift to the cytoplasm became visible at 3 and 4 days p.i. Surprisingly, in contrast to the wt situation, pp65 staining appeared to be completely cytoplasmic at 5 days p.i. Signal intensity was comparable for the two viruses at each time point tested. Cells infected with the pp65 deletion mutant RVHd65 (Besold et al., 2007
), used as a negative control, showed no specific staining. These experiments demonstrated that the kinetics of intracellular transport of the pp65–IE1TMY fusion protein in RV-VM3-infected cells resembled those of wt pp65. However, differences became evident in the extent to which pp65 or the pp65–IE1TMY fusion protein was exported from the nucleus at late stages of viral infection.
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To test this, cells were infected for 24 h with the HCMV strains RV-HB5 and RV-VM3 (Fig. 5a
). Cells were then subjected to IFN-
ELISpot analysis using pp65495–503-specific CTL (pp65NLV-CTL) and IE1297–305-specific CTL (IE1TMY-CTL) as responder cells (Besold et al., 2007
). As a control for the ability of the two CTL clones to respond to antigen presentation, cells were also infected with RV-
US2–11, a variant that lacks the genomic region encoding the HCMV immune-evasion proteins (Falk et al., 2002
).
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, but failed to stimulate IE1TMY-CTL. As immune-evasion proteins US2–US6 are deleted in RV-HB5, these data indicated that gpUS11, the only remaining immunoevasin, was sufficient to suppress IE1TMY presentation, but failed to suppress pp65NLV presentation. In contrast, infection of HFF with RV-VM3 resulted in the stimulation of IFN-
secretion from both IE1TMY-CTL and pp65NLV-CTL. Infection with the control virus RV-
US2–11 stimulated IFN-
secretion from both pp65NLV-CTL and IE1TMY-CTL. As RV-VM3 differed from RV-HB5 only in the expression of the pp65–IE1TMY fusion protein, a likely interpretation of these results is that the peptide presented on RV-VM3-infected cells was derived from the pp65–IE1TMY fusion protein and hence was delivered through the particle-entry process rather than from de novo-synthesized wt IE1 protein.
To prove that particle-derived proteins can serve as a source for IE1TMY peptide processing and presentation, DB were prepared from culture supernatants of RV-
US2–11-, RV-HB5- and RV-VM3-infected cells (DB-
US2–11, DB-HB5 and DB-VM3). The purified DB, although non-infectious by virtue of their morphogenesis, were UV-irradiated to reduce residual infectivity from contaminating infectious virions. They were then incubated with HFF for the stimulation of CTL in IFN-
ELISpot analyses. Using pp65NLV-CTL as responders, comparable spot numbers became apparent for DB-HB5, DB-
US2–11 and DB-VM3 (Fig. 5b
). This demonstrated that the pp65NLV peptide was processed from particle-associated fusion protein and presented by HLA-A2, comparable to its processing from wt pp65. Consequently, the introduction of IE1TMY as a second HLA-A2-presented, immunodominant peptide did not influence processing and presentation of pp65NLV. As expected from the absence of the IE1 protein in wt HCMV DB (Varnum et al., 2004
), HFF incubated with either DB-
US2–11 or DB-HB5 failed to stimulate IE1TMY-CTL in the ELISpot assay (Fig. 5b
). Furthermore, the complete failure of DB-
US2–11 to activate IE1TMY-CTL, in contrast to infection with the respective virus, demonstrated the efficiency of the removal of residual infectivity from the DB preparations by UV irradiation [compare Fig. 5(a) and (b)
]. Cells treated with DB-VM3 induced activation of IE1TMY-CTL significantly, indicating efficient presentation of the cognate peptide present in DB-VM3.
To corroborate these findings further with an independent type of assay, target cells prepared with DB-VM3 were tested for presentation of IE1TMY in a cytolysis assay, using IE1TMY-CTL as effector cells (Fig. 6
). Whilst pp65NLV-CTL, employed as a positive control, lysed DB-HB5 and DB-VM3 target cells with indistinguishable dose–response curves, IE1TMY-CTL only lysed target cells treated with DB-VM3. These results confirmed that processing of the pp65NLV peptide from the fusion protein was comparable with its processing from the authentic pp65. Importantly, the IE1TMY peptide was also processed successfully from the fusion protein to be presented by MHC class I.
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| DISCUSSION |
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DB can accommodate a heterologous polypeptide of 55 kDa, if this protein is expressed in fusion with pp65 (Pepperl-Klindworth et al., 2003
). However, packaging efficiency of the fusion protein was limited in this case. Here, we have extended these investigations to show (i) that a pp65 fusion protein containing an immunodominant peptide from IE1 is packaged into recDB in amounts comparable to wt pp65, (ii) that the IE1TMY peptide is presented efficiently on recDB-treated cells, implying its processing from the particle-associated fusion protein, and (iii) that this IE1 presentation does not interfere with the presentation of an immunodominant peptide from pp65, also presented by HLA-A2.
RV-VM3 was comparable to the parental strain, RV-HB5, with regard to replication kinetics. Levels of the fusion protein within cells and within purified viral particles also appeared to be unaltered compared with wt pp65, when normalized to gB. Consequently, the fusion protein was expressed with kinetics comparable to wt pp65 and was packaged efficiently into particles. Furthermore, like wt pp65 from RV-HB5, the fusion protein from RV-VM3 accumulated predominantly in the cytoplasm of late-stage RV-VM3-infected cells. However, the yield of DB that could be recovered by gradient centrifugation was reduced compared with the parental strain RV-HB5. By using indirect immunofluorescence analysis in combination with conventional microscopy, pp65 appeared to be concentrated in dot-like structures in the cytoplasm of RV-HB5-infected, but not RV-VM3-infected, cells (data not shown). It is unclear at this stage how these structures relate to the formation and release of DB. However, these results suggest that the efficiency of release of DB may be linked to the subcellular localization of pp65 and this needs to be investigated further.
Infection of HFF with RV-VM3, but not with the parental strain RV-HB5, led to the presentation of IE1TMY by MHC class I. One explanation for this difference could be that RV-VM3 and RV-HB5 are distinct in their capacity to express the IE1 gene. The viruses, however, differ only in the insertion made in pp65. As there is no evidence that pp65 interferes with IE1 gene expression (B. Plachter, unpublished), it is unlikely that the modification within the tegument protein results in alteration of immediate-early gene expression. Furthermore, RV-VM3 showed replication kinetics similar to those of its parental strain, also arguing against an impairment of IE gene expression, which would affect viral replication. A more reasonable explanation is that, after infection with RV-VM3, IE1TMY was processed from the particle-associated pp65–IE1TMY fusion protein, rather than from de novo-synthesized IE1. Presentation of IE1TMY was suppressed by immune evasion – presumably by gpUS11, the only remaining recognized function that downregulates MHC class I antigen presentation to be expressed – in pHB5-infected cells. It is very likely that gpUS11 also suppressed presentation of de novo-synthesized IE1 in RV-VM3-infected cells. The finding that incubation of HFF with non-infectious DB-VM3 also resulted in stimulation of IE1TMY-CTL confirmed this concept of exogenous introduction of IE1TMY by the fusion protein. Consequently, IE1TMY presentation appears to be restored in the face of immune evasion by introducing the peptide into cells as part of a structural component of viral particles.
The ELISpot reading after infection with the HCMV RV-VM3-infected sample was lower than that detected with the virus RV-
US2–11, used to control CTL reactivity. Direct comparison of the two viruses, and hence comparison of the efficiency of presentation, is complicated by the fact that RV-VM3 differs from RV-
US2–11 in both expression of gpUS11 and formation of the fusion protein. As emphasized above, presentation of peptides derived from the IE1 protein seems to be repressed by gpUS11 in RV-VM3-infected cells. Consequently, presentation of IE1TMY on these cells is the result of processing of particle-associated pp65–IE1TMY fusion protein. As there is no virus available that expresses the fusion protein, but lacks US2–US11, one can only speculate on the effect of immune evasion on processing and presentation of IE1TMY from the exogenous fusion protein and whether presentation would be enhanced if all evasion proteins were lacking. However, ELISpot numbers were also limited when non-infectious DB-VM3 were used for loading of the cells. No HCMV-induced suppression of MHC class I presentation is expected to occur in these cells. Quantitative comparison of IE1TMY presentation on infected and recDB-loaded cells is impossible in this experimental setup. However, there appears to be a factor limiting processing and/or presentation efficiency of IE1TMY from the exogenous fusion protein compared with the presentation of the peptide from de novo-synthesized IE1 in RV-
US2–11-infected cells.
A likely explanation could be that efficient de novo IE1 protein synthesis, driven by the HCMV major immediate-early promoter/enhancer, led to the formation of a large protein pool in infected cells. This may well have exceeded the amount of fusion protein that was introduced by viral particles and thus may have resulted in higher rates of processing and presentation of IE1TMY in RV-
US2–11-infected cells. Alternatively, differences in the proteasomal processing efficiency of the IE1-derived and fusion protein-derived IE1TMY peptide could have accounted for the differences in presentation. Although care was taken in the cloning strategy to provide amino acids flanking IE1TMY in IE1 to ensure proper proteasomal processing, differences in proteolysis of IE1 versus the fusion protein cannot currently be formally excluded.
Interestingly, cells infected with HCMV RV-VM3 or incubated with DB-VM3 presented both immunodominant CTL determinants, namely the pp65NLV peptide and the IE1TMY peptide, concurrently in the context of HLA-A2. This showed that peptides that are not usually present in virus particles could be included in recDB, to be presented efficiently by the same MHC class I molecule, and that introduction of IE1TMY did not influence processing or presentation of pp65NLV. Consequently, fusion of immunodominant peptides to pp65 for the generation of recDB may be a reasonable approach to vaccine development.
This study provides evidence that a heterologous peptide can be introduced into recDB by fusion to pp65. The IE1TMY peptide is presented by MHC class I after exposure of cells to these particles. However, for the outbred human population, more than one MHC class I-restricted peptide and, in addition, also MHC class II-restricted peptides from non-structural HCMV proteins may have to be included. IE1 appears to be a preferential target for both CD8 and CD4 T-cell responses in humans (Davignon et al., 1996
; Elkington et al., 2003
; Kern et al., 1999
; Khan et al., 2005
; Sylwester et al., 2005
). Consequently, fusion of IE1 to pp65 would potentially generate an excellent recDB-based vaccine candidate. Such a fusion protein, expressed by insect cells, was effective at stimulating the expansion of anti-HCMV CD4 and CD8 T-cell clones from HCMV-seropositive donors in vitro (Vaz-Santiago et al., 2001
). However, including the complete IE1 polypeptide for the design of a vaccine may be subject to safety concerns, as IE1 is known to activate both cellular and viral genes (Mocarski et al., 2007
). Consequently, it may be more reasonable to include only portions of the protein that are known to be essential targets of the CD8 and CD4 T-cell response.
Careful design of the fusion protein to be included in a recDB vaccine is mandatory. We have shown previously that sequences encoding up to 55 kDa can be added to UL83, maintaining assembly and release of DB (Pepperl-Klindworth et al., 2003
). As also seen in both this work and the present study, however, the size of the fusion partner and the location chosen for insertion in the primary structure of pp65 may be critical and limiting for the capacity to package the fusion protein. Current work is focusing on identifying an insertion site within pp65 that will allow packaging of larger fusion proteins with a higher efficiency in formation of recDB. One prerequisite for this is the ability to modify the HCMV genome in E. coli by using galK-mediated selection.
The development of BAC technology was a major breakthrough in the genetic analysis of cytomegaloviruses (Borst et al., 1999
; Messerle et al., 1997
). We have adopted galK-mediated positive/negative selection in combination with
Red-mediated recombination (Warming et al., 2005
) for seamless insertion of the TMY peptide into an HCMV BAC clone. galK can be used for both positive and negative selection. Any functionally critical mutation in galK will be suppressed during positive selection, thus reducing the level of background for the negative selection significantly. Furthermore, the use of galK enables seamless insertion of the heterologous sequence into pp65 without leaving operational traces. Thus, the combined features of galK-based recombineering facilitate systematic mutagenesis of the HCMV genome.
In conclusion, the galK-based selection procedure proved to be a versatile method to mutate the large HCMV genome. It may also be useful for the modification of other herpesviral genomes. The experiments presented here provide proof of principle that a heterologous MHC class I peptide antigen can be packaged into recDB and that this peptide can be introduced efficiently into the MHC class I presentation pathway. On the basis of this knowledge, recDB can be refined further in their antigen composition to establish a novel vaccine candidate.
| ACKNOWLEDGEMENTS |
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US2–11, to Neil Copeland for bacterial strain SW102 and for pgalK and to William Britt for mAbs. This work was supported by grants from the Deutsche Forschungsgemeinschaft (DFG) Research Training Program 1043 Antigen-Specific Immunotherapy (V. M., S. R., M. J. R. and B. P.), SFB 490, individual projects E7 (B. P. and K. B.) and E4 (D. S. and M. J. R.), DFG individual project Wo548-6 (U. W.) and by the Forschungsfonds 2006 of the University of Mainz (S. R.). Part of this work will be subject of the PhD thesis of V. M. | REFERENCES |
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Received 14 August 2007;
accepted 4 October 2007.
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