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1 CRUK Institute for Cancer Studies, University of Birmingham, Birmingham B15 2TT, UK
2 Department of Haematology, Heartlands Hospital, Birmingham B9 5SS, UK
Correspondence
David Onion
d.f.onion{at}bham.ac.uk
| ABSTRACT |
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| INTRODUCTION |
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Adoptive T-cell therapies for the treatment of Epstein–Barr virus (EBV) and cytomegalovirus (CMV) disease in immunocompromised patients are showing encouraging results in clinical trials (Burns & Crawford, 2004
; Einsele & Hebart, 2004
). The design of these therapies has been underpinned by a detailed knowledge of dominant antigens and epitopes recognized by virus-specific T cells (Bollard et al., 2004
). Whilst antiviral T-cell therapies focused initially on the delivery of virus-specific CD8+ T cells, there is increasing evidence of the importance of CD4+ T cells in the control of viral diseases (Gamadia et al., 2003
; Long et al., 2005
). Despite the interest in using adoptive T-cell therapy for Ad disease, there are no similar detailed studies characterizing Ad-specific cellular immunity. Murine models are limited because Ad infections are at best semi-permissive and consequently cellular immune responses are dominated by CD8+ cytotoxic T cells (CTLs) specific for early proteins (Mullbacher et al., 1989
; Rawle et al., 1991
). Most studies of human immunity in healthy volunteers have reported a predominant CD4+ response (Olive et al., 2001
; Sester et al., 2002
; Heemskerk et al., 2003
; Leen et al., 2004
; Tang et al., 2006
; Veltrop-Duits et al., 2006
) but the relative importance of CD8 and CD4 T cells in Ad disease remains unclear. A study of target antigens recognized by Ad-specific memory T cells without in vitro selection bias is lacking. However, eight HLA class I-restricted epitopes (Leen et al., 2004
; Tang et al., 2006
) and ten HLA class II-restricted epitopes have been identified (Olive et al., 2002
; Haveman et al., 2006
; Heemskerk et al., 2006
) through the use of T-cell lines or peptide screening. Importantly, Ad-specific T cells that recognize target epitopes within the hexon, the major coat protein, are often serotype and species cross-reactive (Olive et al., 2002
; Leen et al., 2004
; Veltrop-Duits et al., 2006
). The immunodominance of Ad antigens and epitopes remains to be defined.
Genetically modified human adenovirus serotype 5 (Ad5; species Human adenovirus C) is widely used in gene therapy clinical trial protocols (Young et al., 2006
) and is under development as a vector for vaccination (Vanniasinkam & Ertl, 2005
; Xing et al., 2005
). However, most trials using Ad vectors have not investigated vector-specific cellular immune responses, in part because Ad-specific cellular immunity has been relatively poorly defined. As a consequence, it is still not known whether pre-existing Ad5 cellular immunity reduces the efficacy of vectors. Recent trials of an Ad5-based human immunodeficiency virus vaccine have correlated lack of efficacy with high levels of pre-existing neutralizing antibodies (Kahn, 2003
); as yet, it is not known whether Ad-specific T cells also impair Ad5-based vaccine vectors by destroying transduced antigen-presenting cells (APCs) or whether vector-derived antigen might compete for antigenic dominance over transgene product(s). The identification and characterization of novel T-cell epitopes from Ad5 will provide tools to monitor trials and also predict the likely immunogenicity of newer vectors from a range of Ad serotypes.
Given the lack of information on the dominance of antigen recognized by Ad-specific T cells in the peripheral blood, we studied the T-cell response to two of the major antigenic components of the Ad5 capsid: the hexon and fiber proteins. We established that the hexon protein is the major target of CD4+ Ad-specific T cells. Using clonal analysis, these Ad5 hexon-specific T cells were shown to be serotype and species cross-reactive. Three HLA class II-restricted epitopes were identified and T cells recognizing these epitopes were shown to be cytotoxic. These results have wider implications for the use of adoptive T-cell therapy for the treatment of Ad infection and for the efficacy of Ad-based gene-delivery vectors.
| METHODS |
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(Sigma) ml–1 to the culture medium 3 days prior to use as APCs.
Virus and antigen.
Human Ad2 and Ad5 (species C), Ad3 (species B) and Ad4 (species E) were propagated in A549 cells until a cytopathic effect was observed. Cells were harvested and lysed by three freeze–thaw cycles before cellular debris was removed by centrifugation (800 g, 10 min). Infected cell lysates were used as antigen in subsequent assays and contained both viral protein and infectious virus (measured by plaque assay). Virus was also further purified from cell lysates by CsCl banding (Engler et al., 1999
). Infectivity was quantified by plaque assay and particle number measured using a DNA-binding PicoGreen assay (Molecular Probes) (Murakami & McCaman, 1999
). Excess Ad5 soluble antigen separated by CsCl banding was used as a rich source of hexon and fiber proteins. Proteins were purified as described previously (Haase et al., 1972
; Engler et al., 1999
) using a POROS 10 HQ ion-exchange perfusion chromatography column under the control of a BioCad Vision WorkStation (Perceptive Biosystems). Purity was confirmed by SDS-PAGE and Western blot analysis using antibody R1/99, a hyperimmune serum from a rabbit immunized with Ad5.
ELISPOT assays.
Unmodified or CD4- or CD8-depleted PBMC preparations were stimulated with A549 cell lysates produced from Ad5-infected or mock-infected cells (60 µg protein per 106 cells) for 1.5 h (37 °C, 5 % CO2). Cells were washed and plated in triplicate at 4x105 and 1x105 cells per well onto PVDF-backed 96-well plates (Millipore) pre-coated with 15 µg anti-IFN-
monoclonal antibody (mAb) (Mabtech) ml–1. Alternatively, unmodified PBMCs were plated as above and peptide (5 µg ml–1) or DMSO was added directly to the well. After overnight incubation (37 °C, 5 % CO2), spot-forming cells (s.f.c.)were detected as described previously (Leen et al., 2001
). Spots were counted using an automated ELISPOT reader (AID) and the results given as s.f.c. per 106 cells in the test wells, minus the background response to mock-infected lysate or DMSO as appropriate.
Intracellular IFN-
staining.
PBMCs (2x106) were incubated with Ad5-infected or mock-infected cell lysate (60 µg protein per 106 cells) or purified Ad5 hexon or fiber protein (5 µg per 106 cells) at 37 °C for 12 h. Brefeldin A (10 µg ml–1; Sigma) was added after the first hour of stimulation. Cells were washed with PBS and stained for 30 min on ice with anti-CD3, anti-CD4 and anti-CD8 antibodies (BD Pharmingen). Cells were then fixed and permeabilized using an Intraprep kit (Immunotech) according to the manufacturer's instructions. Cells were stained with anti-IFN-
antibody (BD Pharmingen). Samples were analysed on an Epics XL flow cytometer (Beckman Coulter).
Generation of polyclonal and clonal T-cell lines.
Freshly isolated PBMCs were stimulated with Ad5-infected A549 cell lysate (60 µg per 106 cells) by incubating them with antigen for 90 min before washing and plating at 106 cells ml–1 in 2 ml wells. Cells were fed twice weekly by a half medium change and from day 14 onwards cells were supplemented with 50 U recombinant human interleukin (IL)-2 (Chiron) ml–1. Cells were restimulated on day 14 by the addition of autologous PBMCs or LCLs that had been stimulated with Ad5 as above and subsequently
-irradiated (exposure to 40 Gy
-irradiation from a Cs137 source). The ratio of T cells to irradiated APCs was 5 : 1. On days 14 and 28, the T-cell lines were cloned by limiting dilution at 0.3 and 3 cells per well with allogeneic
-irradiated, phytohaemagglutinin-treated PBMCs (105 per well) in RPMI 1640 supplemented with IL-2 (200 U ml–1), 10 % FBS and 1 % human AB serum. After 2–3 weeks, growing microcultures were screened for Ad5 reactivity by IFN-
ELISA using Ad5-infected or mock-infected autologous LCLs as APCs. Selected clones were expanded in 2 ml wells using the same medium and feeder cells as described above for cloning.
ELISAs of IFN-
release and mAb blocking.
Cloned T cells were incubated in V-bottomed microtest plate wells with autologous, HLA-matched or HLA-mismatched LCLs or fibroblasts that were either unmanipulated or pre-pulsed for 2 h with 5 µg peptide ml–1 (or DMSO as a control) or infected with Ad (or mock infected) for 1.5 h and then washed. The supernatant medium harvested after 18 h was assayed for IFN-
by ELISA (Endogen) in accordance with the manufacturer's recommended protocol. In blocking assays, fibroblasts were pre-incubated with mAbs specific for HLA-DR (L243; ATCC clone HB-55), HLA-DQ (SPV-L3; Serotec), and HLA-DP (B7.21; kindly provided by Dr G. Taylor, University of Birmingham, UK), for 1 h before the addition of T cells to the assay.
Epitope prediction and synthetic peptide preparations.
The Ad5 hexon protein sequence (NCBI Entrez protein database accession no. P04133
[GenBank]
) was input into the online epitope prediction software SYFPEITHI (www.syfpeithi.de) (Rammensee et al., 1999
) to predict HLA-DRB1*0101-restricted 15mer epitopes. Epitope predictions were analysed to determine the conservation of epitope sequence among serotypes by comparison of hexon amino acid sequences predicted from nucleotide sequences of representative members of all six species of human Ad (Ad3, -4, -5, -12, -40 and -48) from the NCBI Entrez protein database. Twelve peptides scored 27 or higher by the SYFPEITHI criteria. Of these, nine were conserved throughout Ad species; any variation in sequence amongst these serotypes did not give rise to a significantly reduced score relative to that predicted for the Ad5 sequence as assessed by SYFPEITHI criteria. These nine epitope peptides and the previously identified DEP910 (Olive et al., 2002
) were synthesized by 9-fluorenylmethoxycarbonyl chemistry (Alta Bioscience), dissolved in DMSO and their concentrations determined by biuret assay. The position within the Ad5 hexon protein of the peptides synthesized is identified by the amino acid number of the N-terminal residue. Epitopes recognized by T cells were also given a three-letter code referring to the first three N-terminal residues.
Chromium-release assays.
CD4+ T-cell clones were tested for killing of target cells at defined effector : target ratios in 16 h chromium-release assays; the results were expressed as the percentage specific lysis of the target line. Targets were IFN-
-activated autologous fibroblasts pre-exposed for 2 h to 5 µg peptide ml–1 (or DMSO as a negative control) or pre-infected overnight with Ad2, -3, -4 or -5 (103 particles per cell or mock infected). Supernatants were sampled and
-emission quantified using a Packard Cobra gamma counter.
| RESULTS |
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ELISPOT assay. Fig. 1(a)
. Fig. 1(b)
staining are shown following antigenic stimulation with wild-type Ad5-infected cell lysate (Fig. 1c
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-irradiated autologous PBMCs or LCLs. These lines were then cloned by limiting dilution and the clones screened by IFN-
ELISA for their response to Ad5-infected autologous LCLs. Thirty-two out of 34 CD4+ T-cell clones isolated were capable of recognizing Ad5 hexon protein and recognized epitopes conserved amongst adenovirus of species B (Ad3), C (Ad2 and Ad5) and E (Ad4). Representative data from one such clone are illustrated in Fig. 2
release in these assays is influenced by a number of factors relating to the efficiency of infection and amount of antigen loaded and processed, and should not be taken as indicative of the T-cell clone's avidity for its target peptide–MHC complex.
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ELISA utilizing autologous, HLA class II-mismatched and partially mismatched fibroblasts as APCs in combination with HLA class II blocking antibodies (data not shown). SYFPEITHI epitope prediction software (Rammensee et al., 1999
in response to autologous IFN-
-activated fibroblasts loaded with individual peptides. Three different T-cell clones recognized three novel epitopes derived from the Ad5 hexon protein. The three peptides recognized were among the highest four predicted binding affinities for HLA DRB1*0101, confirming the accuracy of the predictions (Table 1
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release. Fig. 4
response. The avidity of these CD4+ T-cell clones was similar to EBV-specific CD4+ T cells restricted through the HLA DR1 allele (Khanna et al., 1995
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, CD4+ Ad-specific T cells have been shown previously to mediate lysis of antigen-loaded cells directly (Smith et al., 1996
-treated fibroblasts at low effector to target ratios in overnight killing assays.
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| DISCUSSION |
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In order to characterize further the dominant hexon-specific CD4+ T cells found in the peripheral blood of healthy individuals, we analysed cells cloned by limiting dilution from four donors. The majority of clones generated by stimulating PBMCs with virus-infected cell lysate were hexon specific and all recognized antigen conserved among the serotypes tested (Ad2, -3, -4 and -5). Seventeen out of 19 clones generated from donor 6 were shown to be hexon specific and these included clones specific for the HLA class II-restricted epitope DEP910 (Olive et al., 2002
).
The development of epitope-prediction algorithms has assisted the analysis of antigen recognition by T cells. Whilst most work has focused on the HLA class I alleles, there is now a growing body of evidence underpinning peptide-binding predictions for some of the common class II alleles. In this study, of nine epitopes predicted and synthesized, clones were identified recognizing three of the top four predictions for HLA DRB1*0101. Interestingly, one clone recognizing peptide QWS8 was restricted through the HLA DR16 allele, for which a peptide-binding consensus has yet to be defined. However, the QWS8 epitope was recognized by three HLA DR1+16– donors, suggesting that it is able to bind both alleles. T cells were able to recognize peptide-loaded targets with an avidity similar to other reported CD4+ T-cell clones (Khanna et al., 1995
; Long et al., 2005
), demonstrating that they are potentially important targets in an immune response to Ad. As well as secreting IFN-
, T cells recognizing the identified epitopes were able to kill target cells infected with virus or loaded with peptide. The role of cytotoxic CD4+ T cells in controlling Ad infection is unclear, as epithelial cells at the primary site of infection – the respiratory tract (for species C) – are unlikely to express HLA class II. Through studies of other human viruses such as CMV and EBV, it is becoming apparent that cytotoxic IFN-
-secreting CD4+ T cells do have an important role in controlling viral infection (Gamadia et al., 2003
; Long et al., 2005
; Adhikary et al., 2006
); whether cytotoxicity is critical for this role is still undetermined. In this study, Ad-specific CD8+ T cells were only detected at low frequency in concordance with previous reports (Leen et al., 2004
; Veltrop-Duits et al., 2006
); however, it is likely that, in an acute infection, Ad-specific CD8+ T cells expand and play an important role in virus clearance. In addition to cytotoxicity, the CD4+ T cells described in this study may play a role in licensing of dendritic cells to prime Ad-specific CD8+ CTLs (Bennett et al., 1998
; Ridge et al., 1998
; Schoenberger et al., 1998
) and/or maintenance of CD8+ T cells by secretion of TH1 cytokines (Janssen et al., 2003). The secretion of IFN-
by Ad-specific CD4+ T cells may also help to sensitize infected cells to lysis by CD8+ T cells by inducing upregulation of HLA class I expression. Indeed, exposure of Ad-infected fibroblasts to IFN-
has been shown to overcome the inhibitory effects of E3 gp19k on the class I presentation pathway and allow CD8+ T-cell-mediated lysis (Flomenberg et al., 1996).
The hexon protein is the most abundant protein in the capsid, and its tertiary and quaternary structure are critical for stable particle formation. Variability occurs in the loop domains of the hexon exposed on the surface of the capsid. The loops have more flexibility than other domains of the protein and so can tolerate greater variation in sequence and structure. Hexon subunits must fold correctly to form stable homotrimers and successfully interact with the other proteins of the capsid to allow viral particles to form. Structural and phylogenetic analysis of the hexon protein from all 51 human Ad serotypes have revealed three variable regions that can withstand mutation without adverse effects on the structure of the molecule (Rux et al., 2003
; Ebner et al., 2005
). Importantly, the three T-cell epitopes identified in this study, as well as the previously identified epitopes, lie within the conserved hexon core and none are in the variable regions. This has direct implications for the use of Ad as a gene-delivery vector; it is unlikely that any of these T-cell epitopes could be deliberately mutated in order to make a less immunogenic vector without seriously compromising the structure of the virus. Memory T-cell immunity induced by exposure to the more common species C viruses will effectively induce broad-spectrum T-cell immunity including immunity to Ad vectors based on less-prevalent human serotypes and possibly Ad from other host species, which are currently under development as gene delivery vectors (Vogels et al., 2003
; Stone et al., 2005
; Thirion et al., 2006
).
The identification of immunodominant proteins and mapping of T-cell epitopes is critical for the development of adoptive T-cell therapy for Ad disease in immunocompromised individuals. They not only provide reagents to monitor immune recovery but could also be used for selection and expansion of Ad-specific T cells for therapy. Furthermore, HLA DR1 is one of the few class II alleles where synthesis of HLA class II tetramers is possible, allowing isolation of high-purity CD4+ T cells for adoptive immunotherapy without antigenic stimulation (Scriba et al., 2005
).
| ACKNOWLEDGEMENTS |
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Received 22 January 2007;
accepted 8 May 2007.
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