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Journal of Virology, September 2001, p. 8649-8659, Vol. 75, No. 18
0022-538X/01/$04.00+0 DOI: 10.1128/JVI.75.18.8649-8659.2001
Copyright © 2001, American Society for Microbiology. All rights reserved.
Differential Immunogenicity of Epstein-Barr Virus
Latent-Cycle Proteins for Human CD4+ T-Helper 1 Responses
Ann
Leen,1
Pauline
Meij,2
Irina
Redchenko,1
Jaap
Middeldorp,2
Elisabeth
Bloemena,2
Alan
Rickinson,1,* and
Neil
Blake1
CRC Institute for Cancer Studies and MRC
Centre for Immune Regulation, Medical School, University of Birmingham,
Edgbaston, Birmingham B15 2TT, United Kingdom,1
and Department of Pathology, Academic Hospital Vrije
Universiteit, Amsterdam, The Netherlands2
Received 5 February 2001/Accepted 5 June 2001
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ABSTRACT |
Human CD4+ T-helper 1 cell responses to Epstein-Barr
virus (EBV) infection are likely to be important in the maintenance of virus-specific CD8+ memory and/or as antiviral effectors in
their own right. The present work has used overlapping peptides as
stimulators of gamma interferon release (i) to identify
CD4+ epitopes within four EBV latent-cycle proteins, i.e.,
the nuclear antigens EBNA1 and EBNA3C and the latent membrane proteins
LMP1 and LMP2, and (ii) to determine the frequency and magnitude of memory responses to these proteins in healthy virus carriers. Responses
to EBNA1 and EBNA3C epitopes were detected in the majority of donors,
and in the case of EBNA1, their antigen specificity was confirmed by in
vitro reactivation and cloning of CD4+ T cells using
protein-loaded dendritic cell stimulators. By contrast, responses to
LMP1 and LMP2 epitopes were seen much less frequently. EBV latent-cycle
proteins therefore display a marked hierarchy of immunodominance for
CD4+ T-helper 1 cells (EBNA1, EBNA3C
LMP1,
LMP2) which is different from that identified for the same proteins
with respect to CD8+-T-cell responses (EBNA3C > EBNA1 > LMP2
LMP1). Furthermore, the range of
CD4+ memory T-cell frequencies in peripheral blood of
healthy virus carriers was noticeably lower and narrower than the
corresponding range of latent antigen-specific CD8+-T-cell frequencies.
 |
INTRODUCTION |
Epstein-Barr virus (EBV), a
B-lymphotropic gammaherpesvirus widespread in human populations and
linked to a range of malignancies, has provided important insights into
the human CD8+-T-cell response to viral
infection. In particular, CD8+ T cells
recognizing EBV latent proteins have attracted interest because of
their potential use as effectors targeting virus-positive malignancies
(18, 38, 40). The virus encodes eight antigenically distinct latent-cycle proteins, the nuclear antigens EBNA1, -2, -3A,
-3B, -3C, and -LP and latent membrane proteins LMP1 and -2, all of
which are expressed in EBV-transformed B-lymphoblastoid cell lines
(LCLs). These proteins display a marked hierarchy of immunodominance
for the CD8+-T-cell response (38).
Epitopes derived from the EBNA3A, -3B, and -3C family of proteins tend
to induce the strongest responses across a range of different HLA class
I alleles. This is apparent both from functional studies on
LCL-reactivated T-cell lines in vitro and from ELISPOT assays of
peptide-induced gamma interferon (IFN-
) release on fresh peripheral
blood mononuclear cells (PBMCs) (21, 33, 46). Responses to
EBNA1-derived epitopes are seen in fewer donors, but, in the context of
particular HLA class I alleles, EBNA1-specific
CD8+-T-cell numbers in memory can reach the same
high levels as for EBNA3-derived epitopes (5). Of the
other latent proteins, LMP2 has been identified as a source of epitopes
for several HLA class I alleles, but the numbers of reactive T cells
are always low, whereas responses to EBNA2, EBNA-LP, and LMP1 are rare
(21, 22, 23, 26, 33). The basis of these differences in
immunogenicity is still not understood. However, they may reflect the
differential access of individual latent-cycle proteins to the HLA
class I presentation pathway either in virus-infected B cells
themselves or in the dendritic cells (DCs), which are thought to be
involved in priming T-cell responses in vivo through their capacity to acquire viral proteins exogenously and present them to the
CD8+ repertoire (2). This latter
cross-priming pathway appears to be important at least in the case of
the EBNA1-specific CD8+ response
(5), since in infected cells the endogenously expressed EBNA1 protein is protected from HLA class I presentation by virtue of
its internal glycine-alanine repeat (GAr) domain (28).
Much less is known about CD4+-T-cell responses to
EBV latent antigens (24, 25), although by analogy with
murine models such cells may well be needed to maintain the functional
competence of CD8+ T cells specific for the virus
(8), as well as possibly serving as antiviral effectors in
their own right (34). In this context, the polyclonal
LCL-stimulated T-cell preparations used to treat EBV-positive
lymphoproliferative lesions of immunosuppressed patients contain
CD4+ as well as CD8+
components, and both components may be necessary for the clinical effectiveness of this adoptive T-cell therapy (18, 40). It is therefore important to determine which latent antigens elicit CD4+ responses and what is the frequency of such
T cells in the memory pool. Recently Munz and colleagues
(32) have approached this question by stimulating the
CD4+ T cells of virus-immune donors with
autologous DCs expressing individual EBV latent proteins from
recombinant vaccinia virus vectors and then assessing the resultant
T-cell population for evidence of antigen specificity using either
blastogenesis or IFN-
production as a readout. It appeared that
particular proteins, especially EBNA1 and also LMP1, were frequently
capable of inducing specific responses; this result was of particular
interest not just because of the contrast with the
CD8+ response but also because EBNA1 and LMP1,
along with LMP2, constitute a subset of latent proteins that are
selectively expressed in EBV-positive tumors such as Hodgkin's disease
and nasopharyngeal carcinoma (NPC) (37). However, the work
of Munz et al. (32) was based on a limited number of
individuals, and none of the apparently antigen-specific reactivities
were confirmed at the peptide epitope level. Here we have addressed the
question in a different way by screening the CD4+
T cells of immune donors with peptide pools from latent-cycle proteins
and using rapid IFN-
release as the readout. In this initial study
we have concentrated on four of the eight latent-cycle proteins,
namely, EBNA1, the two latent membrane proteins LMP1 and LMP2, and one
of the immunodominant CD8+ target antigens, EBNA3C.
 |
MATERIALS AND METHODS |
Donors and cells.
Whole blood was obtained from healthy
laboratory personnel, and buffy coats were obtained from blood
donations to the Birmingham Blood Transfusion Service. EBV status was
determined by serological staining for immunoglobulin G antibodies for
viral capsid antigen, and all donors were HLA class II typed at the
HLA-DR and -DQ loci using PCR-based DNA typing. PBMCs were isolated by
Lymphoprep (Nycomed Pharma, Oslo, Norway) density-grade centrifugation
and were either used fresh or cryopreserved until required. PBMCs to be
used as responder populations in ELISPOT assays were routinely depleted
of CD8+ T cells using Dynabeads M450-CD8 (DYNAL
United Kingdom Ltd.) according to the manufacturer's instructions.
Efficient depletion was confirmed by staining CD8-depleted PBMCs using
a dual-staining fluorescein isothiocyanate-conjugated anti-CD8 and
phycoerythrin-conjugated anti-CD4 antibody (Serotec, Oxford,
United Kingdom) followed by flow cytometric analysis on a Coulter EPICS
XL cytometer; depletion of >95% of the CD8+
cells was consistently achieved. In some cases aliquots of PBMCs were
used to establish EBV-transformed LCLs using the B95.8 virus strain,
and LCLs were maintained in RPMI 1640 containing 2 mM glutamine, 10%
(vol/vol) fetal calf serum, 100 IU of penicillin per ml, and 100 µg
of streptomycin per ml (growth medium).
Synthetic peptides and baculovirus-expressed protein.
Peptides were synthesized by standard fluorenyl-methoxycarbonyl
chemistry (Alta Bioscience, University of Birmingham, Birmingham, United Kingdom) and dissolved in dimethyl sulfoxide, and their concentration was determined by biuret assay. Full-length EBNA1 protein
(bEBNA1) was prepared using the baculovirus expression system as
previously described (14) and was a kind gift from Lori
Frappier (University of Toronto, Toronto, Canada). Human papillomavirus
protein E4 (bE4), prepared using the baculovirus expression system
(39) and used as a control, was a kind gift from Sally
Roberts (University of Birmingham).
ELISPOT assay for detection of IFN-
release.
Ninety-six-well polyvinylidene difluoride-backed plates (Millipore,
Bedford, Mass.) were precoated with a 15-µg/ml concentration of an
anti-IFN-
monoclonal antibody (MAb), 1-DIK (MABTECH, Stockholm, Sweden). CD8-depleted PBMCs were added to duplicate wells at known cell
numbers in the presence of single or pooled peptides at a final
concentration of 2 µM for each peptide. The plates were incubated
overnight at 37°C in 5%
CO2. The cells were discarded the following day,
and a biotinylated anti-IFN-
MAb, 7-B6-1 (MABTECH), was added at 1 µg/ml and left for 2 to 4 h at room temperature, followed by
streptavidin-conjugated alkaline phosphatase (MABTECH) for an
additional 2 h. Individual cytokine-producing cells were detected
as dark spots after a 30-min reaction with
5-bromo-4-chloro-3-indolylphosphate and nitroblue tetrazolium using an
alkaline phosphatase-conjugated substrate kit (Bio-Rad, Richmond,
Calif.). The spots were counted under a dissection microscope. In all
experiments, results from ELISPOT assays are expressed as spot-forming
cells (SFC) per 106 CD8-depleted PBMCs.
Reactivations of CD4+ T cells.
To provide an
antigen-presenting cell population, DCs were first prepared by seeding
PBMCs onto six-well plates (Costar, Cambridge, Mass) at
107 cells/well. After 2 h at 37°C,
nonadherent cells were removed and the adherent population was cultured
in growth medium supplemented with 50 ng of granulocyte-macrophage
colony-stimulating factor (GM-CSF) per ml and 1,000 U of interleukin-4
(IL-4) per ml. The cultures were refed on days 2 and 4 by replacing
half of the medium with fresh medium as described above. On day 6 or 7 the cells were harvested by gentle pipetting action, resuspended in 500 µl of AIM-V serum-free medium (Life Technologies, Paisley,
United Kingdom) containing full-length EBNA1 protein (bEBNA1) at 5 µg/ml, and incubated for 14 h at 37°C. Cells were then washed
twice with RPMI 1640 (with no supplements) and resuspended in growth
medium containing GM-CSF and IL-4 as described above but also
supplemented with tumor necrosis factor alpha (50 ng/ml) as a
maturation stimulus. Cells were cultured for a further 24 h before
being seeded as stimulators at 105 cells/2-ml
well in growth medium supplemented with IL-7 at 5 ng/ml. Responder
PBMCs were added at 2 × 106 cells/well to
give a responder/stimulator ratio of 20:1. Cultures were fed twice
weekly as described above, restimulated on days 7 and 21 with DCs
pulsed with EBNA1 protein as described above, and from day 7 fed with
growth medium supplemented with IL-7 (5 ng/ml) and IL-2 (20 U/ml).
Aliquots of the bulk responder population were screened for EBNA1
specificity in proliferation assays carried out from day 12 onwards. On
day 24, the bulk responder population was seeded at limiting dilutions
of 3 and 0.3 cells/round-bottomed microtest plate well using irradiated
(4,000 rads) autologous LCL stimulators prepulsed for 1 h with
peptide at 20 µg/ml, and the cultures were maintained in
IL-2-conditioned medium as described previously (45)
Proliferation assay.
LCL stimulator cells were either pulsed
with peptide as described above or pulsed overnight with full-length
EBNA1 protein (bEBNA1) at 5 µg/ml in AIM-V serum-free medium. The LCL
was then washed once in RPMI plus L-glutamine, resuspended
in 5 ml of RPMI plus 8% fetal calf serum, and gamma irradiated as
described above. The peptide- or protein-pulsed LCLs were washed and
added to the responder T cells at a ratio of 1:1 in 96-well
round-bottomed plates and then incubated at
37°C in 5% CO2 for
96 h; all cocultures were set up in triplicate. Wells were pulsed
with 1 µCi of [3H]thymidine (Amersham
Pharmacia Biotech) for the last 12 to 16 h of incubation and then
harvested using a micro cell harvester (Skatron, Lier, Norway)
and counted in a Betaplate 1205. MAb blocking assays were conducted
using the HLA-DR-specific MAb L243 (19) at a final
concentration of 5 µg/ml and an isotype-matched control MAb at the
same concentration.
Identification of resident EBV strains.
Some donors were
analyzed to determine the identities of the EBNA1 and LMP1 alleles in
their resident EBV strains by direct PCR amplification and sequencing
of viral DNA from PBMCs (6). EBNA1 sequences were
determined over the polymorphic region from codon 460 to 510 using
published primers (16), and LMP1 sequences were determined
over the polymorphic region from codon 318 to 386, again using
published primers (20).
 |
RESULTS |
Mapping of CD4+-T-cell responses to EBNA1
peptides.
Using the ELISPOT assay of rapid peptide-induced IFN-
release, we first undertook a series of experiments to map
CD4+-T-cell epitopes within the EBNA1 protein.
CD8-depleted PBMC preparations were screened using a panel of peptides
(20-mers overlapping by 15 amino acids [aa]) covering the
409-aa unique sequence of the EBNA1 protein (B95.8 strain) plus three
overlapping 20-mers representing repeat sequences within the internal
232-residue GAr domain. To minimize the size of the initial screening
assays, we used 27 pools each containing three adjacent peptides from
the EBNA1 sequence, an approach already established as a means of
identifying CD8+-T-cell epitopes within the
protein (5). Detailed results of the initial assays from
three representative donors are shown in Fig.
1. Donor 1 (Fig. 1, top panel) showed
significant reactivity above background to four EBNA1 peptide
pools (no. 5, 16, 17, and 19), whereas donors 2 (middle panel) and 3 (bottom panel) each responded to three pools (no. 16, 17, and 19 and
16, 17, and 22, respectively). All of these responses were consistently
observed on rescreening, whereas the weak additional response to pool
18 originally seen in donor 3 did not prove to be reproducible (data not shown).

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FIG. 1.
Identification of CD4+-T-cell epitopes
within EBNA1 using the ELISPOT assay of peptide-induced IFN-
release. CD8-depleted PBMCs from donors 1 (top panel), 2 (middle
panel), and 3 (bottom panel) were screened using a panel of peptides
(20-mers overlapping by 15 aa) spanning the unique sequence of the
B95.8 strain EBNA1 protein. The 20-mer peptides were tested in pools of
three, generating 26 pools; three additional peptides were used to
represent the internal GAr domain of EBNA1 (pool 27). PBMCs were used
at 2 × 105 cells per well, and results are expressed
as spot-forming cells (SFC) per 106 CD8-depleted PBMCs. The
background observed when no peptide was added is shown (No pep).
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To check that reactivities to peptide pools did indeed reflect
responses to unique epitopes, each of these donors was then
assayed
against the individual 20-mers from the relevant pools
and against
shorter peptides from these same regions. Examples
of such mapping are
shown in Fig.
2. The response of donor 1 to
pool 5 (Fig.
2A) mapped to two overlapping peptides (aa 66 to
85 and
aa 71 to 90) and could subsequently be minimized to a 15-mer
epitope,
EBNA1 aa 71 to 85,
RRPQKRPSCIGCKGT (designated
RRP).
Likewise, as shown in Fig.
2B, this same donor's response to two
of the original pools, 16 and 17, reflected recognition of one
peptide
within pool 16 (aa 469 to 488) and of an overlapping peptide
within
pool 17 (aa 474 to 493) and could subsequently be minimized
to a 15-mer
epitope, EBNA1 aa 475 to 489,
NPKFENIAEGLRALL
(designated
NPK). Similarly, the responses seen both in donor 2 and in donor
3 to pools 16 and 17 also mapped to the NPK epitope (aa
475 to
489) (data not shown). In addition, the response of donor 2 to
pool 19 (Fig.
2C) minimized to a 14-mer peptide from aa 515 to
528,
TSLYNLRRGTALAI (designated TSL), which has
already been identified
as a DR1-restricted EBNA1 epitope
(
24), whereas the response
of donor 3 to pool 22 (Fig.
2D)
mapped to the 15-mer epitope from
aa 563 to 577,
MVFLQTHIFAEVLKD (designated MVF). It is worth noting
that the magnitude of the responses to CD4 epitopes within EBNA1
ranges from a minimum of 60 IFN-

-producing cells (donor 3, MVF
epitope) to a maximum of 350 IFN-

-producing cells (donor 2, TSL
epitope) per 10
6 CD8-depleted PBMCs. All
subsequent responses to EBNA1 epitopes
seen in other donors (see below)
fell within this range.

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FIG. 2.
ELISPOT mapping of the minimal EBNA1
CD4+-T-cell epitopes from donors 1, 2, and 3, using
individual 20-mer peptides from the original pool(s) plus 15-mers for
the relevant epitope region. (A) CD8-depleted PBMCs from donor 1 tested
with pool 5 peptides. (B) CD8-depleted PBMCs from donor 1 tested with
pool 16 and pool 17 peptides. (C) CD8-depleted PBMCs from donor 2 tested with pool 19 peptides. (D) CD8-depleted PBMCs from donor 3 tested with pool 22 peptides. All results are expressed as in Fig. 1.
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EBNA1 antigen specificity of mapped responses.
To determine
whether these ELISPOT responses to synthetic peptides represented
authentic components of EBNA1-specific memory, we attempted to
reactivate the relevant responses by stimulating PBMCs with autologous
DCs preloaded with purified EBNA1 protein. Immature DC preparations,
produced by culturing adherent PBMCs in the presence of GM-CSF and
IL-4 for 6 days, were incubated overnight with
baculovirus-expressed EBNA1 protein and subsequently matured by
treatment with tumor necrosis factor alpha for 24 h. Fresh PBMCs
were then cocultured with these stimulator cells and restimulated on
two further occasions before limiting-dilution cloning. For each of the
three donors tested, screening of the derived T-cell clones in
proliferation assays identified a number which were specific for one of
the predicted epitope peptides (NPK, TSL, or MVF) and which were
subsequently shown to recognize stimulator cells preexposed to the
EBNA1 protein. Staining with CD4 and CD8 MAbs confirmed that each of
these cloned populations was >90% CD4 positive and was uniformly CD8 negative.
Figure
3 shows examples of proliferation
assays confirming the specificity and HLA class II restriction of such
clones. Clone
63 from donor 3 (Fig.
3A, upper panel) specifically
responded
to autologous LCL cells preloaded either with EBNA1 protein
or
with the EBNA1 peptide MVF (aa 563 to 577) but did not respond
to
the same LCL cells used either alone or preloaded with an irrelevant
baculovirus expressed protein, human papillomavirus E4.
Epitope-specific
proliferation was inhibited in the presence of an
HLA-DR-specific
MAb, L243. To identify the restriction element for
donor 3 clone
63, proliferation assays were carried out using the
autologous
or HLA-matched LCL stimulators either alone or pulsed with
the
MVF epitope peptide. As shown in Fig.
3A (lower panel),
epitope-specific
proliferation was observed only using HLA DR15-matched
LCL stimulators,
indicating restriction through this allele. Figure
3B
shows parallel
data from another representative clone, donor 1 clone14,
in this
case specific for the NPK epitope (EBNA1 aa 475 to 489). Again
the clone was capable of recognizing the autologous LCL either
preloaded with EBNA1 protein or pulsed with the NPK epitope peptide.
Recognition was again blocked by the anti-DR MAb, and assays on
peptide-loaded HLA-matched LCL stimulators identified HLA DR11
as the
restriction element. In the same way, HLA-DR1-restricted
CD4
+-T-cell clones were isolated from donor 2 and
shown to be specific
for the previously identified TSL epitope;
interestingly, some
of the TSL-specific clones showed cytolytic as well
as proliferative
responses to epitope-loaded target cells, whereas
clones reactive
to the MVF and NPK epitopes displayed proliferative but
not cytolytic
function (data not shown).

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FIG. 3.
In vitro reactivation and HLA restriction of
EBNA1-specific CD4+-T-cell clones from donor 3 (A) and
donor 1 (B) generated by PBMC stimulation in vitro with DCs loaded with
EBNA1 protein. The upper panels represent proliferation assays using
donor 3 clone 63 specific for EBNA1 epitope MVF (aa 563 to 577) (A) and
donor 1 clone 14 specific for EBNA1 epitope NPK (aa 475 to 489) (B).
T-cell clones were cultured either alone (T), with the gamma-irradiated
autologous LCL (T + -LCL), or with the -LCL loaded with either
EBNA1 protein (bEBNA1), control human papillomavirus protein (bE4), or
specific epitope peptide (pep). In both cases peptide-induced
proliferation was blocked by addition of an anti-DR MAb, L243 ( DR).
nt, not tested. In the lower panels, the T-cell clones were
tested in proliferation assays against gamma-irradiated autologous
(auto) or HLA-matched LCL targets (T + -LCL) or with the LCL targets
pulsed with specific epitope peptide (+ pep). All results are expressed
as the incorporation of [3H]thymidine and are the means
and standard deviations of triplicate values.
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Having thus validated the ELISPOT screening as a means of identifying
authentic CD4
+-T-cell memory, we extended the
screening to a wider panel of
donors. Of 26 EBV-seropositive donors
tested in this way, positive
responses to one or more peptide pools
were observed in 19 individuals.
In each of these cases, the responses
could be mapped to an individual
20-mer or 15-mer epitope. Overall,
this allowed 15 individual
CD4
+ epitopes to be
identified within the EBNA1 protein sequence.
The epitopes are listed
in Table
1 along with either their known
HLA class II restricting alleles (from functional analysis of
clones) or potential restricting alleles from HLA-DR and -DQ typing
data (see Table
1, footnote
b). Note that we never observed
responses
to peptide epitopes from the GAr domain of EBNA1. In fact,
all
but one of the identified epitopes lay within what appears to
be an
immunodominant 210-aa C-terminal region of the protein (aa
403 to 613);
four of the epitopes within this region (aa 485 to
499, 475 to 489, 515 to 528, and 529 to 543) reflected common
responses recognized by five
or more donors. As a control in these
screening assays, we also studied
five EBV-seronegative individuals
and found no significant response to
any of the EBNA1 peptide
pools.
Responses to variant EBNA1 epitope peptides.
It is known that
a significant fraction of healthy Caucasian donors carry an EBV strain
with an EBNA1 allele distinct from that present in the prototype B95.8
strain. This allele carries 13 amino acid changes vis-à-vis B95.8
and is referred to as the Q/T variant on the basis of signature changes
at positions 16 and 487 (16). We therefore extended the
peptide screen to include 22 variant peptides incorporating all of the
potentially new epitope sequences within Q/T EBNA1. All seven
EBV-seropositive donors who had given no response to B95.8 peptide
pools were tested in this way, as were four seronegative donors as
controls. The latter again gave uniformly negative results, while
responses to two or more Q/T sequence peptides were detected from three
of the seropositive donors, identifying a total of three variant
sequence-specific epitopes (Table 1). Sequencing of the resident EBV
strains from PBMCs of these donors confirmed the presence of a Q/T
EBNA1 allele (data not shown). The results from one such responder,
donor 4, are shown in Fig. 4. This donor
reproducibly gave no significant responses in a screen using B95.8
peptide pools (Fig. 4, upper panel) but showed a clear response to two
of the variant peptides, aa 514 to 533 and 589 to 608 (Fig. 4, lower
panel). The peptide from aa 514 to 533 was in fact recognized by all
three responders identified in the screening assays with Q/T sequence
peptides. Interestingly, this peptide contains the variant version of
the DR1-restricted TSL epitope, and all three responders proved to be
DR1 positive and to recognize the minimized variant version of the TSL
epitope sequence from aa 515 to 527. By contrast the sequence from aa
589 to 608 (Fig. 4) and the other variant peptide sequence identified
(aa 424 to 443) appear to represent Q/T EBNA1-specific epitopes, since
responses to the equivalent sequences had not been observed in the
original B95.8 peptide assays.

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FIG. 4.
Identification of CD4+-T-cell epitopes in
the Q/T EBNA1 variant by peptide-induced IFN- release. CD8-depleted
PBMCs from donor 4 were screened in an ELISPOT assay against B95.8
EBNA1 peptides, using 20-mers overlapping by 15 aa, as pools of three
as for Fig. 1 (upper panel) or against 22 individual peptides
incorporating all of the potential new epitopes within the Q/T variant
EBNA1 protein (lower panel). Results are expressed as in Fig. 1.
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We noted that 10 of the 15 EBNA1 epitopes already identified using
B95.8 sequence peptides (epitopes RPF, VPP, NPK, LRA, VYG,
TSL, NLR,
LRE, MVF, and VLK in Table
1) were altered at one or
two amino acid
residues in the Q/T EBNA1 sequence. All EBV-seropositive
donors who had
responded to B95.8 peptides in the original assays
were therefore
retested against the entire panel of Q/T variant
peptides, including
the variant versions of the original B95.8
epitopes to which they had
responded initially. Interestingly,
we noted cross-reactive responses
in every case, indicating that
despite small sequence variations many
CD4
+-T-cell epitopes in EBNA1 were antigenically
conserved between
the two EBNA1 alleles. This second screen did not
reveal any responses
to additional Q/T-specific epitopes (data not
shown).
Identification of EBNA3C-derived CD4+-T-cell
epitopes.
Using the same ELISPOT screening approach as for EBNA1,
we proceeded to analyze the CD4+-T-cell response
to the B95.8 strain EBNA3C protein, which is known to be a dominant
target of the CD8+ response. Synthetic peptides
representing the entire 992 aa of the EBNA3C protein were available as
15-mer peptides overlapping by 10 aa. From the 18 virus-positive
healthy donors screened, we observed IFN-
secretion induced by
specific EBNA3C peptide pools in 13 donors. Each of these responses
again mapped to an individual 15-mer within the pool, and in that way a
total of 10 epitopes were identified. These data are summarized in
Table 2, showing a list of epitopes along
with their potential restriction elements (from HLA-DR and -DQ typing
results). Again, some of the EBNA3C epitopes were recognized by several
donors. In particular, six donors, all sharing the DR1 allele,
responded to the sequence SDDELPYIDPNMEPV
(designated SDD; aa 386 to 400), and three donors, all sharing
the DR4 allele, responded to the sequence
PSMPFASDYSQGAFT (designated PSM; aa 916 to 930).
Again, some peptides (for example, aa 961 to 986) were recognized by
multiple donors without a common DR or DQ restriction element. The
magnitude of these EBNA3C epitope-specific responses (70 to 200 SFC per
106 CD8-depleted PBMCs) was within the range seen
in the EBNA1 epitope screen.
Identification of LMP1- and LMP2-derived CD4+-T-cell
epitopes.
We then extended the screening using both 20-mer
(overlapping by 15 aa) and 15-mer (overlapping by 10 aa) peptide pools,
covering both the LMP1 and LMP2 sequences. A much lower frequency of
positive responses was observed in such assays. In total, only 5 of 53 seropositive donors were found to respond to LMP1 peptides, identifying three epitopes in all. Likewise, only 7 of 45 seropositive donors were
found to respond to LMP2 peptides, and only four epitopes were
identified. Table 3 presents these
epitope sequences as either 20-mers or 15-mers. Any one individual only
ever responded to a single epitope in either protein, but where
positive responses were observed, their magnitude (40 to 204 and 58 to
238 SFC per 106 CD8-depleted PBMCs, respectively)
generally lay within the broad range seen in the EBNA1 or EBNA3C
peptide screening assays. In many cases where donors lacked detectable
LMP1- or LMP2-specific reactivity, assays conducted at the same time
with EBNA1 peptides as a positive control confirmed the presence of
EBNA1-specific responses in the same PBMC preparation.
 |
DISCUSSION |
The present study of CD4+-T-cell responses
to EBV latent-cycle antigens was motivated by the presumed role of
CD4+ T-helper 1 cells (conventionally assessed by
IFN-
production) in the maintenance of
CD8+-T-cell immunity in vivo and possibly also as
direct antiviral effectors in their own right (8, 34, 40,
49). We were particularly interested in the relative
immunogenicities of the different latent-cycle proteins for the
CD4+ response, since these proteins show a marked
hierarchy of immunodominance for CD8+ T cells,
which can be summarized as EBNA3A, -3B, -3C > EBNA1 > LMP2
EBNA2, EBNA-LP, LMP1 (38). An earlier study, using CD4+ blastogenesis and IFN-
production in
response to antigen-expressing DCs as an assay of responsiveness, had
suggested that both EBNA1 and LMP1 were strong inducers of
CD4+-T-cell immunity, with generally weak
responses to the EBNA3 proteins and to LMP2 (32). The
present work approached the same question using synthetic overlapping
peptides spanning the sequences of EBNA1, EBNA3C, LMP1, and LMP2 as the
stimulus and IFN-
production as the readout. The overall results,
summarized in Table 4, clearly show that
EBNA1- and EBNA3C-specific responses are detectable in the majority of
healthy EBV-seropositive individuals, whereas responses to LMP1 and
LMP2 are much rarer.
The first set of experiments using peptide pools of the B95.8 strain
EBNA1 sequence (Fig. 1 and 2) detected responses in 19 of 26 individuals and led to the identification of 15 CD4+-T-cell epitopes (Table 1). We believe that
these responses from ELISPOT assays do indeed represent authentic
EBV-specific immunity, since (i) EBV-seronegative donors did not show
any significant responses in the screening assays, and (ii) in three
immune donors studied in detail, HLA class II-restricted
CD4+-T-cell clones with the predicted epitope
specificity could be generated by stimulating their PBMCs in vitro with
purified EBNA1 protein, and the derived clones also recognized
autologous antigen-presenting cells preexposed to EBNA1 protein (Fig.
3). Interestingly all three epitopes identified by clonal analysis
proved to be HLA-DR restricted, as have a number of other reported
CD4+-T-cell clones against EBV antigens
(24, 32, 35, 47). However, not all donors in our panel who
responded to the DR11-restricted NPK epitope or to the previously
published DR1-restricted TSL epitope carried the expected DR11 or DR1
allele, implying that these EBNA1 peptides can also be presented by
other restriction elements; such promiscuity is well documented for
CD4+ epitopes in various systems (10,
17). We also stress that in Tables 1 to 3, in cases where there
are no functional studies on epitope-specific clones, potential DR or
DQ restriction elements are listed for reference purposes only. The
absence of a shared DR or DQ allele among all of the responders to a
particular epitope might reflect promiscuity of the epitope or,
possibly, restriction through a shared HLA-DP allele (29).
Because there is some sequence variation at the EBNA1 locus among
Caucasian EBV strains, we extended the analysis to include variant
peptide sequences covering each of the 13 amino acid changes between
B95.8 and the other common EBNA1 allelic sequence, Q/T (16). Interestingly, this revealed EBNA1-specific
responses in three of seven EBV-seropositive donors who had not given
responses to the B95.8 peptide pools (Fig. 4; Table 1) and identified
three additional epitopes, one of which represented the variant version of the B95.8 TSL epitope and the others of which were Q/T specific (i.e., there were no examples of responses to the equivalent B95.8 peptide sequences). Of 15 epitopes recognized in the B95.8 screening assays, 5 were completely conserved in the Q/T allelic sequence and 10 were altered in one or two residues. Even in the latter cases, however,
further experiments showed that both the B95.8 and Q/T peptides were
recognized in ELISPOT assays by PBMCs from donors identified as B95.8
responders in the original screening assays. We infer that many, though
not all, CD4+ epitopes in EBNA1 are antigenically
conserved between the common EBNA1 alleles in Caucasian populations. It
is striking that all but 1 of the 17 CD4+
epitopes identified overall in EBNA1 map within a fragment of the
protein (aa 403 to 613) against which much of the humoral response
appears to be directed (9, 31); whether this is coincidental or an example of linked T- and B-cell epitopes
(15) remains to be determined. Interestingly, however, we
did not observe any CD4+-T-cell responses to
peptides from the other region of the protein recognized by the
antibody response, that is, the GAr domain (11).
A subsequent series of experiments with EBNA3C peptides also showed
evidence of responsiveness in the majority of donors tested. Arguably,
these assays underestimated the frequency of EBNA3C-specific responses,
since the screening was carried out only with 15-mer, and not 20-mer,
peptides. Our experience with EBNA1 screening indicates that at least
six of the EBNA1 epitopes were identified only by 20-mer peptide
screening and could not be mapped to component 15-mers. For these
reasons we suggest that EBNA3C may be as immunogenic as EBNA1 for
CD4+ T-helper 1 responses. Again we identified
some EBNA3C epitopes, for example, SDD, PSM, and AQE, which were
recognized by multiple donors with, in two of the three cases, a common
DR allele (Table 2). Interestingly, many of the EBNA3C epitopes
identified here lay within a fragment of the 992-aa protein (aa 376 to
668) which another recent study found to be the optimal fusion protein
fragment for eliciting CD4+-T-cell proliferation
in vitro (44). However, neither that study nor the present
work detected significant CD4+-T-cell responses
to the 13-aa repeat region of EBNA3C (aa 741 to 779) which has been
reported by others to contain a number of promiscuous overlapping
CD4+ epitopes as well as being an immunodominant
target for the antibody response (35).
The frequency of CD4+ epitope detection in EBNA1
and EBNA3C is in sharp contrast to the results from LMP1 and LMP2
peptide screens (Table 3). In the latter cases, even though the donor groups were significantly larger than for EBNA epitope screening, only
9 and 16% of donors tested gave responses, and then only to a single
LMP1 or LMP2 epitope in any one individual. These assays were conducted
using both 20-mer and 15-mer peptide pools for each antigen and so are
unlikely to have underestimated responsiveness. Furthermore, in
independent assays, the same 15-mer peptide pools were capable of
detecting CD8+-T-cell memory to LMP1 and, in
particular, to LMP2 epitopes, indicating that the hydrophobic nature of
many of these sequences was not a bar to their operation in ELISPOT
assays (P. Meij et al., unpublished data). Note that there is
some sequence polymorphism in LMP1 (42) and, although it
has been less well studied, in LMP2 (3) among Caucasian
strains. It is possible, therefore, that screening on B95.8 peptides
could have underestimated the incidence of
CD4+-T-cell responses to LMP1 and/or LMP2 in our
donors. However, we analyzed the EBV strain carried by a subset of
donors who did not respond in the LMP1 assays, amplifying the resident
LMP1 sequence across a known polymorphic region of the gene. This
showed that most such donors carried an LMP1 sequence that was close to
the B95.8 prototype (data not shown), as would be expected from the distribution of B95.8-like LMP1 alleles in earlier work on Caucasian EBV isolates (groups A and B in reference 42). Based on
these observations and on the fact that many EBNA1
CD4+ epitopes are conserved antigenically between
different viral strains, sequence variation is unlikely to explain the
low level of positive results in the LMP peptide screens. We conclude
that, in contrast to EBNA1 and EBNA3C, LMP1 and LMP2 are poorly
immunogenic for CD4+ T-helper 1 responses. These
findings contrast somewhat with those of Munz et al. (32),
who, using in vitro stimulation with B95.8 strain EBV
antigen-expressing DCs, reported proliferative and IFN-
responses to EBNA1 in 10 of 10, to LMP1 in 6 of 10, and to EBNA3C in 1 of 10 donors tested. It is possible that the differences between the
two studies reflect differences in experimental approach. However,
another possible factor is the relatively low number of donors assayed
in the earlier work (32).
We conclude from the present work that EBV latent proteins do indeed
show a marked hierarchy of immunodominance for
CD4+-T-cell responses (namely, EBNA1, EBNA3C
LMP1, LMP2) and that this is different from the hierarchy already
identified for CD8+ responses (EBNA3C > EBNA1 > LMP2
LMP1). It is also interesting that the absolute
frequency of CD4+-T-cell memory to the EBV
latent-cycle epitopes defined here seems to lie within a range of 50 to
280 IFN-
-producing cells per 106 PBMCs (values
calculated from the ELISPOT data to allow for the effect of CD8
depletion). This is noticeably lower and narrower than the
corresponding frequency range for latent epitope-specific CD8+ T cells (50 to 2,500 IFN-
-producing cells
per 106 PBMCs), again measured by ELISPOT assay
(5, 46). A similar trend is also apparent during the
primary response to EBV infection in infectious mononucleosis,
where there is a preferential amplification of
CD8+ T cells (36), the majority of
which are virus specific (7), leading to an inversion of
CD4/CD8 ratios in peripheral blood. Such observations may reflect the
fact that CD4+ T cells are predominantly
regulators of immune responses and may therefore be subject to less
expansion in vivo than are CD8+ effector populations.
We also point out that the present assays of
CD4+-T-cell responsiveness are restricted to
IFN-
release and are presumably detecting T-helper 1-like activity
of the kind thought to favor CD8+-T-cell response
induction (1). Assays of T-helper 2-associated cytokines
such as IL-4, IL-5, and IL-13, which are thought to reflect help for
humoral responses, may provide a different picture, but reports to date
leave this issue unresolved (4, 44). Nevertheless, it is
striking that the relative immunogenicity of EBV latent proteins for
CD4+ T cells seen in the present work is not too
dissimilar from immunogenicity as defined serologically. Thus, EBNA1 is
consistently recognized by sera from healthy virus carriers and EBNA3C
is less so (38, 43), whereas antibodies to the LMPs are
very rare and, even where detectable, present at very low titers
(27, 30, 41, 48), except in the special case of antibodies
to LMP2 in NPC patients (13, 27). It may be that the
hydrophobic nature of the LMPs renders these proteins less susceptible
to uptake and processing by DCs in vivo (2) and hence less
well presented to the CD4+-T-cell repertoire.
Additionally, there is evidence that LMP1 itself contains a motif which
can impair T-cell responses (12). Whatever the basis of
these differences in immunogenicity for CD4+ T
cells among the latent-cycle proteins, the fact that such differences exist has important implications for immunotherapeutic strategies. Thus, vaccines aiming to boost T-cell responses to antigens expressed in EBV-positive malignancies may well need to include appropriate CD4+ as well as CD8+
epitopes. In the context of EBV-positive malignancies such as Hodgkin's disease or NPC, LMP2 would be the preferred
CD8+ target antigen (27, 41).
However, on the basis of the present results, LMP2 seems unlikely to
serve as a reliable source of T-helper epitopes. Vaccine constructs
which include relevant EBNA1 sequences could overcome that difficulty.
 |
ACKNOWLEDGMENTS |
This work was supported by grants from the Cancer Research
Campaign and from the Medical Research Council, United Kingdom.
 |
FOOTNOTES |
*
Corresponding author. Mailing address: CRC Institute
for Cancer Studies, University of Birmingham, Medical School, Vincent Dr., Edgbaston, Birmingham B15 2TT, United Kingdom. Phone: 44-121-414 4485. Fax: 44-121-414 4486. E-mail:
A.B.Rickinson{at}Bham.ac.uk.
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Journal of Virology, September 2001, p. 8649-8659, Vol. 75, No. 18
0022-538X/01/$04.00+0 DOI: 10.1128/JVI.75.18.8649-8659.2001
Copyright © 2001, American Society for Microbiology. All rights reserved.
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