Polyfunctional CD4+ T cell responses to a set of pathogenic arenaviruses provide broad population coverage

Kotturi, Maya F; Botten, Jason; Maybeno, Matt; Sidney, John; Glenn, Jean; Bui, Huynh-Hoa; Oseroff, Carla; Crotty, Shane; Peters, Bjoern; Grey, Howard; Altmann, Daniel M; Buchmeier, Michael J; Sette, Alessandro

doi:10.1186/1745-7580-6-4

Immunome Research

Table 1 Summary of characteristics of arenavirus-derived HLA-DRB1*0101-restricted CD4⁺ T cell epitopes.

From: Polyfunctional CD4⁺ T cell responses to a set of pathogenic arenaviruses provide broad population coverage

Epitope^a	Sequence	DRB1*0101 binding affinity (IC₅₀ nM)^b	ELISPOT (net SFC/10⁶ CD4⁺)^c	ICS (%IFN-γ⁺ CD4⁺)^d
GTOV GPC_131-145	KGSPEFDWILGWTIK	1.7	208	0.22
GTOV L_181-195	DQEYHRLIHSLSKTS	0.34	390	0.05
GTOV L_391-405	RVLDILVARRLLLKK	0.19	330	0.11
GTOV L_1826-1840	IQLVFSSMINPLVIT	0.23	163	0.04
GTOV NP_166-180	KLNNQFGSMPALTIA	0.12	122	0.05
GTOV NP_191-205	NNVVQALTSLGLLYT	0.29	97	0.05
GTOV NP_236-250	ISGYNFSLSAAVKAG	0.12	126	0.03
GTOV NP_541-555	IPIQLLPNTLVFQAK	0.25	142	0.11
JUNV GPC_46-60	FFVFLALAGRSCTEE	0.23	684	0.06
JUNV L_381-395	VGQMLMLVNDRLLDI	0.21	323	0.06
JUNV L_391-405	RLLDILEAIKLIRKK	0.48	333	0.08
JUNV L_411-425	KWVQMCSRTLKNSHQ	1.1	571	0.05
JUNV L_1491-1505	MFIRNCARKVFNDIK	2.0	425	0.11
JUNV L_1711-1725	NKNFFWAVKPKAVRQ	0.06	538	0.16
LASV GPC_236-250	PSPIGYLGLLSQRTR	0.14	497	0.07
LASV GPC_241-255	YLGLLSQRTRDIYIS	0.29	469	0.05
LASV GPC_476-490	SCGLYKQPGVPVRWK	1.5	273	0.04
LCMV GPC_421-435	LRKDYIKRQGSTPLA	4.8	268	0.16
LCMV L_256-270	RNFQKVNPEGLIKEF	5.6	217	0.07
LCMV L_946-960	HLRKVILSEISFHLV	2.1	533	0.07
LCMV NP_6-20	EVKSFQWTQALRREL	49	436	0.07
LCMV NP_521-535	MDCIIFESASKARLP	4.4	463	0.12
MACV GPC_96-110	NSFYYMKGGVNTFLI	0.21	365	0.08
MACV GPC_251-265	SKTHLNFERSLKAFF	1.7	427	0.12
MACV GPC_446-460	ASLFLHLVGIPTHRH	0.13	329	0.08
MACV L_391-405	DRVLDILEAVKLIRK	0.48	423	0.22
MACV L_636-650	RYFLMAFANQIHHID	0.24	269	0.06
MACV L_866-880	DYLILKNLTGLVSAG	0.21	322	0.13
MACV L_1491-1505	TSFIRNCARKVFNDI	0.11	400	0.07
MACV L_1711-1725	NNQNFFWAVKPKVVR	1.7	518	0.09
MACV NP_191-205	NSVVQALTSLGLLYT	0.78	176	0.06
MACV Z_21-35	PSAEFRRTAPPSLYG	2.0	313	0.16
SABV GPC_26-40	VSLIAALKGMINLWK	0.47	264	0.04
SABV GPC_436-450	FTTTLFLHLVGFPTH	0.92	1213	0.08
SABV GPC_441-455	FLHLVGFPTHRHIRG	0.09	823	0.05
WWAV GPC_46-60	FIVFLLLAGRSCSYK	1.2	701	0.10
WWAV GPC_386-400	FRNQWLLESDHLISE	1.6	517	0.39

^a Peptide position within the GPC, L, NP, or Z protein of prototypic strains of GTOV, JUNV, LASV, LCMV, MACV, SABV, and WWAV.
^b Each epitope was tested for binding to HLA-DRB1*0101.
^c Peptide tested at 10 μg/ml in IFN-γ ELISPOT assays. Criteria for positivity are net SFC/10⁶ cells ≥ 20, SI ≥ 1.4, and p-value ≤ 0.05 in two or more independent assays. Average IFN-γ responses are shown from two independent experiments.
^d Peptide tested at 3 μg/ml in IFN-γ ICS assays. The epitope-specific responses were calculated by subtracting the total number of cells that scored positive for IFN-γ⁺ production in the absence of peptide. Criterion for positivity is SI ≥ 2.0 in two or more independent assays. Average IFN-γ responses are shown from two independent experiments.

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