3D	Three-dimensional
ApoER2	Low density lipoprotein receptor-related protein 8
BAX	BCL-2-like protein 4
BCL-2	B-cell lymphoma 2
BHK-21	Baby hamster kidney fibroblast cells
CD137	TNF receptor superfamily member 9
CD4+ T cells	T helper lymphocytes
CD8+ T cells	Cytotoxic T lymphocytes
CHIKV	Chikungunya virus
CNS	Central nervous system
DIs	Defective interfering particles
dLNs	Draining lymph nodes
DPI	Days post-infection
DVGs	Defective viral genomes
E1-3	Envelope glycoproteins 1-3
EEEV	Eastern equine encephalitis virus
eIF3k	Eukaryotic translation initiation factor 3 subunit K
FDCs	Follicular dendritic cells
GC	Germinal center
HIV-1	Human immunodeficiency virus
IFN-I	Type I interferon
IFN-III	Type III interferon
IFNα	Interferon alpha
IFNAR1	Interferon alpha/beta receptor
iNOS	Inducible nitric oxide synthase
iPSCs	Induced pluripotent stem cells
IRF5	Interferon regulatory factor 5
ISG	Interferon-stimulated gene
JAK	Janus kinase
kb	Kilobase
LDLRAD3	Low density lipoprotein receptor class A domain-containing protein 3
Mavs−/−	Deficient in mitochondrial antiviral signaling protein
MAVS	Mitochondrial antiviral signaling protein
MAYV	Mayaro virus
MDA5	Melanoma differentiation-associated protein 5
MDMs	Monocyte-derived macrophages
MEFs	Mouse embryonic fibroblasts
MHC-I	Major histocompatibility complex class I
MHC-II	Major histocompatibility complex class II
MXRA8	Matrix remodeling associated 8
MyD88	Myeloid differentiation primary response 88
NHP	Non-human primate
NK	Natural killer
NOX2	NADPH oxidase 2
NSP1-4	Nonstructural proteins 1-4
ONNV	O’nyong-nyong virus
ORFs	Open reading frames
PCDH10	Protocadherin-10
PFU	Plaque-forming units
PRRs	Pattern-recognition receptors
Rag1−/−	Deficient in recombination activating gene 1
RIG-I	Retinoic acid-induced gene-I
RNase L	Ribonuclease L
RRV	Ross River virus
SFV	Semliki Forest virus
SINV	Sindbis virus
SPCS3	Signal peptidase complex subunit 3
+ssRNA	Positive-sense, single-stranded RNA
STAT	Signal transducers and activators of transcription
TGF-β	Transforming growth factor beta
TIM-1	T-cell immunoglobulin mucin domain-1
TLR3	Toll-like receptor 3
TLR7	Toll-like receptor 7
TNF	Tumor necrosis factor
TRIF	TIR-domain-containing adapter-inducing interferon beta
μMT	B-cell-deficient mice
VEEV	Venezuelan equine encephalitis virus
VLDL3	Very low-density lipoprotein receptor
WEEV	Western equine encephalitis virus