AIEC	adherent invasive E. coli
AMP	antimicrobial protein
APC	antigen-presenting cell
AP-1	activator protein 1
ATF-2	activating transcription factor 2
CD	Crohn’s disease
CO	carbon monoxide
COX-2	cyclooxygenase-2
CREB	ATF/cyclic AMP-response element-binding
DC	dendritic cell
eNOS	endothelial nitric oxide synthase
ELK-2	ETS domain-containing protein 2
ERK	extracellular signal-regulated kinases
FITC	fluorescein isothiocyanate
GRO-α	growth-regulated oncogene-alpha
H&E	hematoxylin and eosin
HO-1	heme oxygenase-1
HUVEC	human umbilical vein endothelial cells
IBD	inflammatory bowel disease
ICAM	intercellular adhesion molecule
IDO	indoleamine 2,3-dioxygenase
IEC	intestinal epithelial cell
IEL	intraepithelial lymphocyte
IFN-γ	interferon-gamma
IKK	IκB kinase
IL	interleukin
ILC	innate lymphoid cell
IL-1Ra	IL-1 receptor antagonist
iNOS	inducible nitric oxide synthase
IRAK-M	interleukin-1 receptor-associated kinase-M
JNK	jun N-terminal kinases
LFA	lymphocyte function-associated antigen
LPS	lipopolysaccharide
M	microfold
Mac-1	macrophage 1 antigen
MAPK	mitogen-activated protein kinase
MCP	monocyte chemoattractant protein
MD	myeloid differentiation protein
MDA	malondialdehyde
MDPI	Multidisciplinary Digital Publishing Institute
MHC	major histocompatibility class
MIP	macrophage inflammatory protein
MKP-1	mitogen-activated protein kinase phosphatase 1
MMP	matrix metalloproteinase
MPO	myeloperoxidase
mTOR	mammalian target of rapamycin
MyD88	myeloid differentiation factor 88
MUC	mucin
NEC	necrotizing enterocolitis
NEMO	NF-κB essential modulator
NF-κB	nuclear factor-kappaB
NO	nitric oxide
Nrf2	nuclear factor (erythroid-derived 2)-related factor
ns	not significant
Nur-77	nerve growth factor 1B
PAF	platelet-activating factor
PGE2	prostaglandin E2
PRR	pattern-recognition receptor
RA	retinoic acid
RIP	receptor-interacting protein
RNS	reactive nitrogen species
ROS	reactive oxygen species
SARM	selective androgen receptor modulator
SCFA	short chain fatty acid
SEM	standard error of mean
SHIP	inositol polyphosphate 5′-phosphatase D
SMAD7	mothers against decapentaplegic homolog 7
SOD	superoxide dismutase
TAB	TAK1-binding
TAK	transforming growth factor-beta-activated kinase
TBK	TANK-binding kinase
TEER	transepithelial electrical resistance
TGF-β	transforming growth factor-beta
Th	T helper
TIMP	tissue inhibitor of metalloproteinase
TIRAP	toll/interleukin-1 receptor domain-containing adaptor protein
TLR	toll-like receptor
TNBS	trinitrobenzene sulfonic acid
TNF-α	tumor necrosis factor-alpha
TRAF	TNF receptor-associated factor
TRAM	translocation associated membrane
Treg	regulatory T cell
TRIF	TIR-domain-containing adaptor protein inducing interferon-β
TSLP	thymic stromal lymphopoietin
UC	ulcerative colitis
VCAM	vascular cell adhesion molecule
VEGF-C	vascular endothelial growth factor-C
VLA	very late antigen