IBD	Inflammatory Bowel Disease
UC	Ulcerative Colitis
CD	Crohn’s Disease
FMT	Fecal Microbiota Transplantation
MAP	Mycobacterium avium subspecies paratuberculosis
IRR	Incidence Rate Ratio
CI	Confidence Interval
OR	Odds Ratio
GI	Gastrointestinal
HR	Hazard Ratio
SCFA/SCFAs	Short-Chain Fatty Acid(s)
ARG/ARGs	Antibiotic Resistance Gene(s)
ESBL/ESBLs	Extended-Spectrum β-Lactamase(s)
CDI	Clostridioides difficile Infection
UTIs	Urinary Tract Infections
PCP	Pneumocystis Pneumonia
HSCT	Hematopoietic Stem Cell Transplant(ation)
AIEC	Adherent-Invasive Escherichia coli
ETBF	Enterotoxigenic Bacteroides fragilis
BFT	Bacteroides fragilis Toxin
LPS	Lipopolysaccharide
MAMPs	Microbe-Associated Molecular Patterns
TLRs	Toll-Like Receptors
NOD2	Nucleotide-Binding Oligomerization Domain-Containing Protein 2
MLCK	Myosin Light Chain Kinase
ZO-1	Zonula Occludens-1
TNF-α	Tumor Necrosis Factor-α
IFN-γ	Interferon-γ
NF-κB	Nuclear Factor κB
IL-6	Interleukin-6
IL-10	Interleukin-10
IL-23	Interleukin-23
IP-10	Interferon Gamma-Induced Protein 10
TGF-β	Transforming Growth Factor-β
MMPs	Matrix Metalloproteinases
SYN-004	Ribaxamase (investigational β-lactamase)
VSL#3	Commercial multi-strain probiotic formulation