AMR	Antimicrobial resistance
ARG	Antibiotic resistance gene
MGE	Mobile genetic element
MAG	Metagenome-assembled genome
HGT	Horizontal gene transfer
Hi-C	High-throughput chromosome conformation capture
RAS	Recirculating aquaculture system
OTC	Oxytetracycline
LAB	Lactic acid bacteria
IgT	Immunoglobulin T
pIgR	Polymeric immunoglobulin receptor
SC	Secretory component
IHNV	Infectious hematopoietic necrosis virus
MOS	Mannan oligosaccharide
SCFA	Short-chain fatty acid
RTgutGC	Rainbow trout gut epithelial cell line
CARD	Comprehensive Antibiotic Resistance Database
ARGs-OAP	Antibiotic Resistance Genes Online Analysis Pipeline
MEGARes	MEGARes antimicrobial-resistance database
DeepARG	Deep learning approach for predicting antibiotic resistance genes
HMD-ARG	Hierarchical multi-task deep learning for annotating antibiotic resistance genes
PICRUSt	Phylogenetic Investigation of Communities by Reconstruction of Unobserved States
PICRUSt2	Phylogenetic Investigation of Communities by Reconstruction of Unobserved States 2
SIAMCAT	Statistical Inference of Associations between Microbial Communities And host phenoTypes
DIABLO	Data Integration Analysis for Biomarker discovery using Latent cOmponents
MOFA	Multi-Omics Factor Analysis
RFE	Recursive feature elimination
RF	Random forest
XGBoost	Extreme Gradient Boosting