Table 2.

Factors affecting gene expression by affecting gut microbiota in zebrafish.

Factors	Zebrafish	Microbiota-related function	Gene expression	References
Vibrio sp.	CV	Innate immune response	Upregulated (tlr4, tlr5, nod1, nod2, Myd88, tnfa, tnfβ, il1β) Downregulated (tlr2, NF-κB pathway genes, JNK/AP-1 pathway genes)	Xin et al., 2020
Vibrio sp.	GF	Innate immune response	Upregulated (Myd88, tlr2, tlr5, nod1, nod2) Downregulated (NF-κB pathway genes, JNK/AP-1 pathway genes)	Xin et al., 2020
Aeromonas sp.	CV	Innate immune response	Upregulated (nod1, nod2, tnfa, tnfβ, il1β, Myd88, nfκb2, jund)	Xin et al., 2020
IMZ	Male adult	Glycolysis and lipid metabolism	Downregulated (Aco, Cpt1, Acc1, Srebp1a, Fas)	Jin et al., 2017
CAgNC	Zebrafish	Immune and mucin response	Upregulated (TNF-α, IL-10, IL-12, IRF-1, Defbl1, Lyz)	Udayangani et al., 2017
Eos	GF	Immune response	Upregulated (il1β, Claudin1, Occludin2)	Ran et al., 2016
Lactobacillus rhamnosus	Larvae	Cholesterol and triglycerides metabolism	Upregulated (fit2, agpat4, dgat2, mgll, hnf4α, scap, cck)	Falcinelli et al., 2015

NF-κB pathway genes: nfκb1, nfκb2, rela, relb, and c-rel; JNK/AP-1 pathway genes: c-fos, c-jun, jun, jund, junbb, junba, and june; CagNC, chitosan silver nanocomposites; Eos, Essential oils; tlr2, tlr4, tlr5, and nfκb2: innate immunity-related gene; nod1 and nod2: NLRs-related genes, and inflammatory cytokines; Myd88: innate immune signal transduction adaptor; NF-κB pathway genes, JNK/AP-1 pathway genes, innate immunity-related genes; tnfa, tnfβ, and il1β: TLRs-related genes; jund, JNK/AP-1 pathway genes; Aco, Cpt1, Acc1, Srebp1a, and Fas: glycolysis and lipid metabolism genes; TNF-α, IL-10, IL-12, IRF-1, Defbl1, and Lyz: immune and mucin genes; il1β, Claudin1, and Occludin2: immune response genes; fit2, agpat4, dgat2, mgll, hnf4α, scap, and cck: cholesterol and triglycerides metabolism-related gene.