# Exploring the gut microbiota-microbial metabolites-targets regulatory network in metabolic dysfunction-associated steatotic liver disease

**Authors:** Dapeng Yin, Wei Wu, Xiaojuan Wang, Junhua He, Yikun Zhu, Jin Li

PMC · DOI: 10.3389/fmolb.2026.1764479 · Frontiers in Molecular Biosciences · 2026-02-09

## TL;DR

This study explores how gut microbes and their metabolites influence liver disease through a complex network of interactions.

## Contribution

The paper identifies causal gut microbes and their metabolites linked to MASLD and constructs a regulatory network.

## Key findings

- 11 gut microbiota were causally linked to MASLD through MR analysis.
- Four core targets (ACE, HMGCR, PPARA, PPARG) were identified with potential binding to metabolites.
- MASLD mice showed marked differences in key target gene expression.

## Abstract

Metabolic dysfunction-associated steatotic liver disease (MASLD), which has emerged as a significant global public health concern. The regulatory role of gut microbiota and their metabolites in the pathogenesis of MASLD has attracted significant attention.

Mendelian randomization (MR) analysis was performed to identify gut microbiota that were causally associated with MASLD. Evaluate the metabolites derived from the microbiota and predict their targets. Obtaining overlapping targets between metabolites and MASLD. The core targets were screened by protein-protein interaction (PPI) network, and functional enrichment analysis were performed. Binding interactions between metabolites and targets are validated through molecular docking. Meanwhile, the MASLD animal model was used to verify the expression differences of the core targets. Finally, the regulatory network of gut microbiota-metabolites-targets was constructed.

We identified 11 gut microbiota causally linked to MASLD by MR analysis. And 19 kinds of microbial metabolites were obtained. Enrichment analysis revealed that the intersection targets were concentrated cholesterol metabolism, PPAR and HIF-1 signaling pathways. Four core targets were identified, including ACE, HMGCR, PPARA and PPARG. Through molecular docking simulations, we predicted that there is potential stable binding affinity between the core targets and metabolites. Notably, a marked difference expression of key target genes was identified in the MASLD mice.

Gut microbiota and microbial metabolites played an important role in the development of MASLD. This involved a multi-target and multi-pathway regulatory network, providing new evidence for the mechanism research and targeted intervention of MASLD.

## Linked entities

- **Genes:** ACE (angiotensin I converting enzyme) [NCBI Gene 1636], HMGCR (3-hydroxy-3-methylglutaryl-CoA reductase) [NCBI Gene 3156], PPARA (peroxisome proliferator activated receptor alpha) [NCBI Gene 5465], PPARG (peroxisome proliferator activated receptor gamma) [NCBI Gene 5468]
- **Diseases:** MASLD (MONDO:0013209)

## Full-text entities

- **Genes:** Dock2 (dedicator of cyto-kinesis 2) [NCBI Gene 94176] {aka CED-5, Hch, MBC}, Il6 (interleukin 6) [NCBI Gene 16193] {aka Il-6}, Ace (angiotensin I converting enzyme) [NCBI Gene 11421] {aka CD143}, IGKV5-2 (immunoglobulin kappa variable 5-2) [NCBI Gene 28907] {aka B2, IGKV52}, INS (insulin) [NCBI Gene 3630] {aka IDDM, IDDM1, IDDM2, ILPR, IRDN, MODY10}, Srebf2 (sterol regulatory element binding factor 2) [NCBI Gene 20788] {aka SREBP-2, SREBP2, SREBP2gc, bHLHd2, lop13, nuc}, Pparg (peroxisome proliferator activated receptor gamma) [NCBI Gene 19016] {aka Nr1c3, PPAR-gamma, PPAR-gamma2, PPARgamma, PPARgamma2}, Ppara (peroxisome proliferator activated receptor alpha) [NCBI Gene 19013] {aka 4933429D07Rik, Nr1c1, PPAR-alpha, PPARalpha, Ppar}, Slc17a5 (solute carrier family 17 (anion/sugar transporter), member 5) [NCBI Gene 235504] {aka 4631416G20Rik, 4732491M05, AST, ISSD, NSD, SD}, Ctsb (cathepsin B) [NCBI Gene 13030] {aka APPM, CB}, Hmgcr (3-hydroxy-3-methylglutaryl-Coenzyme A reductase) [NCBI Gene 15357] {aka HMG-CoAR, Red}, AP2B1 (adaptor related protein complex 2 subunit beta 1) [NCBI Gene 163] {aka ADTB2, AP105B, AP2-BETA, CLAPB1}, Gpt (glutamic pyruvic transaminase, soluble) [NCBI Gene 76282] {aka 1300007J06Rik, 2310022B03Rik, ALT, ALT1, Gpt-1, Gpt1}, PPARG (peroxisome proliferator activated receptor gamma) [NCBI Gene 5468] {aka CIMT1, FPLD3, GLM1, NR1C3, PPARG1, PPARG2}, Gapdh (glyceraldehyde-3-phosphate dehydrogenase) [NCBI Gene 14433] {aka Gapd}, PPARA (peroxisome proliferator activated receptor alpha) [NCBI Gene 5465] {aka NR1C1, PPAR, PPAR-alpha, PPARalpha, hPPAR}, HMGCR (3-hydroxy-3-methylglutaryl-CoA reductase) [NCBI Gene 3156] {aka LDLCQ3, LGMDR28, MYPLG}
- **Diseases:** cervical dislocation (MESH:D002575), metabolic dysfunction (MESH:D008659), obesity (MESH:D009765), hepatic steatosis (MESH:D005234), liver fibrosis (MESH:D008103), Dysbiosis (MESH:D064806), non-alcoholic fatty liver disease (MESH:D065626), mitochondrial dysfunction (MESH:D028361), pain (MESH:D010146), metabolic syndrome (MESH:D024821), fibrosis (MESH:D005355), hyperlipidemia (MESH:D006949), hepatic inflammation (MESH:D007249), MASLD (MESH:D008107), chronic liver condition (MESH:D002908), DILI (MESH:D056486), type 2 diabetes (MESH:D003924), insulin resistance (MESH:D007333), Toxicity (MESH:D064420), MF (MESH:C567116), immune dysfunction (MESH:D007154), atherosclerosis (MESH:D050197), lipid metabolism disorder (MESH:D052439), death (MESH:D003643)
- **Chemicals:** cholesterol (MESH:D002784), 4-methylpentanoic acid (MESH:C034527), acetic acid (MESH:D019342), Oil red O (MESH:C011049), propionic acid (MESH:C029658), Trizol (MESH:C411644), glycogen (MESH:D006003), free fatty acids (MESH:D005230), octanol (MESH:D000442), water (MESH:D014867), TG (MESH:D014280), 2,2,2-tribromoethanol (MESH:C062527), tert-amyl alcohol (MESH:C032765), xylene (MESH:D014992), saline (MESH:D012965), paraffin (MESH:D010232), fat (MESH:D005223), OCT (MESH:C051883), SCFAs (MESH:D005232), nor-ursodeoxycholic acid (MESH:C081331), glucose (MESH:D005947), hydrogen (MESH:D006859), alcohol (MESH:D000438), acetate (MESH:D000085), Lipid (MESH:D008055), H-HT (MESH:D000077863), steroid (MESH:D013256), butyric acid (MESH:D020148), fatty acid (MESH:D005227), propionate (MESH:D011422), Valproic acid (MESH:D014635), NADP (MESH:D009249), Butyrate (MESH:D002087), hematoxylin (MESH:D006416), Valeric acid (MESH:C038780), H&amp;E (MESH:D006371), Caproic acid (MESH:C037652), MLOGP (-)
- **Species:** Sutterella (genus) [taxon 40544], Haemophilus (genus) [taxon 724], Mus musculus (house mouse, species) [taxon 10090], Homo sapiens (human, species) [taxon 9606]

## Full text

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## Figures

10 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12926106/full.md

## References

41 references — full list in the complete paper: https://tomesphere.com/paper/PMC12926106/full.md

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Source: https://tomesphere.com/paper/PMC12926106