# Precision Nutrition in Type 2 Diabetes Prevention Through Molecular Nutrigenomic and Epigenetic Modulation of Insulin Signaling and Glucose Metabolism

**Authors:** Daniel Rumui, Aida Dama, Era Gorica, Victor Samuel Halim, Apple Faith Setiawan, Xandra Christensen Tjia, Edwin Hadinata, Dante Saksono Harbuwono, Fahrul Nurkolis, Antonello Santini

PMC · DOI: 10.3390/ijms27041631 · International Journal of Molecular Sciences · 2026-02-07

## TL;DR

This review explores how precision nutrition can prevent type 2 diabetes by influencing genes and epigenetic factors related to insulin and glucose metabolism.

## Contribution

The paper synthesizes recent studies (2025–2026) on how diet modulates insulin signaling and glucose metabolism through molecular and epigenetic mechanisms.

## Key findings

- Very-low-calorie diets modulate metabolic genes like GLUT4, PDK4, CPT1, and AMPK, improving insulin sensitivity.
- High-fat and fructose diets increase proinflammatory gene expression, contributing to insulin resistance.
- Plant-based diets and targeted interventions like vitamin D and probiotics improve glycemic control through epigenetic changes.

## Abstract

Precision nutrition has emerged as a promising strategy for the prevention of type 2 diabetes mellitus (T2DM) by targeting molecular pathways underlying insulin resistance and impaired glucose metabolism. Accumulating evidence indicates that dietary patterns, caloric intake, and specific nutrients can modulate gene expression and epigenetic mechanisms involved in insulin signaling, inflammation, and energy homeostasis. This narrative review synthesizes recent human and experimental studies (2025–2026) examining how dietary components influence transcriptional and epigenetic regulation of insulin signaling and glucose metabolism in the context of T2DM prevention. A total of 29 peer-reviewed studies were included, encompassing dietary patterns, macronutrient manipulation, micronutrient and bioactive supplementation, and gene–diet interactions. Very-low-calorie diets consistently induced coordinated modulation of key metabolic genes, including downregulation of glucose transporter type 4 (GLUT4) and upregulation of PDK4, CPT1, and AMPK, reflecting a metabolic shift toward enhanced fatty acid oxidation and improved insulin sensitivity. In contrast, high-fat and fructose-rich diets promoted proinflammatory gene expression and immune activation, contributing to insulin resistance. Plant-based and vegan dietary patterns were associated with reduced epigenetic aging and improved insulin sensitivity through DNA methylation changes. Targeted interventions, including vitamin D combined with probiotics, dietary fiber, nucleotides, and trace elements such as copper, further demonstrated favorable transcriptional and epigenetic effects linked to improved glycemic control. Collectively, these findings highlight diet-driven modulation of insulin signaling and glucose metabolism at the molecular level and support nutrigenomics-guided precision nutrition as a viable preventive approach for T2DM. Integrating genetic and epigenetic insights into dietary strategies may enable more personalized and effective interventions to curb the growing global burden of type 2 diabetes.

## Linked entities

- **Genes:** SLC2A4 (solute carrier family 2 member 4) [NCBI Gene 6517], PDK4 (pyruvate dehydrogenase kinase 4) [NCBI Gene 5166], CPT1A (carnitine palmitoyltransferase 1A) [NCBI Gene 1374], PRKAA1 (protein kinase AMP-activated catalytic subunit alpha 1) [NCBI Gene 5562]
- **Diseases:** type 2 diabetes mellitus (MONDO:0005148), type 2 diabetes (MONDO:0005148)

## Full-text entities

- **Genes:** GNAS (GNAS complex locus) [NCBI Gene 2778] {aka AHO, AIMAH1, C20orf45, GNAS1, GPSA, GSA}, INS (insulin) [NCBI Gene 3630] {aka IDDM, IDDM1, IDDM2, ILPR, IRDN, MODY10}, CNTF (ciliary neurotrophic factor) [NCBI Gene 1270] {aka HCNTF}, IGF1 (insulin like growth factor 1) [NCBI Gene 3479] {aka IGF, IGF-I, IGFI, MGF}, Gpr65 (G-protein coupled receptor 65) [NCBI Gene 14744] {aka Dig1, Gpcr25, TDAG8}, CPT1A (carnitine palmitoyltransferase 1A) [NCBI Gene 1374] {aka CPT I, CPT1, CPT1-L, CPTI-L, L-CPT1}, AKT1 (AKT serine/threonine kinase 1) [NCBI Gene 207] {aka AKT, PKB, PKB-ALPHA, PRKBA, RAC, RAC-ALPHA}, TLR2 (toll like receptor 2) [NCBI Gene 7097] {aka CD282, TIL4}, TNF (tumor necrosis factor) [NCBI Gene 7124] {aka DIF, IMD127, TNF-alpha, TNFA, TNFSF2, TNLG1F}, IRS2 (insulin receptor substrate 2) [NCBI Gene 8660] {aka IRS-2}, CPT1B (carnitine palmitoyltransferase 1B) [NCBI Gene 1375] {aka CPT1-M, CPT1M, CPTI, CPTI-M, M-CPT1, MCCPT1}, IARS1 (isoleucyl-tRNA synthetase 1) [NCBI Gene 3376] {aka GRIDHH, IARS, ILERS, ILRS, IRS, PRO0785}, HK1 (hexokinase 1) [NCBI Gene 3098] {aka CNSHA5, HK, HK1-ta, HK1-tb, HK1-tc, HKD}, KLB (klotho beta) [NCBI Gene 152831] {aka BKL}, IRS1 (insulin receptor substrate 1) [NCBI Gene 3667] {aka HIRS-1}, CNTFR (ciliary neurotrophic factor receptor) [NCBI Gene 1271], MTNR1B (melatonin receptor 1B) [NCBI Gene 4544] {aka FGQTL2, MEL-1B-R, MT2}, FFAR4 (free fatty acid receptor 4) [NCBI Gene 338557] {aka BMIQ10, GPR120, GPR129, GT01, O3FAR1, OB10Q}, G6PC1 (glucose-6-phosphatase catalytic subunit 1) [NCBI Gene 2538] {aka G6PC, G6PT, G6Pase, GSD1, GSD1a}, INSR (insulin receptor) [NCBI Gene 3643] {aka CD220, HHF5}, PRKAB1 (protein kinase AMP-activated non-catalytic subunit beta 1) [NCBI Gene 5564] {aka AMPK, HAMPKb}, TCF7L2 (transcription factor 7 like 2) [NCBI Gene 6934] {aka TCF-4, TCF4}, FGF21 (fibroblast growth factor 21) [NCBI Gene 26291], PRKAA1 (protein kinase AMP-activated catalytic subunit alpha 1) [NCBI Gene 5562] {aka AMPK, AMPK alpha 1, AMPKa1}, PDK4 (pyruvate dehydrogenase kinase 4) [NCBI Gene 5166], SLC2A4 (solute carrier family 2 member 4) [NCBI Gene 6517] {aka GLUT4}, FGFR1 (fibroblast growth factor receptor 1) [NCBI Gene 2260] {aka BFGFR, CD331, CEK, ECCL, FGFBR, FGFR-1}, PPARA (peroxisome proliferator activated receptor alpha) [NCBI Gene 5465] {aka NR1C1, PPAR, PPAR-alpha, PPARalpha, hPPAR}, SLC5A2 (solute carrier family 5 member 2) [NCBI Gene 6524] {aka SGLT2}, NAGS (N-acetylglutamate synthase) [NCBI Gene 162417] {aka AGAS, ARGA}, SP1 (Sp1 transcription factor) [NCBI Gene 6667], ABHD6 (abhydrolase domain containing 6, acylglycerol lipase) [NCBI Gene 57406], GLS (glutaminase) [NCBI Gene 2744] {aka AAD20, CASGID, DEE71, EIEE71, GAC, GAM}, GLUL (glutamate-ammonia ligase) [NCBI Gene 2752] {aka DEE116, GLNS, GS, PIG43, PIG59}, PIK3CB (phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta) [NCBI Gene 5291] {aka P110BETA, PI3K, PI3KBETA, PIK3C1}, PPARG (peroxisome proliferator activated receptor gamma) [NCBI Gene 5468] {aka CIMT1, FPLD3, GLM1, NR1C3, PPARG1, PPARG2}, FTO (FTO alpha-ketoglutarate dependent dioxygenase) [NCBI Gene 79068] {aka ALKBH9, BMIQ14, GDFD, IFEX9}
- **Diseases:** Diabetes (MESH:D003920), impaired glucose metabolism (MESH:D044882), Hyperglycemia (MESH:D006943), injury to (MESH:D014947), Inflammatory (MESH:D007249), steatotic liver disease (MESH:D008107), metabolic (MESH:D008659), Obesity (MESH:D009765), weight gain (MESH:D015430), cardiovascular disease (MESH:D002318), fructose (MESH:D005633), hepatic and muscular insulin resistance (MESH:D007333), weight loss (MESH:D015431), adiposity (MESH:D018205), T2DM (MESH:D003924), beta-cell dysfunction (MESH:D007340)
- **Chemicals:** nitrogen (MESH:D009584), butter (MESH:D002079), graphene oxide (MESH:C000628730), triglycerides (MESH:D014280), Vitamin D (MESH:D014807), fat (MESH:D005223), sugars (MESH:D000073893), Copper (MESH:D003300), glutamate (MESH:D018698), blood glucose (MESH:D001786), Nucleotide (MESH:D009711), amino acid (MESH:D000596), fatty acid (MESH:D005227), carbohydrate (MESH:D002241), polyunsaturated fatty acids (MESH:D005231), monoacylglycerol (MESH:D050178), Glucose (MESH:D005947), Fructose (MESH:D005632), naringenin (MESH:C005273), lipid (MESH:D008055)
- **Species:** Mus musculus (house mouse, species) [taxon 10090], Lactobacillus (genus) [taxon 1578], Malus domestica (apple, species) [taxon 3750], Homo sapiens (human, species) [taxon 9606], Oryza sativa (Asian cultivated rice, species) [taxon 4530]
- **Mutations:** rs7903146, rs9939609, rs10830963

## Full text

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## Figures

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## References

61 references — full list in the complete paper: https://tomesphere.com/paper/PMC12940613/full.md

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Source: https://tomesphere.com/paper/PMC12940613