# The Gut Microbiome in the IgE-Mediated Food-Allergic Patient—A Narrative Review

**Authors:** Neel Singh, Erin Hosein, Yamini V. Virkud, Corinne Keet, Michael Kulis

PMC · DOI: 10.3390/nu18040593 · 2026-02-11

## TL;DR

This review discusses how gut microbes might influence food allergies and explores new treatments like probiotics and fecal transplants.

## Contribution

The paper highlights novel microbiome-based strategies and their potential integration with existing food allergy therapies.

## Key findings

- The gut microbiome may influence oral tolerance to food antigens.
- Probiotics and fecal microbiota transplantation show potential as adjuvants to food allergy treatments.
- Standardized protocols for microbiome-based therapies are needed for clinical adoption.

## Abstract

Food allergies (FA) are a major public health concern in both children and adults. Immunoglobulin E (IgE)-mediated FA is characterized by allergic reactions driven by allergen-specific IgE and the subsequent degranulation of mast cells and basophils. Current FA management primarily involves avoidance of allergen-containing food, and more recently, therapies such as oral immunotherapy (OIT), sublingual immunotherapy (SLIT), and the anti-IgE biologic omalizumab. However, these interventions are not curative. The gut microbiome has been implicated in the development and regulation of oral tolerance to food antigens. This narrative review explores the role of probiotics, fecal microbiota transplantation (FMT), dietary interventions, and the interaction between the microbiome and OIT as potential strategies to manage established FA. We also explore barriers to their proliferation as part of regular clinical care. We conclude that future research should (1) address how the microbiome interacts with immunotherapies other than OIT, (2) explore the role of novel microbiome-based treatments like FMT as potential adjuvants to existing food allergy therapeutics, and (3) focus on developing standardized protocols and endpoints for microbiome-based therapeutics.

## Full-text entities

- **Genes:** Mucin [NCBI Gene 100508689], RETNLB (resistin like beta) [NCBI Gene 84666] {aka FIZZ1, FIZZ2, HXCP2, RELM-beta, RELMb, RELMbeta}, IL4 (interleukin 4) [NCBI Gene 3565] {aka BCGF-1, BCGF1, BSF-1, BSF1, IL-4}, TSLP (thymic stromal lymphopoietin) [NCBI Gene 85480], IL33 (interleukin 33) [NCBI Gene 90865] {aka C9orf26, DVS27, IL1F11, NF-HEV, NFEHEV}, HCAR2 (hydroxycarboxylic acid receptor 2) [NCBI Gene 338442] {aka GPR109A, HCA2, HM74a, HM74b, NIACR1, PUMAG}, IFNG (interferon gamma) [NCBI Gene 3458] {aka IFG, IFI, IMD69}, Ifng (interferon gamma) [NCBI Gene 15978] {aka IFN-g, If2f, Ifg}, FOXP3 (forkhead box P3) [NCBI Gene 50943] {aka AIID, DIETER, IPEX, JM2, PIDX, XPID}, IL25 (interleukin 25) [NCBI Gene 64806] {aka IL17E}, IL5 (interleukin 5) [NCBI Gene 3567] {aka EDF, IL-5, TRF}, Stat3 (signal transducer and activator of transcription 3) [NCBI Gene 20848] {aka 1110034C02Rik, Aprf}, IL13 (interleukin 13) [NCBI Gene 3596] {aka IL-13, P600}, AHR (aryl hydrocarbon receptor) [NCBI Gene 196] {aka FVH3, RP85, bHLHe76}, Il13 (interleukin 13) [NCBI Gene 16163] {aka Il-13}, IL1B (interleukin 1 beta) [NCBI Gene 3553] {aka IL-1, IL1-BETA, IL1F2, IL1beta}, Il4 (interleukin 4) [NCBI Gene 16189] {aka BSF-1, Il-4}, H2 (histocompatibility-2, MHC) [NCBI Gene 111364] {aka H-2, MHC-II}, TGFB1 (transforming growth factor beta 1) [NCBI Gene 7040] {aka CAEND1, CED, DPD1, IBDIMDE, LAP, TGF-beta1}, HDAC9 (histone deacetylase 9) [NCBI Gene 9734] {aka HD7, HD7b, HD9, HDAC, HDAC7B, HDAC9B}, FFAR2 (free fatty acid receptor 2) [NCBI Gene 2867] {aka FFA2R, GPR43}, Il5 (interleukin 5) [NCBI Gene 16191] {aka Il-5}, IL10 (interleukin 10) [NCBI Gene 3586] {aka CSIF, GVHDS, IL-10, IL10A, TGIF}, IGHE (immunoglobulin heavy constant epsilon) [NCBI Gene 3497] {aka IgE}, IL22 (interleukin 22) [NCBI Gene 50616] {aka IL-21, IL-22, IL-D110, IL-TIF, ILTIF, TIFIL-23}, MUC2 (mucin 2, oligomeric mucus/gel-forming) [NCBI Gene 4583] {aka MLP, MUC-2, SMUC}, ITGAE (integrin subunit alpha E) [NCBI Gene 3682] {aka CD103, HUMINAE}, Tnf (tumor necrosis factor) [NCBI Gene 21926] {aka DIF, TNF-a, TNF-alpha, TNFSF2, TNFalpha, Tnfa}, IL23A (interleukin 23 subunit alpha) [NCBI Gene 51561] {aka IL-23, IL-23A, IL23P19, P19, SGRF}
- **Diseases:** sepsis (MESH:D018805), anaphylaxis (MESH:D000707), vomiting (MESH:D014839), FAs (MESH:C535950), ulcerative colitis (MESH:D003093), itching (MESH:D011537), atopic dermatitis (MESH:D003876), allergic (MESH:D004342), OIT (MESH:D020820), PPOIT (MESH:D021183), nausea (MESH:D009325), SU (MESH:C567934), gastrointestinal mucormycosis (MESH:D009091), FA (MESH:D005512), egg allergy (MESH:D021181), abdominal pain (MESH:D015746), gastrointestinal upset (MESH:D005767), Dysbiosis (MESH:D064806), CMA (MESH:D016269), colitis (MESH:D003092), Saccharomyces infections (MESH:D007239), death (MESH:D003643), eosinophilic esophagitis (MESH:D057765), injury to (MESH:D014947), Clostridioides difficile colitis (MESH:D003015), inflammation (MESH:D007249), gastrointestinal symptoms (MESH:D012817)
- **Chemicals:** SCFA (MESH:D005232), omalizumab (MESH:D000069444), Neomycin (MESH:D009355), AMPs (MESH:C014308), Urocanic acid (MESH:D014560), indole (MESH:C030374), tryptophan (MESH:D014364), acetate (MESH:D000085), lysophosphatidylcholines (MESH:D008244), vitamin A (MESH:D014801), indoles (MESH:D007211), Vancomycin (MESH:D014640), lipopolysaccharide (MESH:D008070), lipid (MESH:D008055), AGEs (MESH:D017127), glycolithocholate (MESH:C027746), epinephrine (MESH:D004837), fatty acids (MESH:D005227), Acylcarnitine (MESH:C116917), Lithocholate (MESH:D008095), propionate (MESH:D011422), monosaccharides (MESH:D009005), chenodeoxycholate (MESH:D002635), pseudouridine (MESH:D011560), prostaglandins (MESH:D011453), L-histidine (MESH:D006639), amino acid (MESH:D000596), Butyrate (MESH:D002087), leukotrienes (MESH:D015289), bilirubin (MESH:D001663), uridine (MESH:D014529), Trigonelline (MESH:C009560), PUFA (MESH:D005231), AMP (MESH:D000089882), histamine (MESH:D006632), Bile acid (MESH:D001647), MTT (-), Succinic acid (MESH:D019802)
- **Species:** Clostridia (class) [taxon 186801], gut metagenome (species) [taxon 749906], Arachis hypogaea (goober, species) [taxon 3818], Lacticaseibacillus paracasei (species) [taxon 1597], Romboutsia ilealis (species) [taxon 1115758], Bos taurus (bovine, species) [taxon 9913], Romboutsia timonensis (species) [taxon 1776391], Parabacteroides distasonis (species) [taxon 823], Bacillota (clostridial firmicutes, phylum) [taxon 1239], Clostridium sp. (species) [taxon 1506], Bifidobacterium (genus) [taxon 1678], Homo sapiens (human, species) [taxon 9606], Lacticaseibacillus rhamnosus (species) [taxon 47715], Lacticaseibacillus rhamnosus GG (strain) [taxon 568703], Bacteroides (genus) [taxon 816], Mus musculus (house mouse, species) [taxon 10090], Alistipes (genus) [taxon 239759], Lacticaseibacillus casei (species) [taxon 1582], Fusicatenibacter saccharivorans (species) [taxon 1150298], Escherichia coli (E. coli, species) [taxon 562], Rhizopus (genus) [taxon 4842], Akkermansia muciniphila (species) [taxon 239935]
- **Cell lines:** Caco-2 — Homo sapiens (Human), Colon adenocarcinoma, Cancer cell line (CVCL_0025)

## Figures

1 figure with captions in the complete paper: https://tomesphere.com/paper/PMC12943536/full.md

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Source: https://tomesphere.com/paper/PMC12943536