# Microbiome dysbiosis and therapeutic restoration in atopic dermatitis

**Authors:** Ling Zhong, Xiyuan Zhou, Jia Su, Yue Zhang, Dingding Zhang, Huiying Wan

PMC · DOI: 10.3389/fcimb.2026.1693905 · Frontiers in Cellular and Infection Microbiology · 2026-02-13

## TL;DR

This paper reviews how skin microbiome imbalances contribute to atopic dermatitis and explores new treatments targeting these imbalances.

## Contribution

The paper introduces the potential of microbiome-targeted therapies, including bacteriotherapy and phage therapy, for treating atopic dermatitis.

## Key findings

- Microbiome dysbiosis in AD is marked by overgrowth of Staphylococcus aureus and Malassezia species.
- Host factors like reduced antimicrobial peptides and elevated skin pH promote S. aureus colonization.
- Precision phage therapy and commensal bacteria show promise for restoring skin microbiome balance.

## Abstract

Atopic dermatitis (AD) is increasingly recognized as a chronic inflammatory skin disease driven by a self-reinforcing vicious cycle involving skin barrier dysfunction, immune dysregulation, and cutaneous microbiome dysbiosis. A hallmark of this dysbiosis is the overrepresentation of pathogens like Staphylococcus aureus and Malassezia species, alongside a marked loss of microbial diversity, particularly during disease flares. This review systematically dissects the host-derived factors—such as altered lipid profiles, reduced antimicrobial peptides, and elevated skin pH—that facilitate S. aureus colonization. We further examine how bacterial virulence factors amplify type 2 inflammation and impair barrier integrity, thereby sustaining the pathological loop. We also explore the emerging roles of the skin virome, particularly the phageome, and discuss how microbiome-targeted interventions, including bacteriotherapy with commensal bacteria and precision phage therapy, offer promising avenues for ecological restoration. Finally, we argue that future research must leverage multi-omics to understand strain-specific functions, ultimately guiding the development of personalized microbiome interventions for AD.

## Linked entities

- **Diseases:** atopic dermatitis (MONDO:0004980)
- **Species:** Staphylococcus aureus (taxon 1280), Malassezia (taxon 55193)

## Full-text entities

- **Genes:** IL4 (interleukin 4) [NCBI Gene 3565] {aka BCGF-1, BCGF1, BSF-1, BSF1, IL-4}, IL13 (interleukin 13) [NCBI Gene 3596] {aka IL-13, P600}, CAMP (cathelicidin antimicrobial peptide) [NCBI Gene 820] {aka CAP-18, CAP18, CRAMP, FALL-39, FALL39, HSD26}, alpha-hemolysin [NCBI Gene 28381283], DEFB4A (defensin beta 4A) [NCBI Gene 1673] {aka BD-2, DEFB-2, DEFB102, DEFB2, DEFB4, HBD-2}, AHR (aryl hydrocarbon receptor) [NCBI Gene 196] {aka FVH3, RP85, bHLHe76}
- **Diseases:** Immune dysregulation (OMIM:614878), epidermal hyperplasia (MESH:D006965), acne (MESH:D000152), erythema (MESH:D004890), AD (MESH:D003876), inflammatory skin disorders (MESH:D012868), colonization (MESH:D003108), CoNS (MESH:D013203), chronic (MESH:D002908), acute and chronic bacterial infections (MESH:D011472), proinflammatory cytokines (MESH:D000080424), skin dryness (MESH:D014987), IBD (MESH:D015212), papules (MESH:D000169), Crohn's disease (MESH:D003424), infection (MESH:D007239), colitis (MESH:D003092), cytotoxic (MESH:D064420), epidermal (MESH:D004814), Eczema (MESH:D004485), psoriasis (MESH:D011565), pruritus (MESH:D011537), Cutaneous Malassezia (MESH:D014010), eczematous lesions (MESH:D017443), dysbiosis (MESH:D064806), cutaneous inflammation (MESH:D007249), sleep disturbances (MESH:D012893), skin injury (MESH:D000069836), inflammatory skin lesions (MESH:D012871)
- **Chemicals:** lysine (MESH:D008239), Tween 20 (MESH:D011136), tryptophan (MESH:D014364), manganese (MESH:D008345), indole (MESH:C030374), SCFAs (MESH:D005232), ROS (MESH:D017382), prebiotics (MESH:D056692), lipid (MESH:D008055), butyrate (MESH:D002087), propionate (MESH:D011422), fatty acid (MESH:D005227), SEG (-), sphingomyelin (MESH:D013109), methicillin (MESH:D008712), cholesterol (MESH:D002784), ceramides (MESH:D002518), Phenol (MESH:D019800), free fatty acids (MESH:D005230), polysaccharides (MESH:D011134), esters (MESH:D004952), histamine (MESH:D006632), C6H (MESH:C093821), AMP (MESH:D000089882), zinc (MESH:D015032)
- **Species:** Symbiodinium sp. Ha9 (isolate) [taxon 330107], Bacteriophage sp. (species) [taxon 38018], Finegoldia magna (species) [taxon 1260], Staphylococcus aureus (species) [taxon 1280], Ligilactobacillus salivarius (species) [taxon 1624], Bacteria Latreille et al. 1825 (Bacteria stick insect, genus) [taxon 629395], Cutibacterium (genus) [taxon 1912216], Staphylococcus epidermidis (species) [taxon 1282], Homo sapiens (human, species) [taxon 9606], Polyomavirus sp. (species) [taxon 36362], Staphylococcus lugdunensis (species) [taxon 28035], Corynebacterium (genus) [taxon 1716], Lactobacillus acidophilus (species) [taxon 1579], Peptoniphilus (genus) [taxon 162289], Fungi (kingdom) [taxon 4751], Prevotella (genus) [taxon 838], Mus musculus (house mouse, species) [taxon 10090], Malassezia sympodialis (species) [taxon 76777], Trabulsiella (genus) [taxon 158851], Pseudomonas aeruginosa (species) [taxon 287], Lacticaseibacillus rhamnosus (species) [taxon 47715], Human papillomavirus (species) [taxon 10566], Malassezia restricta (species) [taxon 76775], Saccharomyces cerevisiae (baker's yeast, species) [taxon 4932], Malassezia globosa (species) [taxon 76773], Staphylococcus hominis (species) [taxon 1290], Roseomonas (genus) [taxon 125216], Vitreoscilla filiformis (species) [taxon 63], Cutibacterium acnes (species) [taxon 1747], Escherichia coli (E. coli, species) [taxon 562]
- **Mutations:** R753Q

## Full text

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## Figures

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## References

191 references — full list in the complete paper: https://tomesphere.com/paper/PMC12945776/full.md

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Source: https://tomesphere.com/paper/PMC12945776