Analysis of the Conjunctival Microbiome in Patients with Atopic Keratoconjunctivitis and Healthy Individuals

Study information

Reviewed Marked as Reviewed by Chloe on 2022/03/11

study design

case-control

Citation

PMID PubMed identifier for scientific articles.

33935458

DOI Digital object identifier for electronic documents.

10.5021/ad.2021.33.2.163

URI

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8082000/

Authors

Hur MS, Lee JS, Jang M, Shin HJ, Lee YW

Journal

Annals of dermatology

Year

2021

Keywords:

Atopic keratoconjunctivitis, Atopy, Dysbiosis, Microbiota

BACKGROUND: Atopic dermatitis (AD) has been clarified that imbalance of bacterial and fungal communities in the skin and gut play key roles in immunologic dysfunction. Atopic keratoconjunctivitis (AKC), one of severe ophthalmic manifestation of AD, could be related with dysbiosis as same as AD. OBJECTIVE: In this case-control study, the roles of conjunctival microbial communities in AKC were evaluated by a comparative analysis with healthy controls (HCs). METHODS: 16S rRNA sequencing was used to construct libraries of compositional information for a total of 30 volunteers including 20 patients with AKC and 10 HCs. RESULTS: In the results, variation in the conjunctival taxonomic composition was higher in patients with AKC than in the HC group. In an analysis of relative abundance at the genus level, some taxa significantly differed between groups, including Ralstonia, Staphylococcus, Pseudomonas, Proteus, Haemophilus, and Bifidobacterium (p<0.05). Beta diversity was significantly higher in patients with AKC than in HCs (PERMANOVA, p=0.004). CONCLUSION: The results indicated that the diversity and composition of the microbiome differs between patients with AKC and HCs.

Experiment 1

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Reviewed Marked as Reviewed by Chloe on 2023-6-22

Curated date: 2023/06/21

Curator: Andre

Revision editor(s): Andre, Chloe

Subjects

Location of subjects: South Korea

Host species Species from which microbiome was sampled (if applicable): Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology: Ocular surface region Eye surface,Eye surface region,Ocular surface,Ocular surface region

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: keratoconjunctivitis keratoconjunctivitis

Group 0 name Corresponds to the control (unexposed) group for case-control studies: Healthy controls
Group 1 name Corresponds to the case (exposed) group for case-control studies: Atopic keratoconjunctivitis (AKC)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: Patients diagnosed with Atopic keratoconjunctivitis (AKC) by an ophthalmologist, and with no systemic immune-associated diseases.
Group 0 sample size Number of subjects in the control (unexposed) group: 10
Group 1 sample size Number of subjects in the case (exposed) group: 20
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): 4 weeks for systemic treatment; 2 weeks for topical treatment

Lab analysis

Sequencing type: 16S

16S variable region One or more hypervariable region(s) of the bacterial 16S gene: V3-V4

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Illumina

Statistical Analysis

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).

relative abundances

Statistical test

Mann-Whitney (Wilcoxon)

Significance threshold p-value or FDR threshold used for differential abundance testing (if any): 0.05

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness: unchanged
Richness Number of species: unchanged

Signature 1

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Reviewed Marked as Reviewed by Chloe on 2023-6-22

Curated date: 2023/06/22

Curator: Andre

Revision editor(s): Andre

Source: Table 2

Description: Relative abundance of genus composition

Abundance in Group 1: increased abundance in Atopic keratoconjunctivitis (AKC)

NCBI	Quality Control	Links
Pseudomonas
Staphylococcus
Haemophilus

Revision editor(s): Andre

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Reviewed Marked as Reviewed by Chloe on 2023-6-22

Curated date: 2023/06/22

Curator: Andre

Revision editor(s): Andre, Chloe

Source: Table 1+ 2

Description: Relative abundance of phylum and genus composition

Abundance in Group 1: decreased abundance in Atopic keratoconjunctivitis (AKC)

NCBI	Quality Control	Links
Ralstonia
Bifidobacterium
Proteus
Parcubacteria group

Revision editor(s): Andre, Chloe

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Curated date: 2023/06/23

Curator: Andre

Revision editor(s): Andre

Source: Table 1

Description: Relative abundance of phylum composition

Abundance in Group 1: decreased abundance in Atopic keratoconjunctivitis (AKC)

NCBI	Quality Control	Links
Parcubacteria group

Revision editor(s): Andre