A Combined Analysis of Gut and Skin Microbiota in Infants with Food Allergy and Atopic Dermatitis: A Pilot Study

Study information

Reviewed Marked as Reviewed by Folakunmi on 2023-12-26

study design

case-control

Citation

PMID PubMed identifier for scientific articles.

34063398

DOI Digital object identifier for electronic documents.

10.3390/nu13051682

URI

Authors

Łoś-Rycharska E, Gołębiewski M, Sikora M, Grzybowski T, Gorzkiewicz M, Popielarz M, Gawryjołek J, Krogulska A

Journal

Nutrients

Year

2021

Keywords:

16S rRNA sequencing, atopic dermatitis, dysbiosis, food allergy, gut, infants, microbiota, skin

The gut microbiota in patients with food allergy, and the skin microbiota in atopic dermatitis patients differ from those of healthy people. We hypothesize that relationships may exist between gut and skin microbiota in patients with allergies. The aim of this study was to determine the possible relationship between gut and skin microbiota in patients with allergies, hence simultaneous analysis of the two compartments of microbiota was performed in infants with and without allergic symptoms. Fifty-nine infants with food allergy and/or atopic dermatitis and 28 healthy children were enrolled in the study. The skin and gut microbiota were evaluated using 16S rRNA gene amplicon sequencing. No significant differences in the α-diversity of dermal or fecal microbiota were observed between allergic and non-allergic infants; however, a significant relationship was found between bacterial community structure and allergy phenotypes, especially in the fecal samples. Certain clinical conditions were associated with characteristic bacterial taxa in the skin and gut microbiota. Positive correlations were found between skin and fecal samples in the abundance of Gemella among allergic infants, and Lactobacillus and Bacteroides among healthy infants. Although infants with allergies and healthy infants demonstrate microbiota with similar α-diversity, some differences in β-diversity and bacterial species abundance can be seen, which may depend on the phenotype of the allergy. For some organisms, their abundance in skin and feces samples may be correlated, and these correlations might serve as indicators of the host's allergic state.

Experiment 1

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Reviewed Marked as Reviewed by Folakunmi on 2023-12-26

Curated date: 2023/11/02

Curator: Peace Sandy

Revision editor(s): Peace Sandy, Folakunmi

Subjects

Location of subjects: Poland

Host species Species from which microbiome was sampled. Contact us to have more species added.: Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology: Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: Food allergy Food Hypersensitivity,Food intolerance,Food allergy,food allergy

Group 0 name Corresponds to the control (unexposed) group for case-control studies: Control group

Group 1 name Corresponds to the case (exposed) group for case-control studies: Food Allergy

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: Infants with food allergy

Group 0 sample size Number of subjects in the control (unexposed) group: 28

Group 1 sample size Number of subjects in the case (exposed) group: 16

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): 1 month

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: Kruskall-Wallis

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

MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?: Yes

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 Folakunmi on 2023-12-26

Curated date: 2023/11/02

Curator: Peace Sandy

Revision editor(s): Peace Sandy

Source: Table 3 and Table 4

Description: Table 3. Differentially abundant OTUs , Table 4 Differentially represented OTUs—characteristic either for AD or FA.

Abundance in Group 1: increased abundance in Food Allergy

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Bacteroides
Veillonella dispar

Revision editor(s): Peace Sandy

Experiment 2

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Reviewed Marked as Reviewed by Folakunmi on 2023-12-26

Curated date: 2023/11/04

Curator: Peace Sandy

Revision editor(s): Peace Sandy, Folakunmi

Differences from previous experiment shown

Subjects

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology: Skin of body Entire integument,Entire skin,Integument,Integumental organ,Pelt,Skin,Skin organ,Skin of body,skin of body

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: Dermatitis inflammation of skin,inflammation of the skin,inflammation of zone of skin,inflammatory skin disease,skin inflammation,zone of skin inflammation,Dermatitis,dermatitis

Group 1 name Corresponds to the case (exposed) group for case-control studies: Atopic dermatitis

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: Infants with atopic dermatitis

Group 1 sample size Number of subjects in the case (exposed) group: 5

Lab analysis

Statistical Analysis

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 Folakunmi on 2023-12-26

Curated date: 2023/11/04

Curator: Peace Sandy

Revision editor(s): Peace Sandy, Folakunmi

Source: Table 3 and Table 4

Description: Table 3. Differentially abundant OTUs , Table 4 Differentially represented OTUs—characteristic either for AD or FA.

Abundance in Group 1: increased abundance in Atopic dermatitis

NCBI	Quality Control	Links
Acinetobacter variabilis
Parabacteroides
Stenotrophomonas maltophilia
Phocaeicola dorei

Revision editor(s): Peace Sandy, Folakunmi

Experiment 3

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Reviewed Marked as Reviewed by Folakunmi on 2023-12-26

Curated date: 2023/11/13

Curator: Peace Sandy

Revision editor(s): Peace Sandy, Folakunmi

Differences from previous experiment shown

Subjects

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology: Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: Food allergy , Dermatitis Food Hypersensitivity,Food intolerance,Food allergy,food allergy,inflammation of skin,inflammation of the skin,inflammation of zone of skin,inflammatory skin disease,skin inflammation,zone of skin inflammation,Dermatitis,dermatitis

Group 1 name Corresponds to the case (exposed) group for case-control studies: Atopic dermatitis and Food Allergy (ADFA)

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: Infants with both Atopic dermatitis and Food Allergy

Group 1 sample size Number of subjects in the case (exposed) group: 38

Lab analysis

Statistical Analysis

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 Folakunmi on 2023-12-26

Curated date: 2023/11/13

Curator: Peace Sandy

Revision editor(s): Peace Sandy, Folakunmi

Source: Table 3 and Table 4

Description: Table 3: Differentially abundant OTUs Table 4: Differentially represented OTUs—characteristic either for AD or FA

Abundance in Group 1: increased abundance in Atopic dermatitis and Food Allergy (ADFA)

NCBI	Quality Control	Links
Acinetobacter variabilis
Bacteroides
Parabacteroides
Veillonella dispar
Phocaeicola dorei

Revision editor(s): Peace Sandy, Folakunmi

Experiment 4

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Reviewed Marked as Reviewed by Folakunmi on 2023-12-26

Curated date: 2023/12/26

Curator: Folakunmi

Revision editor(s): Folakunmi

Differences from previous experiment shown

Subjects

Group 1 name Corresponds to the case (exposed) group for case-control studies: Infants with Allergy Symptoms

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: All infants with Allergy symptoms including Food Allergy, Atopic dermatitis, and both Atopic dermatitis and Food Allergy