Imbalance of Gut Streptococcus, Clostridium, and Akkermansia Determines the Natural Course of Atopic Dermatitis in Infant

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Reviewed Marked as Reviewed by Folakunmi on 2024-2-11
study design
case-control
Citation
PMID PubMed identifier for scientific articles.
32009325
DOI Digital object identifier for electronic documents.
10.4168/aair.2020.12.2.322
URI
Authors
Park YM, Lee SY, Kang MJ, Kim BS, Lee MJ, Jung SS, Yoon JS, Cho HJ, Lee E, Yang SI, Seo JH, Kim HB, Suh DI, Shin YH, Kim KW, Ahn K, Hong SJ
Journal
Allergy, asthma & immunology research
Year
2020
Keywords:
Dermatitis, atopic, gastrointestinal microbiome, infant, metabolomics, metagenome
PURPOSE: The roles of gut microbiota on the natural course of atopic dermatitis (AD) are not yet fully understood. We investigated whether the composition and function of gut microbiota and short-chain fatty acids (SCFAs) at 6 months of age could affect the natural course of AD up to 24 months in early childhood. METHODS: Fecal samples from 132 infants were analyzed using pyrosequencing, including 84 healthy controls, 22 transient AD and 26 persistent AD subjects from the Cohort for Childhood Origin of Asthma and Allergic Diseases (COCOA) birth cohort. The functional profile of the gut microbiome was analyzed by whole-metagenome sequencing. SCFAs were measured using gas chromatography-mass spectrometry. RESULTS: Low levels of Streptococcus and high amounts of Akkermansia were evident in transient AD cases, and low Clostridium, Akkermansia and high Streptococcus were found in children with persistent AD. The relative abundance of Streptococcus positively correlated with scoring of AD (SCORAD) score, whereas that of Clostridium negatively correlated with SCORAD score. The persistent AD group showed decreased gut microbial functional genes related to oxidative phosphorylation compared with healthy controls. Butyrate and valerate levels were lower in transient AD infants compared with healthy and persistent AD infants. CONCLUSIONS: Compositions, functions and metabolites of the early gut microbiome are related to natural courses of AD in infants.

Experiment 1


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Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Peace Sandy

Subjects

Location of subjects
South Korea
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
Atopic eczema allergic,allergic dermatitis,allergic form of dermatitis,Atopic Dermatitides,Atopic Dermatitis,Atopic dermatitis,atopic dermatitis and related conditions,Atopic dermatitis and related conditions (disorder),atopic eczema,Atopic Neurodermatitides,Atopic Neurodermatitis,Atopic neurodermatitis,Besnier's prurigo,Dermatitides, Atopic,Dermatitis, Atopic,Disseminated Neurodermatitides,Disseminated Neurodermatitis,eczema,Eczema, Atopic,Eczema, Infantile,eczematous dermatitis,Infantile Eczema,Neurodermatitides, Atopic,Neurodermatitides, Disseminated,Neurodermatitis, Atopic,Neurodermatitis, Disseminated,OTHER ATOPIC DERMATITIS,Other atopic dermatitis and related conditions,Atopic eczema
Group 0 name Corresponds to the control (unexposed) group for case-control studies
healthy control
Group 1 name Corresponds to the case (exposed) group for case-control studies
infant with transient atopic dermatitis
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
infant with transient atopic dermatitis
Group 0 sample size Number of subjects in the control (unexposed) group
84
Group 1 sample size Number of subjects in the case (exposed) group
22
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
before sample collection

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
V1-V3
Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
Roche454

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
MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
No

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 2024-2-11

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Figure 2a, Text

Description: Phylum level relative abundance of gut microbiota in infants with transient atopic dermatitis (AD) and healthy controls

Abundance in Group 1: increased abundance in infant with transient atopic dermatitis

NCBI Quality ControlLinks
Actinomycetota   

Revision editor(s): WikiWorks

Signature 2

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Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Figure 2b, Text

Description: Genus level relative abundance of gut microbiota in infants with transient atopic dermatitis (AD) and healthy controls

Abundance in Group 1: increased abundance in infant with transient atopic dermatitis

NCBI Quality ControlLinks
Bifidobacterium   
Akkermansia   

Revision editor(s): WikiWorks

Experiment 2


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Curated date: 2021/01/10

Curator: WikiWorks

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Differences from previous experiment shown

Subjects

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
infants with persistent atopic dermatitis
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
infant with persistent atopic dermatitis
Group 1 sample size Number of subjects in the case (exposed) group
26

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

EditHistoryDelete
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Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Figure 2b, Text

Description: Genus level relative abundance of gut microbiota in infants with persistent atopic dermatitis (AD) and healthy controls

Abundance in Group 1: increased abundance in infants with persistent atopic dermatitis

NCBI Quality ControlLinks
Streptococcus   

Revision editor(s): WikiWorks

Signature 2

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Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Figure 2b, Text

Description: Genus level relative abundance of gut microbiota in infants with persistent atopic dermatitis (AD) and healthy controls

Abundance in Group 1: decreased abundance in infants with persistent atopic dermatitis

NCBI Quality ControlLinks
Clostridium   

Revision editor(s): WikiWorks

Experiment 3


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Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Folakunmi

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
transient atopic dermatitis
Group 0 sample size Number of subjects in the control (unexposed) group
22

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

EditHistoryDelete
Flag for review
Your review change was submitted
Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Figure 2b, Text

Description: Genus level relative abundance of gut microbiota in infants with persistent atopic dermatitis (AD) and transient atopic dermatitis

Abundance in Group 1: increased abundance in infants with persistent atopic dermatitis

NCBI Quality ControlLinks
Streptococcus   

Revision editor(s): WikiWorks

Signature 2

EditHistoryDelete
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Your review change was submitted
Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Figure 2b, Text

Description: Genus level relative abundance of gut microbiota in infants with persistent atopic dermatitis (AD) and transient atopic dermatitis

Abundance in Group 1: decreased abundance in infants with persistent atopic dermatitis

NCBI Quality ControlLinks
Akkermansia   

Revision editor(s): WikiWorks

Experiment 4


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Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Folakunmi

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
healthy controls
Group 0 sample size Number of subjects in the control (unexposed) group
84

Lab analysis

Statistical Analysis

Statistical test
LEfSe
LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
4

Alpha Diversity

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

Signature 1

EditHistoryDelete
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Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Supplemental Figure S1a

Description: LEfSe analysis of the infant gut microbiota in healthy controls and persistent AD subjects

Abundance in Group 1: increased abundance in infants with persistent atopic dermatitis

NCBI Quality ControlLinks
Bacilli   
Streptococcus   
Streptococcaceae   
Lactobacillales   
Intestinibacter   
Faecalibacterium   
Porphyromonadaceae   
Parabacteroides   
Terrisporobacter   
Romboutsia   
Granulicatella   
Aerococcaceae   
Coprobacillus   

Revision editor(s): WikiWorks

Signature 2

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Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks, Merit

Source: Supplemental Figure S1a

Description: LEfSe analysis of the infant gut microbiota in healthy controls and persistent AD subjects

Abundance in Group 1: decreased abundance in infants with persistent atopic dermatitis

NCBI Quality ControlLinks
Actinomyces   
Actinomycetaceae   
Actinomycetales   
Citrobacter   
Coprobacillus   
Eggerthella   
Enterobacter   
Kosakonia   
Pseudocitrobacter   
Raoultella   
Clostridia   
Clostridiaceae   
Clostridiales bacterium   
Clostridium   

Revision editor(s): WikiWorks, Merit

Experiment 5


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Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Folakunmi

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
transient atopic dermatitis
Group 0 sample size Number of subjects in the control (unexposed) group
22

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

EditHistoryDelete
Flag for review
Your review change was submitted
Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks, Merit, Folakunmi

Source: Supplemental Figure S1b

Description: LEfSe analysis of the infant gut microbiota in transient AD and persistent AD subjects

Abundance in Group 1: increased abundance in infants with persistent atopic dermatitis

NCBI Quality ControlLinks
Bacillota   
Coprobacillus   
Dorea   
Faecalibacterium   
Moraxellaceae   
Oscillospiraceae   
Parabacteroides   
Porphyromonadaceae   
Pseudomonadaceae   
Pseudomonadales   
Romboutsia   
Streptococcaceae   
Streptococcus   
Acinetobacter   

Revision editor(s): WikiWorks, Merit, Folakunmi

Signature 2

EditHistoryDelete
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Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks, Merit

Source: Supplemental Figure S1b

Description: LEfSe analysis of the infant gut microbiota in transient AD and persistent AD subjects

Abundance in Group 1: decreased abundance in infants with persistent atopic dermatitis

NCBI Quality ControlLinks
Akkermansia   
Enterobacter   
Kosakonia   
Raoultella   
Verrucomicrobiae   
Verrucomicrobiales   
Verrucomicrobiota   
Verrucomicrobium   

Revision editor(s): WikiWorks, Merit

Experiment 6


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Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Folakunmi

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
healthy control
Group 1 name Corresponds to the case (exposed) group for case-control studies
infant with transient atopic dermatitis
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
infant with transient atopic dermatitis
Group 0 sample size Number of subjects in the control (unexposed) group
84
Group 1 sample size Number of subjects in the case (exposed) group
22

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

EditHistoryDelete
Flag for review
Your review change was submitted
Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): Fatima, WikiWorks, Folakunmi

Source: Supplemental Figure S1c

Description: LEfSe analysis of the infant gut microbiota in healthy controls and transient AD subjects

Abundance in Group 1: increased abundance in infant with transient atopic dermatitis

NCBI Quality ControlLinks
Actinomycetota   
Bifidobacteriaceae   
Bifidobacteriales   
Bifidobacterium   

Revision editor(s): Fatima, WikiWorks, Folakunmi

Signature 2

EditHistoryDelete
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Reviewed Marked as Reviewed by Folakunmi on 2024-2-11

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Supplemental Figure S1c

Description: LEfSe analysis of the infant gut microbiota in healthy controls and transient AD subjects

Abundance in Group 1: decreased abundance in infant with transient atopic dermatitis

NCBI Quality ControlLinks
Micrococcaceae   
Rothia   
Micrococcales   

Revision editor(s): WikiWorks

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