Alterations in the skin microbiome are associated with disease severity and treatment in the perioral zone of the skin of infants with atopic dermatitis/Experiment 1

From BugSigDB


Reviewed Marked as Reviewed by Folakunmi on 2024-1-11

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks

Subjects

Location of subjects
China
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
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
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
severe atopic dermatitis
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
child with severe atopic dermatitis based on eczema area and severity index (EASI) local rating method
Group 0 sample size Number of subjects in the control (unexposed) group
20
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)
1 month

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
V1-V2
Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
Illumina

Statistical Analysis

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

Chao1 Abundance-based estimator of species richness
decreased
Simpson Estimator of species richness and species evenness: more weight on species evenness
increased
Richness Number of species
decreased

Signature 1

Reviewed Marked as Reviewed by Folakunmi on 2024-1-11

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Table 2, Table 3

Description: Different genera of average relative abundance >=0.1% in healthy and severe atopic dermatitis groups

Abundance in Group 1: increased abundance in severe atopic dermatitis

NCBI Quality ControlLinks
Staphylococcus
Rhodococcus
Alloiococcus
Tepidimonas
Staphylococcus aureus
Corynebacterium simulans
Sphingomonas yabuuchiae

Revision editor(s): WikiWorks

Signature 2

Reviewed Marked as Reviewed by Folakunmi on 2024-1-11

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks, Folakunmi

Source: Table 2, Table 3

Description: Different genera of average relative abundance >=0.1% in healthy and severe atopic dermatitis groups

Abundance in Group 1: decreased abundance in severe atopic dermatitis

NCBI Quality ControlLinks
Agrobacterium
Atopobium
Hoylesella nanceiensis
Leptotrichia
Limnobacter
Porphyromonas
Prevotella
Prevotella melaninogenica
Rothia
Rothia mucilaginosa
Streptococcus
Veillonella
Granulicatella

Revision editor(s): WikiWorks, Folakunmi