Altered Gut Microbiota Composition Associated with Eczema in Infants/Experiment 1

From BugSigDB


Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/5

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): Claregrieve1, 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
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
Eczema Eczema,eczema
Group 0 name Corresponds to the control (unexposed) group for case-control studies
healthy control infants
Group 1 name Corresponds to the case (exposed) group for case-control studies
infants with eczema
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
infants with eczema
Group 0 sample size Number of subjects in the control (unexposed) group
51
Group 1 sample size Number of subjects in the case (exposed) group
50

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
Roche454

Statistical Analysis

Statistical test
Metastats
Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
0.00001
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
Chao1 Abundance-based estimator of species richness
unchanged
Simpson Estimator of species richness and species evenness: more weight on species evenness
unchanged
Richness Number of species
unchanged

Signature 1

Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/5

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): Fatima, Claregrieve1, WikiWorks

Source: Table 3, Supplemental Table S2, Supplemental Table S3

Description: Differentially abdundant species in the gut of infants with and without eczema

Abundance in Group 1: increased abundance in infants with eczema

NCBI Quality ControlLinks
Akkermansia
Akkermansia muciniphila
Anaerostipes
Archaea
Bacteroides clarus
Bilophila
Coprococcus
Cronobacter sakazakii
Desulfobacteraceae
Desulfovibrio
Enterobacter
Faecalibacterium
Faecalibacterium prausnitzii
Flavonifractor
Gemmiger
Gemmiger formicilis
Lachnospiraceae
Oscillospiraceae
Paenibacillaceae
Paenibacillus
Parabacteroides
Parabacteroides merdae
Paraprevotella
Phascolarctobacterium
Phocaeicola plebeius
Porphyromonadaceae
Porphyromonas
Segatella buccae
Rhizobiaceae
Rhizobium
Roseburia
Veillonella
Verrucomicrobiaceae
Mediterraneibacter gnavus
Lachnospiraceae incertae sedis
Escherichia
Shigella
Clostridium

Revision editor(s): Fatima, Claregrieve1, WikiWorks

Signature 2

Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/5

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): Fatima, Claregrieve1, WikiWorks

Source: Table 3, Supplemental Table S2, Supplemental Table S3

Description: Differentially abundant species in the gut of infants with and without eczema

Abundance in Group 1: decreased abundance in infants with eczema

NCBI Quality ControlLinks
Acidaminococcaceae
Acidaminococcus
Allisonella
Anaeroglobus
Anaerotruncus
Bacteroides fragilis
Bifidobacteriaceae
Bifidobacterium
Bifidobacterium bifidum
Bifidobacterium longum subsp. longum
Brachybacterium
Brevibacteriaceae
Brevibacterium
Butyricicoccus
Carnobacteriaceae
Clostridiaceae
Clostridium
Collinsella
Coriobacteriaceae
Corynebacteriaceae
Corynebacterium
Dermabacteraceae
Dialister
Dorea
Eikenella
Erysipelotrichaceae
Erysipelotrichia
Granulicatella
Haemophilus
Holdemanella biformis
Klebsiella
Lactobacillaceae
Lactobacillus
Megasphaera
Oscillibacter
Pasteurellaceae
Peptostreptococcaceae
Prevotella
Prevotellaceae
Ruminococcus
Staphylococcaceae
Streptococcaceae
Streptococcus
Streptococcus salivarius
Sutterella
Turicibacter
Veillonellaceae
Erysipelotrichaceae incertae sedis

Revision editor(s): Fatima, Claregrieve1, WikiWorks