Distinct distal gut microbiome diversity and composition in healthy children from Bangladesh and the United States/Experiment 1

From BugSigDB


Reviewed Marked as Reviewed by Claregrieve1 on 2022/11/12

Curated date: 2022/07/19

Curator: Kaluifeanyi101

Revision editor(s): Kaluifeanyi101, Claregrieve1, WikiWorks

Subjects

Location of subjects
Bangladesh
United States of America
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
Ethnic group , Socioeconomic status Ethnicity,race,Ethnic group,ethnic group,class,Socioeconomic status,socioeconomic status,socioeconomic factors
Group 0 name Corresponds to the control (unexposed) group for case-control studies
US children
Group 1 name Corresponds to the case (exposed) group for case-control studies
Bangladesh Children (Household income < $61)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Fecal specimens from 6 Bangladeshi children (ages 8–13), in low socioeconomic conditions with an average monthly income per family of,5,000 takas (the U.S. $61).
Group 0 sample size Number of subjects in the control (unexposed) group
4
Group 1 sample size Number of subjects in the case (exposed) group
6
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
3 months

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

Statistical test
ANOSIM
Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
0.1
MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
Yes
Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
age, sex

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
increased
Chao1 Abundance-based estimator of species richness
increased

Signature 1

Reviewed Marked as Reviewed by Claregrieve1 on 2022/11/12

Curated date: 2022/07/19

Curator: Kaluifeanyi101

Revision editor(s): Kaluifeanyi101, Claregrieve1

Source: Table 3

Description: Differential microbial abundance between Bangladeshi children and US children

Abundance in Group 1: increased abundance in Bangladesh Children (Household income < $61)

NCBI Quality ControlLinks
Butyrivibrio
Eubacteriales

Revision editor(s): Kaluifeanyi101, Claregrieve1

Signature 2

Reviewed Marked as Reviewed by Claregrieve1 on 2022/12/23

Curated date: 2022/07/20

Curator: Kaluifeanyi101

Revision editor(s): Kaluifeanyi101, Claregrieve1

Source: Table 3

Description: Differential microbial abundance between Bangladeshi children and US children

Abundance in Group 1: decreased abundance in Bangladesh Children (Household income < $61)

NCBI Quality ControlLinks
Bacteroides thetaiotaomicron
Faecalibacterium prausnitzii

Revision editor(s): Kaluifeanyi101, Claregrieve1