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
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 Control | Links |
|---|---|---|
| Butyrivibrio | ||
| Eubacteriales |
Revision editor(s): Kaluifeanyi101, Claregrieve1
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2022/12/23
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 Control | Links |
|---|---|---|
| Bacteroides thetaiotaomicron | ||
| Faecalibacterium prausnitzii |
Revision editor(s): Kaluifeanyi101, Claregrieve1
