Characterization of the gut microbiota of Papua New Guineans using reverse transcription quantitative PCR/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Fatima on 2022/08/9
Curated date: 2022/07/15
Curator: Kaluifeanyi101
Revision editor(s): Kaluifeanyi101, Claregrieve1, Victoria
Subjects
- Location of subjects
- Papua New Guinea
- 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
- Socioeconomic status class,Socioeconomic status,socioeconomic status,socioeconomic factors
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- High SES (low land region)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Low SES (high land region)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Participants living a subsistence lifestyle in the high-land rural areas of Papua New Guinea
- Group 0 sample size Number of subjects in the control (unexposed) group
- 29
- Group 1 sample size Number of subjects in the case (exposed) group
- 86
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- Not specified
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- RT-qPCR
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
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age, sex
Signature 1
Reviewed Marked as Reviewed by Fatima on 2022/08/9
Source: Table 4
Description: Comparison of population numbers of selected microbial groups in the highland and lowland study participants.
Abundance in Group 1: increased abundance in Low SES (high land region)
| NCBI | Quality Control | Links |
|---|---|---|
| Actinomycetota | ||
| Bacteroidota | ||
| Enterobacteriaceae | ||
| Bacillota | ||
| Lactobacillus |
Revision editor(s): Kaluifeanyi101, Claregrieve1
