Structural changes in the gut microbiome of constipated patients/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2025-3-21
Subjects
- Location of subjects
- 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
- Constipation Constipation,Costiveness,Dyschezia,constipation
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Constipation
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients diagnosed with constipation based on clinical guidelines
- Group 0 sample size Number of subjects in the control (unexposed) group
- 14
- Group 1 sample size Number of subjects in the case (exposed) group
- 8
- 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
- V4-V5
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Roche454
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)
- T-Test
- 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
- increased
- Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
- unchanged
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2025-3-21
Source: Table 2, Table 3, Figure 3, Figure 4, Figure 5
Description: Abundant taxa in the gut microbiome of the constipated patients and controls
Abundance in Group 1: increased abundance in Constipation
| NCBI | Quality Control | Links |
|---|---|---|
| Anaerotruncus | ||
| Blautia | ||
| Clostridium | ||
| Coprococcus | ||
| Lachnospiraceae | ||
| Ruminococcus | ||
| Oscillospiraceae |
Revision editor(s): Anne-mariesharp
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2025-3-21
Source: Table 2, Table 3, Figure 3, Figure 4, Figure 5
Description: Abundant taxa in the gut microbiome of the constipated patients and controls
Abundance in Group 1: decreased abundance in Constipation
| NCBI | Quality Control | Links |
|---|---|---|
| Prevotella | ||
| Prevotellaceae | ||
| Bacteroidota |
Revision editor(s): Anne-mariesharp
